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Click the tabs below to explore a few of our most popular applications for our suite of HALO products.


CUSTOMER PUBLICATIONS

Indica Labs’ customers perform quantitative image analysis on research areas as diverse as immuno-oncology, toxicology, metabolism, and neuroscience. Check out the latest publications from our customers with HALO image analysis software! Click the navigation bar to sort according to Application, Journal, HALO Module, and more.

TitleAuthorsYearJournalApplicationHALO ModulesProduct
Stem cell–derived CAR T cells traffic to HIV reservoirs in macaquesBarber-Axthelm IM, Barber-Axthelm V, Sze KY, Zhen A, Suryawanshi GW, Chen ISY, Zack JA, Kitchen SG, Kiem H-P, Peterson CW2021JCI InsightImmunology, Infectious DiseaseArea QuantificationHALO
IL-1-driven stromal-neutrophil interaction in deep ulcers defines a pathotype of therapy non-responsive inflammatory bowel disease Friedrich M, Pohin M, Jackson MA, Korsunsky I, Bullers S, Rue-Albrecht K, Christoforidou Z, Sathananthan D, Ravindran R, Peres RS, Sharpe H, Wei K, Watts GFM, Mann EH, Geremia A, Thomas T, Attar M, Oxford IBD Cohort Investigators, Roche Fibroblast Network Consortium, McCuaig S, Thomas L, Collantes E, Uhlig HH, Sansom S, Easton A, Raychaudhuri S, Travis SP, Powrie FM2021bioRxivImmunologyCytonuclearHALO
Highly Fermentable Fiber Alters Fecal Microbiota and Mitigates Swine Dysentery Induced by Brachyspira hyodysenteriaeHelm ET, Gabler NK, Burrough ER2021AnimalsInfectious DiseaseCytonuclearHALO
Vascular endothelial ERp72 is involved in the inflammatory response in a rat model of skeletal muscle injuryKhalaf NB, Al-Mehatab D, Fathallah DM2021Medicine ReportsImmunologyCytonuclearHALO
Lipid Source and Peroxidation Status Alter Immune Cell Recruitment in Broiler Chicken Ileum Fries-Craft KA, Meyer MM, Lindblom SC, Kerr BJ, Bobeck EA2021The Journal of NutritionImmunologyISH/FISHHALO
Frontotemporal lobar degeneration proteinopathies have disparate microscopic patterns of white and grey matter pathologyGiannini LAA, Peterson C, Ohm D, Xie SX, McMillan CT, Raskovsky K, Massimo L, Suh E, Van Deerlin VM, Wolk DA, Trojanowski JQ, Lee EB, Grossman M, Irwin DJ2021Acta Neuropathologica CommunicationsNeuroscienceArea QuantificationHALO
Fasting reverses drug-resistance in hepatocellular carcinoma through p53-dependent metabolic synergismKrstic J, Reinisch I, Schindlmaier K, Galhuber M, Berger N, Kupper N, Moyschewitz E, Auer M, Michenthaler H, Nössing C, Depaoli MR, Ramadani-Muja J, Stryeck S, Pichler M, Rinner B, Deutsch AJA, Reinisch A, Madl T, Chiozzi RZ, Heck AJR, Huch M, Malli R, Prokesch A2021bioRxivOncologyClassifier, CytonuclearHALO
Recruitment of KRAS downstream target ARL4C to membrane protrusions accelerates pancreatic cancer cell invasionHarada A, Matsumoto S, Yasumizu Y, Akama T, Eguchi H, Kikuchi A2021bioRxivOncologyArea QuantificationHALO
Potential role of M2 TAMs around lymphatic vessels during lymphatic invasion in papillary thyroid carcinomaKabasawa T, Ohe R, Aung NY, Urano Y, Kitaoka T, Tamazawa N, Utsunomiya A, Yamakawa M2021Scientific ReportsOncologyArea QuantificationHALO
Amylin deposition activates HIF1? and 6-phosphofructo-2-kinase/fructose-2, 6-biphosphatase 3 (PFKFB3) signaling in failing hearts of non-human primatesLiu M, Li N, Qu C, Gao Y, Wu L, Hu LG2021Communications BiologyMetabolismArea Quantification, CytonuclearHALO
BMP pathway antagonism by Grem1 regulates epithelial
cell fate in intestinal regeneration
Koppens MAJ, Davis H, Valbuena GN, Mulholland EJ, Nasreddin N, Colombe M, Antanaviciute A, Biswas S, Friedrich M, Lee L, Oxford IBD cohort investigators, Wang LM, Koelzer VH, East JE, Simmons A, Winton DJ, Leedham SJ2021bioRxivGastroenterologyArea QuantificationHALO
A distinct repertoire of cancer-associated fibroblasts is enriched in cribriform prostate cancerHesterberg AB, Rios BL, Wolf EM, Tubbs C, Wong HY, Schaffer KR, Lotan TL, Giannico GA, Gordetsky JB, Hurley PJ2021Journal of Pathology:Clinical ResearchOncologyClassifier, ISH/FISHHALO
Dystrophic microglia are associated with neurodegenerative disease and not healthy aging in the human brainShahidehpour RK, Higdon RE, Crawford NG, Neltner JH, Ighodaro ET, Patel E, Price D, Nelson PT, Bachstetter AD2021Neurobiology of AgingNeuroscienceArea QuantificationHALO
Inhibition of Hedgehog signaling alters fibroblast composition in pancreatic cancer Steele NG, Biffi G, Kemp SB, Zhang Y, Drouillard D, Syu L-J, Hao Y, Oni TE, Brosnan E, Elyada E, Doshi A, Hansma C, Espinoza C, Abbas A, The S, Irizarry-Negron VM, Halbrook CJ, Franks N, Hoffman M, Brown KL, Carpenter ES, Nwosu ZC, Johnson C, Lima F, Anderson MA, Park Y, Crawford HC, Lyssiotis CA, Frankel TF, Rao A, Bednar F, Dlugosz AA, Preall J, Tuveson DA, Allen B, di Magliano MP2021Clinical Cancer ResearchOncologyArea QuantificationHALO
Locally confined IFN? production by CD4+ T cells provides niches for murine cytomegalovirus
4 replication in the salivary gland
Oderbolz J, Zangger N, Zimmerman L, Sandu I, Starruß J, Graw F, Oxenius A2021bioRxivClassifier, Spatial Analysis, Highplex FLHALO
Kaiso (ZBTB33) subcellular partitioning functionally links LC3A/B, the tumor microenvironment, and breast cancer survivalSinghal SK, Byun JS, Park S, Yan T, Yancey R, Caban A, Hernandez SG, Hewitt SM, Boisvert H, Hennek S, Bobrow M, Ahmed SU, White J, Yates C, Aukerman A, Vanguri R, Bareja R, Lenci R, Farré PL, De Siervi A, Nápoles AM, Vohra N, Gardner K2021Communications BiologyOncologyCytonuclear, TMAHALO
Deep Learning-Based Annotation Transfer between Molecular Imaging Modalities: An Automated Workflow for Multimodal Data IntegrationRace AM, Sutton D, Hamm G, Maglennon G, Morton JP, Strittmatter N, Campbell A, Sansom OJ, Wang Y, Barry ST, Takáts Z, Goodwin RJA, Bunch J2021Analytical ChemistryOncologyHALO AI
Integrative molecular characterization of sarcomatoid and rhabdoid renal cell carcinomaBakouny Z, Braun DA, Shukla SA, Pan W, Gao X, Hou Y, Flaifel A, Tang S, Bosma-Moody A, He MX, Vokes N, Nyman J, Xie W, Nassar AH, Alaiwi SA, Flippot R, Bouchard G, Steinharter JA, Nuzzo PV, Ficial M, Sant’Angelo M, Forman J, Berchuck JE, Dudani S, Bi K, Park J, Camp S, Sticco-Ivins M, Hirsch L, Baca SC, Wind-Rotolo M, Ross-Macdonald P, Sun M, Mary Lee G-SM, Chang SL, Wei XX, McGregor BA, Harshman LC, Genovese G, Ellis L, Pomerantz M, Hirsch MS, Freedman ML, Atkins MB, Wu CJ, Ho TH, Linehan WM, McDermott DF, Heng DYC, Viswanathan SR, Signoretti S, Van Allen EM, Choueiri TK2021Nature CommunicationsOncologyHighplex FLHALO
IgA transcytosis and antigen recognition govern ovarian cancer immunityBiswas S, Mandal G, Payne KK, Anadon CM, Gatenbee CD, Chaurio RA, Costich TL, Moran C, Harro CM, Rigolizzo KE, Mine JA, Trillo-Tinoco J, Sasamoto N, Terry KL, Marchion D, Buras A, Wenham RM, Yu X, Townsend MK, Tworoger SS, Rodriguez CR, Anderson AR, Conejo-Garcia JR2021NatureImmuno-oncologyHighplex FLHALO
Characterization of Macrophages and Osteoclasts in the Osteosarcoma Tumor Microenvironment at Diagnosis: New Perspective for Osteosarcoma Treatment?Gomez-Brouchet A, Gilhodes J, Van Acker N, Brion R, Bouvier C, Assemat P, Gaspar N, Aubert S, Guinebretiere J-M, Marie B, Larousserie F, Entz-Werlé N, de Pinieux G, Mascard E, Gouin F, Brousset P, Tabone M-D, Jimenez M, Le Deley M-C, Blay J-Y,
Brugieres L , Piperno-Neumann S, Rédini F
2021CancersImmuno-oncologyHighplex FLHALO
CD30+OX40+ Treg is associated with improved overall survival in colorectal cancerLam JH, Hong M, Koo S-L, Chua CWL, Lim KL, Wee F, Wan WK, Leow WQ, Yeo JG, Tan IBH, Yeong J, Lim TKH, Lim TS2021Cancer Immunology, ImmunotherapyImmuno-oncologyHighplex FLHALO
Sustained Helicobacter pylori infection accelerates gastric dysplasia in a mouse modelO’Brien VP, Koehne AL, Dubrulle J, Rodriguez AE, Leverich CK, Kong VP, Campbell JS, Pierce RH, Goldenring JR, Choi E, Salama NR2021Life Science AllianceImmuno-oncologyHighplex FLHALO
A feasibility study of combined epigenetic and vaccine therapy in advanced colorectal cancer with pharmacodynamic endpointBever KM, Thomas DL, Zhang J, Rivera EAD, Rosner GL, Zhu Q, Nauroth JM, Christmas B, Thompson ED, Anders RA, Judkins C, Liu M, Jaffee EM, Ahuja N, Zheng L, Azad NS2021Clinical EpigeneticsOncologyImmune, MembraneHALO
CD8+ T cells fail to limit SIV reactivation following ART withdrawal until after viral amplificationOkoye AA, Duell DD, Fukazawa Y, Varco-Merth B, Marenco A, Behrens H, Chaunzwa TM, Selseth AN, Gilbride RM, Shao J, Edlefsen PT, Geleziunas R, Pinkevych M, Davenport MP, Busman-Sahay K, Nekorchuk MD, Park H, Smedley JV, Axthelm MK, Estes JD, Hansen SG, Keele BF, Lifson JD, Picker LJ2021The Journal of Clinical InvestigationImmunology, Infectious DiseaseISH/FISHHALO
The effect of cyfluthrin on testis inhibin B in rats and the intervention of Lycium barbarum polysaccharideGuo X, Xie Y-X, Guo C, Wei J-L, Yang H-F2021Molecular & Cellular ToxicologyToxicologyMultiplex IHCHALO
Cooperative targeting of immunotherapy-resistant melanoma and lung cancer by an AXL-targeting antibody-drug conjugate and immune checkpoint blockadeBoshuizen J, Pencheva N, Krijgsman O, Altimari DD, Castro PG, de Bruijn B, Ligtenberg MA, den Heuvel EG, Vredevoogd DW, Song J-Y, Visser N, Apriamashvili G, Janmaat ML, Plantinga TS, Franken P, Houtkamp M, Lingnau A, Jure-Kunkel M, Peeper DS2021Cancer ResearchImmuno-oncologyHALO
ATP-binding cassette transporters restrict drug delivery and efficacy against brain tumors even when blood-brain barrier integrity is lostde Gooijer MC, Kemper EM, Buil LCM, Citirikkaya CH, Buckle T, Beijnen JH, van Tellingen O2021Cell Reports MedicineOncologyHALO
The amino acid transporter SLC7A5 is required for efficient growth of KRAS-mutant colorectal cancerNajumudeen AK, Ceteci F, Fey SK, Hamm G, Steven RT, Hall H, Nikula CJ, Dexter A, Murta T, Race AM, Sumpton D, Vlahov N, Gay DM, Knight JRP, Jackstadt R, Leach JDG, Ridgway RA, Johnson ER, Nixon C, Hedley A, Gilroy K, Clark W, Malla SB, Dunne PD, Rodriguez-Blanco G, Critchlow SE, Mrowinska A, Malviya G, Solovyev D, Brown G, Lewis DY, Mackay GM, Strathdee D, Tardito S, Gottlieb E, CRUK Rosetta Grand Challenge Consortium, Takats Z, Barry ST, Goodwin RJA, Bunch J, Bushell M, Campbell AD, Sansom OJ2021Nature GeneticsOncologyHALO
Single-cell analysis shows that adipose tissue of persons with both HIV and diabetes is enriched for clonal, cytotoxic, and CMV-specific CD4+ T cellsWanjalla CN, McDonnell WY, Ram R, Chopra A, Gangula R, Leary S, Mashayekhi M, Simmons JD, Warren CM, Bailin S, Gabriel CL, Cuo L, Furch BD, Lima MC, Woodward BO, Hannah L, Pilkinton MA, Fuller DT, Kawai K, Virmani R, Finn AV, Hasty AH, Mallal SA, Kalams SA, Koethe JR2021Cell Reports MedicineImmunology, MetabolismHALO
Acute Respiratory Distress in Aged, SARS-CoV-2 Infected African Green Monkeys but not Rhesus MacaquesBlair RV, Vaccari M, Doyle-Meyers LA, Roy CJ, Russell-Lodrigue K, Fahlberg M, Monjure CJ, Beddingfield B, Plante KS, Plante JA, Weaver SC, Qin X, Midkiff CC, Lehmicke G, Golden N, Threeton B, Penney T, Allers C, Barnes MB, Pattison M, Datta PK, Maness NJ, Birnbaum A, Fischer T, Bohm RP, Rappaport J2020The American Journal of PathologyInfectious DiseaseClassifierHALO
Association of COVID-19 inflammation with activation of the C5a–C5aR1 axisCarvelli J, Demaria O, Vely F, Batista L, Benmansour NC, Fares J, Carpentier S, Thibult M-L, Morel A, Andre P, Represa A, Piperoglou C, Cordier PY, Le Dault E, Guervilly C, Simone P, Gainnier M, Morel Y, Ebbo M, Schleinitz N, Vivier E2020NatureImmunologyCytonuclearHALO
Impact of Preanalytical Factors During Histology Processing on Section Suitability for Digital Image AnalysisChlipala EA, Butters M, Brous M, Fortin JS, Archuletta R, Copeland K, Bolon B2020Toxicologic PathologyToxicologyArea Quantification, CytonuclearHALO
Tumor vessel normalization, immuno-stimulatory reprogramming, and improved survival in glioblastoma with combined inhibition of PD-1, angiopoietin-2, and VEGF Di Tacchio M, Macas J, Weissenberger J, Sommer K, Bähr O, Steinbach JP, Senft C, Seifert V, Glas M, Herrlinger U, Krex D, Meinhardt M, Weyerbrock A, Timmer M, Goldbrunner R, Deckert M, Scheel AH, Büttner R, Grauer OM, Schittenhelm J, Tabatabai G, Harter PN, Guenther S, Devraj K, Plate KH, Reiss Y2020Cancer Immunology ResearchOncology, Immuno-oncologyClassifier, CytonuclearHALO
Immune cell landscaping reveals a protective role for regulatory T cells during kidney injury and fibrosisdo Valle Duraes F, Lafont A, Biebel M, Martin K, Darribat K, Cuttat R, Waldt A, Naumann U, Wieczorek G, Gaulis S, Pfister S, Mertz KD, Li J, Roma G, Warncke M2020JCI InsightImmunologyArea Quantification, CytonuclearHALO
The prevalence and prognostic significance of estrogen receptor beta expression in non-small cell lung cancerEnwere EK, Dean ML, Li H, D'Silva A, Bebb DG2020Translational Lung Cancer ResearchOncologyCytonuclear, TMAHALO
Dendritic Cell Paucity Leads to Dysfunctional Immune Surveillance in Pancreatic CancerHedge S, Krisnawan VE, Herzog BH, Zuo C, Breden MA, Knolhoff BL, Hogg GD, Tang JP, Baer JM, Mpoy C, Lee KB, Alexander KA, Rogers BE, Murphy KM, Hawkins WG, Fields RC, DeSelm CJ, Schwarz JK, DeNardo DG2020Cancer CellOncology, Immuno-oncologyArea Quantification, Cytonuclear, ImmuneHALO
Periconceptional exposure to lopinavir, but not darunavir, impairs decidualization: a potential mechanism leading to poor birth outcomes in HIV-positive pregnanciesKala S, Dunk C, Acosta S, Serghides L2020Human ReproductionInfectious DiseaseCytonuclearHALO
Three-dimensional culture models mimic colon cancer heterogeneity induced by different microenvironmentsKawai S, Yamazaki M, Shibuya K, Yamazaki M, Fujji E, Nakano K, Suzuki M2020Scientific ReportsOncologyCytonuclearHALO
Epithelial-mesenchymal transition of absorptive enterocytes and depletion of Peyer's patch M cells after PEDV infectionChen Y-M, Helm ET, Groeltz-Thrush, Gabler NK, Burrough ER2020VirologyImmunologyArea QuantificationHALO
Imaging breast cancer using hyperpolarized carbon-13 MRIGallagher FA, Woitek R, McLean MA, Gill AB, Garcia RM, Provenzano E, Riemer F, Kaggie J, Chhabra A, Ursprung S, Grist JT, Daniels CJ, Zaccagna F, Laurent M-C, Locke M, Hilborne S, Frary A, Torheim T, Boursnell C, Schiller A, Patterson I, Slough R, Carmo B, Kane J, Biggs H, Harrison E, Deen SS, Patterson A, Lanz T, Kingsbury Z, Ross M, Basu B, Baird R, Lomas DJ, Sala E, Wason J, Rueda OM, Chin S-F, Wilkinson IB, Graves MJ, Abraham JE, Gilbert FJ, Caldas C, Brindle KM2020Proceedings of the National Academy of SciencesOncologyArea QuantificationHALO
Conformation-selective tau monoclonal antibodies inhibit tau pathology in primary neurons and a mouse model of Alzheimer’s diseaseGibbons GS, Kim S-J, Wu Q, Riddle DM, Leight SN, Changolkar L, Xu H, Meymand ES, O'Reilly M, Zhang B, Brunden KR, Trojanowski JQ, Lee VMY2020Molecular NeurodegenerationNeuroscienceArea QuantificationHALO
TGF?-blockade uncovers stromal plasticity in tumors by revealing the existence of a subset of interferon-licensed fibroblastsGrauel AL, Nguyen B, Ruddy D, Laszewski T, Schwartz S, Chang J, Chen J, Piquet M, Pelletier M, Yan Z, Kirkpatrick ND, Wu J, deWeck A, Riester M, Hims M, Geyer FC, Wagner J, MacIsaac K, Deeds J, Diwanji R, Jayaraman P, Yu Y, Simmons Q, Weng S, Raza A, Minie B, Dostalek M, Chikkegowda P, Ruda V, Iartchouk O, Chen N, Thierry R, Zhou J, Pruteanu-Malinici I, Fabre C, Engelman JA, Dranoff G, Cremasco V2020Nature CommunicationsOncologyArea QuantificationHALO
Ex-vivo delivery of monoclonal antibody (Rituximab) to treat human donor lungs prior to transplantationKu TJY, Ribeiero RVP, Ferreira VH, Galasso M, Keshavjee S, Kumar D, Cypel M, Humar A2020EBioMedicineOtherClassifier, CytonuclearHALO
Transmission of tauopathy strains is independent of their isoform compositionHe Z, McBride JD, Zu, Changolkar L, Kim S, Zhang B, Narasimhan S, Gibbons GS, Kozak M, Schellenberg GD, Trrojanowski JQ, Lee VM-Y2020Nature CommunicationsNeuroscienceArea QuantificationHALO
Human cardiac fibroblasts expressing VCAM1 improve heart function in postinfarct heart failure rat models by stimulating lymphangiogenesisIwamiya T, Segnard B-D, Matsuoka Y, Imamura T2020PLOS OneMyologyArea QuantificationHALO
Environmental contaminant ammonia triggers epithelial-to-mesenchymal transition-mediated jejunal fibrosis with the disassembly of epithelial cell-cell contacts in chickenJing H, Wang S, Wang Y, Shen N, Gao X-J2020ScienceTotalEnvrtToxicologyArea QuantificationHALO
Cholinergic receptors on intestine cells of Ascaris suum and activation of nAChRs by levamisoleMcHugh M, Williams P, Verma S, Powell-Coffman JA, Robertson AP, Martin RJ2020International Journal for Parasitology: Drugs and Drug ResistanceGastroenterology, Infectious DiseaseArea QuantificationHALO
Adult onset pan-neuronal human tau tubulin kinase 1 expression causes severe cerebellar neurodegeneration in miceMcMillan P, Wheeler J, Gatlin RE, Taylor L, Strovas T, Baum M, Bird TD, Latimer C, Keene CD, Kraemer BC, Liachko NF2020Acta Neuropathologica CommunicationsNeuroscienceArea QuantificationHALO
Spatial immune profiling of the colorectal tumor microenvironment predicts good outcome in stage II patientsNearchou IP, Gwyther BM, Georgiakakis ECT, Gavriel CG, Kajiwara Y, Ueno H, Harrison DJ, Caie PD2020Digital MedicineImmuno-oncologyClassifier, Area Quantification, Spatial AnalysisHALO
11? hydroxysteroid dehydrogenase 1: a new marker for predicting response to immune-checkpoint blockade therapy in non-small-cell lung carcinomaSaito R, Miki Y, Abe T, Miyauchi E, Abe J, Nanamiya R, Inoue C, Sato I, Sasano H2020British Journal of CancerImmuno-oncologyArea QuantificationHALO
Clinicopathological significance of endoplasmic reticulum stress proteins in ovarian carcinomaSamanta S, Tamura S, Dubeau L, Mhawech-Fauceglia P, Miyagi Y, Kato H, Lieberman R, Buckanovich RJ, Lin YG, Neamati N2020Scientific ReportsOncologyArea QuantificationHALO
Prognostic value of tumor-inltrating immune cells in primary colorectal cancer and metastasesMartin SZ, Tagscherer KE, Deckert S, Horst D, Moehler M, Lang H, Roth W2020*Pre-PrintImmuno-oncologyClassifier, CytonuclearHALO
Implementation of PD-L1 22C3 IHC pharmDxTM in Cell Block Preparations of Lung Cancer: Concordance with Surgical Resections and Technical Validation of CytoLyt® PrefixationLou SK, Ko HM, Kinoshita T, MacDonald S, Weiss J, Czarnecka-Kujawa K, Boerner SL, Yasufuku K, Tsao M-S, Schwock J2020Acta CytologicaOncologyClassifier, MembraneHALO
Immuno-Interface Score to Predict Outcome in
Colorectal Cancer Independent of Microsatellite
Instability Status
Nestarenkaite A, Fadhil W, Ramusson A, Susanti S, Hadjimichael E, Laurinaviciene A, Ilyas M, Laurinavicius A2020CancersImmuno-oncologyClassifier, Multiplex IHCHALO
Assessment of associations between clinical and immune microenvironmental factors and tumor mutation burden in resected nonsmall cell lung cancer by applying machine learning to whole-slide imagesOno A, Terada Y, Kawata T, Serizawa M, Isaka M, Kawabata T, Imai T, Mori K, Muramatsu K, Hayashi I, Kenmotsu H, Oshima K, Urakami K, Nagashima T, Kusuhara M, Akiyama Y, Sugino T, Ohde Y, Yamaguchi K, Takahashi T T2020Cancer MedicineClassifier, Multiplex IHC, Serial SectionHALO
Prevalence of CD8+ cytotoxic lymphocytes in human neoplasmsBlessin NC, Spriestersbach P, Li W, Mandelkow T, Dum D, Simon R, Hube-Magg C, Lutz F, Viehweger F, Lennartz M, Fraune C, Nickelsen V, Fehrle W, Göbel C, Weidemann S, Clauditz T, Lebok P, Möller K, Steurer S, Izbicki JR, Sauter G, Minner S, Jacobsen F, Luebke AM, Büscheck F, Höflmayer D, Wilczak W, Burandt E, Hinsch A2020Cellular OncologyOncology, Immuno-oncologyMembrane, TMAHALO
Persistence of adoptively transferred T cells with a kinetically engineered IL-2 receptor agonistParisi G, Saco JD, Salazar FB, Tsoi J, Krystofinski P, Puig-Saus C, Zhang R, Zhou J, Cheung-Lau GC, Garcia AJ, Grasso CS, Tavaré R, Hu-Lieskovan S, Mackay S, Zalevsky J, Bernatchez C, Diab A, Wu AM , Comin-Anduix B, Charych D, Ribas A2020Nature CommunicationsOncology, Immuno-oncologyCytonuclearHALO
Mechanical regulation of glycolysis via cytoskeleton architecturePark JS, Burckhardt CJ, Lazcano R, Solis LM, Isogai T, Li L, Chen CS, Gao B, Minna JD, Bachoo R, DeBerardinis RJ, Danuser G2020NatureOncologyClassifier, Cytonuclear, TMAHALO
Naproxen chemoprevention promotes immune activation in Lynch syndrome colorectal mucosaReyes-Uribe L, Wu W, Gelincik O, Bommi PV, Francisco-Cruz A, Solis LM, Lynch PM, Lim R, Stoffel EM, Kanth P, Samadder NJ, Mork ME, Taggart MW, Milne GL, Marnett LJ, Vornik L, Liu DD, Revuelta M, Chang K, You YN, Kopelovich L, Wistuba II, Lee JJ, Sei S, Shoemaker RH, Szabo E, Richmond E, Umar A, Perloff M, Brown PH, Lipkin SM, Vilar E2020GutOncologyClassifier, CytonuclearHALO
p53 is associated with high-risk and pinpoints TP53 missense mutations in mantle cell lymphomaRodrigues JM, Hassan M, Freiburghaus C, Eskelund CW, Geisler C, Raty R, Kolstad A, Sundstrom C, Glimelius I, Gronbaek K, Kwiecinska A, Porwit A, Jerkeman M, Ek S2020British Journal of HaematologyOncologyClassifier, CytonuclearHALO
RUNX1 is a driver of renal cell carcinoma correlating with clinical outcomeRooney N, Mason SM, McDonald L, Däbritz HM, Campbell KJ, Hedley A, Howard S, Athineos D, Nixon C, Clark W, Leach JDG, Samsom OJ, Edwards J, Cameron ER, Blyth K2020Cancer ResearchOncologyCytonuclearHALO
Analytical Performance of an Immunoprofiling Assay Based on RNA ModelsSchillebeeckx I, Armstrong JR, Forys JT, Hiken J, Earls J, Flanagan KC, Cui T, Glasscock JI, Messina DN, Duncavage EJ2020The Journal of Molecular DiagnosticsImmunologyCytonuclearHALO
Prognostic significance of mesothelin expression in colorectal cancer disclosed by area-specific four-point tissue microarraysShiraishi T, Shinto E, Nearchou IP, Tsuda H, Kajiwara Y, Einama T, Caie PD, Kishi Y, Ueno H2020Vichows ArchivOncologyCytonuclear, TMAHALO AI
Prognostic and Predictive Value of Tumor-infiltrating Leukocytes and of Immune Checkpoint Molecules PD1 and PDL1 in Clear Cell Renal Cell CarcinomaStenzel PJ, Schindeldecker M, Teagscherer KE, Foersch S, Herpel E, Hohenfellner M, Hatiboglu G, Alt J, Thomas C, Haferkamp A, Roth W, Macher-Goeppinger S2020Translational OncologyOncology, Immuno-oncologyClassifier, Cytonuclear, TMAHALO
Linking epigenetic signature and metabolic phenotype in IDH mutant and IDH wildtype diffuse gliomaBuran Y, Filipski K, Bernatz S, Baumgarten P, Roller B, Zinke J, Zeiner PS, Ilina E, Senft C, Ronellenfitsch MW, Plate KH, Bähr O, Hattingen E, Steinbach JP, Mittelbron M, Harter PN2020Neuropathology and Applied NeurobiologyNeuroscienceMultiplex IHC, TMAHALO
O 6-Methylguanine DNA Methyltransferase and Glucose Transporter 2 in Foregut and Hindgut Gastrointestinal Neuroendocrine NeoplasmsWatanbe H, Yamazaki Y, Fujishima F, Izxumi K, Imamura M, Hijioka S, Toriyama K, Yatabe Y, Kudo A, Motoi F, Unno M, Sasano H2020BMC CancerOncologyCytonuclearHALO
SLFN11 informs on standard of care and novel treatments in a wide range of cancer modelsWinkler C, Armenia J, Jones GN, Tobalina L, Sale MJ, Petreus T, Baird T, Serra V, Wang AT, Lau A, Garnett MJ, Jaaks P, Coker EA, Pierce AJ, O'Connor MJ, Leo E2020British Journal of CancerOncologyClassifier, CytonuclearHALO
Lung Expression of Human ACE2 Sensitizes the Mouse to SARS-CoV-2 InfectionHan K, Blair RV, Iwanaga N, Liu F, Russell-Lodrigue KE, Qin Z, Midkiff CC, Golden NA, Doyle-Meyers LA, Kabir ME, Chandler KE, Cutrera KL, Ren M, Monjure CJ, Lehmicke G, Fischer T, Beddingfield B, Wanek AG, Birnbaum A, Maness NJ, Roy CJ, Datta PK, Rappaport J, Kolls JK, Qin X2020American Journal of Respiratory Cell and Molecular BiologyInfectious DiseaseHALO AI
Human ileal organoid model recapitulates clinical incidence of diarrhea associated with small molecule drugsBelair DG, Visconti RJ, Hong M, Marella M, Peters MF, Scott CW, Kolaja KL2020Toxicology in VitroToxicologyHighplex FLHALO
Multiomic analysis and immunoprofiling reveal distinct subtypes of human angiosarcomaChan JY, Lim JQ, Yeong J, Ravi V, Guan P, Boot A, Tay TKY, Selvarajan S, Nasir NDM, Loh JH, Ong CK, Huang D, Tan J, Li Z, Ng CC-Y, Tan TT, Masuzawa M, Sung KW-K, Farid M, Quek RHH, Tan NC, Teo MCC, Rozen SG, Tan P, Fotreal A, The BT, Soo KC2020The Journal of Clinical InvestigationImmuno-oncologyHighplex FLHALO
Tumoral PD-1hiCD8+ 1 T cells are partially exhausted and 2 predict favorable outcome in triple-negative breast cancer Guo L, Cao C, Goswami S, Huang X, Ma L, Guo Y, Yang B, Li T, Chi Y, Zhang X, Wu J2020Clinical ScienceImmuno-oncologyHighplex FLHALO
CXCR4+ cells are increased in lung tissue of patients with idiopathic pulmonary fibrosisJaffar J, Griffiths K, Oveissi S, Duan M, Foley M, Glaspole I, Symons K, Organ L, Westfall G2020Respiratory ResearchFibrosisHighplex FLHALO
Rova-T enhances the anti-tumor activity of anti-PD1 in a murine model of small cell lung cancer with endogenous Dll3 expressionVitorino P, Chuang C-H, Iannello Z, Zhao X, Anderson W, Ferrando R, Zhang Z, Madhavan S, Karsunky H, Saunders LR2020Translational OncologyImmuno-oncologyHighplex FLHALO
Safety, immunogenicity, and clinical efficacy of durvalumab in combination with folate receptor alpha vaccine TPIV200 in patients with advanced ovarian cancer: a phase II trialZamarin D, Walderich S, Holland A, Zhou Q, Iasonos AE, Torrisi JM, Merghoub T, Chesebrough LF, Mcdonnell AS, Gallagher JM, Li Y, Hollmann TJ, Grisham RN, Erskine CL, Block MS, Knutson KL, O'Cearbhaill RE, Aghajanian C, Konner JA2020Journal for ImmunoTherapy of CancerImmuno-oncologyHighplex FLHALO
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Unmasking of oestrogen?dependent changes in left ventricular structure and function in aged female rats: a potential model for pre?heart failure with preserved ejection fractionBustamante M, Garate?Carrillo A, Ito BR, Garcia R, Carson N, Ceballos G, Ramirez?Sanchez I, Omens J, Villarreal F2019The Journal of PhysiologyMyologyArea Quantification, Layer ThicknessHALO
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Modulation of Microglia by Voluntary Exercise or CSF1R Inhibition Prevents Age-Related Loss of Functional Motor UnitsGiorgetti E, Panesar M, Zhang Y, Joller S, Ronco M, Obrecht M, Lambert C, Accart N, Beckmann N, Doelemeyer A, Perrot L, Fruh I, Mueller M, Pierrel E, Summermatter S, Bidinosti M, Shimshek DR, Brachat S, Nash M2019Cell ReportsNeuroscienceClassifier, CytonuclearHALO
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CCN3/Nephroblastoma Overexpressed Is a Functional Mediator of Prostate Cancer Bone Metastasis That Is Associated with Poor Patient Prognosis Dankner M, Ouellet V, Communal L, Schmitt E, Perkins D, Annis MG, Barrès V, Caron C, Mes-Masson A-M, Saad F, Siegel PM2019The American Journal of PathologyOncologyArea QuantificationHALO
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Multiplexed Immunohistochemistry for Molecular and Immune Profiling in Lung Cancer—Just About
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A Dual Blocker of Endothelin A/B Receptors Mitigates Hypertension but not Renal Dysfunction in a Rat Model of Chronic Kidney Disease and Sleep Apnea Morales-Loredo H, Jones DT, Barrera A, Mendiola P, Garcia J, Pace CE, Murphy M, Kanagy NL, Gonzalez Bosc LV2019Renal PathologyMetabolismClassifier, Cytonuclear, Figure MakerHALO
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Automated Computational Detection, Quantitation, and Mapping of Mitosis in Whole‚ÄëSlide Images for Clinically Actionable Surgical Pathology Decision Support Puri M, Hoover S, Hewitt S, Wei B-R, Adissu H, Halsey C, Beck J, Bradley C, Cramer S, Durham A, Esplin D, Frank C, Lyle L, McGill L, Sanchez M, Schaffer P, Traslavina R, Buza E, Yang H, Lee M, Dwyer J, Simpson R2019Journal of Pathology InformaticsOncologyCytonuclearHALO
Lamin?B1 is a senescence?associated biomarker in clear?cell renal cell carcinomaRadspieler M, Schindeldecker M, Stenzel P, Försc S, Tagscherer K, Herpel E, Hohenfellner M, Hatiboglu G, Roth W, Macher?Goeppinger S2019Oncology LettersOncologyCytonuclearHALO
Upper tract urothelial carcinoma has a luminal-papillary T-cell depleted contexture and activated FGFR3 signaling Robinson BD, Vlachostergios PJ, Bhinder B, Liu W, Li K, Moss TJ, Bareja R, Park K, Tavassoli P, Cyrta J, Tagawa ST, Nanus DM, Beltran H, Molina AM, Khani F, Miguel Mosquera J, Xylinas E, Shariat SF, Scherr DS, Rubin MA, Lerner SP, Matin SF, Elemento O, Faltas BM2019Nature CommunicationsOncology, Immuno-oncologyCytonuclearHALO
IL?36 receptor antagonistic antibodies inhibit inflammatory responses in preclinical models of psoriasiform dermatitis Su Z, Paulsboe S, Wetter J, Salte K, Kannan A, Mathew S, Horowitz A, Gerstein C, Namovic M, Todorovi? V, Seagal J, Edelmayer RM, Viner M, Rinaldi L, Zhou L, Leys L, Huang S, Wang L, Sadhukhan R, Honore P, McGaraughty S, Scott VE2019Experimental DermatologyDermatologyArea Quantification, CytonuclearHALO
Neurexin 3 transmembrane and soluble isoform expression and splicing haplotype are associated with neuron inflammasome and Alzheimer's disease Hishimoto A, Pletnikova O, Lang DL, Troncoso JC, Egan JM, Liu Q-R2019Alzheimer's Research & TherapyNeuroscienceISH/FISHHALO
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Role of IL-15 Signaling in the Pathogenesis of Simian Immunodeficiency Virus Infection in Rhesus Macaques Okoye AA, DeGottardi MQ, FukazawaY, Vaidya M, Abana CO, Konfe AL, Fachko DN, Duell DM, He Li H, Lum R, Gao L, Park BS, Skalsky RL, Lewis AD, Axthelm MK, Lifson JD, Wong SW, Picker LJ2019The Journal of ImmunologyInfectious DiseaseCytonuclear, Figure MakerHALO
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Macrophage-Derived CXCL9 and CXCL10 Are Required
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A single dose of neoadjuvant PD-1 blockade predicts clinical outcomes in resectable melanomaHuang AC, Orlowski RJ, Xu X, Mick R, George SM, Yan PK, Manne S, Kraya AA, Wubbenhorst B, Dorfman L, D’Andrea K, Wenz BM, Liu S, Chilukuri L, Kozlov A, Carberry M, Giles L, Kier MW, Quagliarello F, McGettigan S, Kreider K, Annamalai L, Zhao Q, Mogg R, Xu W, Blumenschein WM, Yearley JH, Linette GP, Amaravadi RK, Schuchter LM, Herati RS, Bengsch B, Nathanson KL, Farwell MD, Karakousis GC, Wherry EJ, Mitchell TC2019Nature MedicineOncology, Immuno-oncologyHighplex FLHALO
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Development of resistance to FAK inhibition in pancreatic cancer is linked to stromal depletion Jiang H, Liu X, Knolhoff BL, Hegde S, Lee KB, Jiang H, Fields RC, Pachter JA, Lim K-H, DeNardo DG2019GutOncologyCytonuclear, ISH/FISHHALO
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The Fat Mass and Obesity-Associated Protein (FTO) Regulates Locomotor Responses to Novelty via D2R Medium Spiny Neurons Ruud J, Alber J, Tokarska A, Engström Ruu L, Nolte H, Biglari N, Lippert R, Lautenschlager Ä, Cie?lak PE, Szumiec ?, Hess ME, Brönneke HS, Krüger M, Nissbrandt H, Korotkova T, Silberberg G, Rodriguez Parkitna J, Brüning J 2019Cell ReportsNeuroscience, MetabolismISH/FISHHALO
Quantitative digital pathology reveals association of cell-specific PNPLA3 transcription with NAFLD disease activity Sandhu B, Perez Matos MC, Tran S, Zhong A, Csizmadia E, Kim M, Herman MA, Nasser I, Lai M, Jiang ZG2019JHEP ReportsFibrosisISH/FISHHALO
Alpha-synuclein is a DNA binding protein that modulates DNA repair with implications for Lewy body disorders Schaser AJ, Osterberg VR, Dent SE, Stackhouse TL, Wakeham CM, Boutros SW, Weston LJ, Owen N, Weissman TA, Luna E, Raber J, Luk KC, McCullough AK, Woltjer RL, Unni VK2019Scientific ReportsNeuroscienceISH/FISHHALO
Small Molecule IL-36? Antagonist as a Novel Therapeutic Approach for Plaque PsoriasisTodorovi? V, Su Z, Putman CB, Kakavas SJ, Salte KM, McDonald HA, Wetter JB, Paulsboe SE, Sun Q, Gerstein CE, Medina L, Sielaff B, Sadhukhan R, Stockmann H, Richardson PL, Qiu W, Argiriadi MA, Henry RF, Herold JM, Shotwell JB, McGaraughty SP, Honore P, Gopalakrishnan SM, Sun CC, Scott VE2019Scientific ReportsImmunology, DermatologyISH/FISHHALO
Changes in epidermal morphology associated with dandruff Pople JE, Bhogal RK, Moore AE, Jenkins G2019International Journal of Cosmetic ScienceDermatology Cytonuclear, Layer ThicknessHALO
PD-L1 Expression and Clinical Outcomes to Cabozantinib, Everolimus, and Sunitinib in Patients with Metastatic Renal Cell Carcinoma: Analysis of the Randomized Clinical Trials METEOR and CABOSUN Flaifel A, Xie W, Braun DA, Ficial M, Bakouny Z, Nassar AH, Jennings RB, Escudier B, George DJ, Motzer RJ, Morris MJ, Powles, Wang E, Huang Y, Freeman GJ, Choueiri TK, Signoretti S2019Clinical Cancer ResearchImmuno-oncologyMultiplex IHCHALO
The KDM5A/RBP2 histone demethylase represses NOTCH signaling to sustain neuroendocrine differentiation and promote small cell lung cancer tumorigenesisOser MG, Sabet AH, Gao W, Chakraborty AA, Schinzel AC, Jennings RB, Fonseca R, Bonal DM, Booker MA, Flaifel A, Novak JS, Christensen VL, Zhang H, Herbert ZT, Tolstorukov MY, Buss EJ, Wong K-K, Bronson RT, Nguyen Q-D, Signoretti S, Kaelin Jr WG2019Genes & DevelopmentOncologyMultiplex IHCHALO
Physiologic serum 1,25 dihydroxyvitamin D is inversely associated with prostatic Ki67 staining in a diverse sample of radical prostatectomy patients Rosenberg A, NetteY OS, Gogana P, Sheikh U, Virgilia M, Macias V, Kajdacsy-Balla A, R Sharifi R, Kittles RA, Murphy AB2019Cancer Causes & ControlOncologyMultiplex IHCHALO
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Neoadjuvant anti-PD-1 immunotherapy promotes a survival benefit with intratumoral and systemic immune responses in recurrent glioblastoma Cloughesy TF, Mochizuki AY, Orpilla JR, Hugo W, Lee AH, Davidson TB, Wang AC, Ellingson BM, Rytlewski JA, Sanders CM, Kawaguchi ES, Du L, Li G, Yong WH, Gaffey SC, Cohen AL, Mellinghoff IK, Lee EQ, Reardon DA, O’Brien BJ, Butowski NA, Nghiemphu PL, Clarke JL, Arrillaga-Romany IC, Colman H, Kaley TJ, de Groot JF, Liau LM, Wen PY, Prins RM2019Nature MedicineOncology, Immuno-oncologySpatial Analysis, Highplex FLHALO
PAK4 inhibition improves PD-1 blockade immunotherapyAbril-Rodriguez G, Torrejon DY, Liu W, Zaretsky JM, Nowick TS, Tsoi J, Puig-Saus C, Baselga-Carretero I, Medina E, Quist MJ, Garcia AJ, Senapedis W, Baloglu E, Kalbasi A, Cheung-Lau G, Berent-Maoz B, Comin-Anduix B, Hu-Lieskovan S, Wang C-Y, Grasso CS, Ribas A2019Nature CancerImmuno-oncologyHALO
Histological characterization of aldosterone-producing adrenocortical adenomas with different somatic mutationsAcosta-Ruiz A, Gutzeit VA, Skelly MJ, Meadows S, Lee J, Parekh P, Orr AG, Liston C, Pleil KE, Broichhagan J, Levitz J2019NeuronNeuroscienceHALO
Amyloid-Beta (A?) Plaques Promote Seeding and Spreading of Alpha-Synuclein and Tau in a Mouse Model of Lewy Body Disorders with A? PathologyBassil F, Brown HJ, Pattabhiraman S, Iwasyk JE, Maghames CM, Meymand ES, Cox TO, Riddle FM, BinZhang N, Trojanowski JQ, Lee VM-Y2019NeuronNeuroscienceHALO
Rabbit monoclonal E?cadherin antibody: A cost?effective alternative to mouse monoclonal antibody in distinguishing ductal carcinoma in situ from lobular carcinoma in situ Baum JE, Croyle JA, Brodsky VB, Liu Y, Shin SJ2019The Breast JournalOncologyCytonuclearHALO
MAPKAPK2 (MK2) inhibition mediates radiation-induced inflammatory cytokine production and tumor growth in head and neck squamous cell carcinomaBerggren KL, Cruz SR, Hixon MD, Cowan AT, Keysar SB, Craig S, James J, Barry M, Ozbun MA, Jimeno A, McCance DJ, Beswick EJ, Gan GN2019OncogeneOncologyCytonuclear, Figure MakerHALO
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Single cell transcriptomic profiling of large intestinal enteroendocrine cells in mice - Identification of selective stimuli for insulin-like peptide-5 and glucagon-like peptide-1 co-expressing cellsBilling LJ, Larraufie P, Lewis J, Leiter A, Li J, Lam B, Yeo GSH, Goldspink DA, Kay RG, Gribble FM, Reimann F2019Molecular MetabolismMetabolismHALO
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Kras and Lkb1 mutations synergistically induce intraductal papillary mucinous neoplasm derived from pancreatic duct cells Collet L, Ghurburrun E, Meyers N, Assi M, Pirlot B, Leclercq IA, Couvelard A, Komuta M, Cros J, Demetter P, Lemaigre FP, Borbath I, Jacquemin P2019GutOncologyHALO
Next-generation computational tools for interrogating cancer immunityFinotello F, Rieder D, Hackl H, Trajanoski Z2019Nature Reviews GeneticsReviewHALO
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Farnesoid X Receptor Agonism, AcetylCoenzyme A Carboxylase Inhibition, and Back Translation of Clinically Observed Endpoints of De Novo Lipogenesis in a Murine NASH Model Gapp B, Jourdain M, Bringer P, Kueng B, Weber D, Osmont A, Zurbruegg S, Knehr J, Falchetto R, Roma G, Dietrich W, Valdez R, Beckmann N, Nigsch F, Sanyal AJ, Ksiazek I2019Hepatology CommunicationsMetabolismCytonuclearHALO
Open radial artery harvesting better preserves endothelial function compared to the endoscopic approachGaudino MF, Lorusso R, Ohmes LB, Narula N, McIntire PJ, Gargiulo A, Bucci MR, Leonard J, Rahouma M, Di Franco A, He GW, Girardi LN, Tranbaugh RF, Di Lorenzo A2019Interactive CardioVascular and Thoracic SurgeryHALO
Dynamic changes to lipid mediators support transitions among macrophage subtypes during muscle regeneration Giannakis N, Sansbury BE, Patsalos A, Hays TT, Riley CO, Han X, Spite M, Nagy L2019Nature ImmunologyImmunology, MyologyMuscle FiberHALO
Evaluation of Peritumoral Fibrosis in Metastatic Colorectal Adenocarcinoma to the Liver Using Digital Image Analysis Waters KM, Cottrell TR, Besharati S, Zhu Q, Anders RA2019American Journal of Clinical PathologyOncologyArea Quantification, Partitions (tiles, margins)HALO
Cross-Platform Comparison of Computer-assisted Image Analysis Quantification of In Situ mRNA Hybridization in Investigative Pathology. Holzer TR, Hanson JC, Wray EM, Bailey JA, Kennedy KR, Finnegan PR, Nasir A, Credille KM2019Applied Immunohistochemistry & Molecular MorpholgyHALO
Oral tenofovir disoproxil fumarate/emtricitabine for HIV pre-exposure prophylaxis increases expression of type I/III interferon-stimulated factors in the gastrointestinal tract but not in the bloodHughes SM, Levy CN, Calienes F, Stekler JD, Pandey U, Vojtech L, Berard AR, Birse K, Noel-Romas L, Richardson B, Golden J, Cartwright M, Collier AC, Stevens CE, Curlin ME, Holtz TH, Mugo N, Irungu E, Katabira E, Muwonge T, Lama JR, Baeten JM, Burgener A, Lingappa JR, McElrath MJ, Mackelprang R, McGowan I, Cranston RD, Cameron MJ, Hladik F2019bioRxivInfectious DiseaseCytonuclearHALO
Intraintestinal and Parenteral Administration of an Insulin Analogue Leads to Comparable Activation of Signaling Downstream of the Insulin Receptor in the Small Intestine Hvid H, Kildegaard J, Kristensen K, Porsgaard T, Jørgensen MS, Ballarín-González B, Ahnfelt-Rønne J, Hansen Bo F, Nishimura E2019Journal of Diabetes Science and TechnologyMetabolismHALO
Epithelial NOTCH Signaling Rewires the Tumor Microenvironment of Colorectal Cancer to Drive Poor-Prognosis Subtypes and MetastasisJackstadt R, van Hooff ST, Leach JD, Cortes-Lavaud X, Lohuis JO, Ridgway RA, Wouters VM, JatinRoper J, Kendall TJ, Roxburgh CS, Horgan PG, Nixon C, Nourse C, Gunzer M, Clark W, Hedley A, Yilmaz OH, Rashid M, Bailey P, Biankin AV, Campbell AD, Adams DJ, Barry ST, Steele CW, Medema JP, Sansom OJ2019Cancer CellOncologyHALO
Expression of avian ?-defensin mRNA in the chicken yolk sacZhang H, Wong EA2019Developmental & Comparative ImmunologyImmunologyISH/FISHHALO
Lenvatinib plus anti-PD-1 antibody combination treatment activates CD8+ T cells through reduction of tumor-associated macrophage and activation of the interferon pathway Kato Y, Tabata K, Kimura T, Yachie-Kinoshita A, Ozawa Y, Yamada K, Ito J, Tachino S, Hori Y, Matsuki M, Matsuoka Y, Ghosh S, Kitano H, Nomoto K, Matsui J, Funahashi Y2019PLOS OneImmuno-oncologyHALO
Calpain 9 as a therapeutic target in TGF?-induced mesenchymal transition and fibrosis Kim DH, Beckett JD, Nagpal V, Seman-Senderos MA, Gould Russell A, Creamer TJ, MacFarlane EG, Chen Y, Bedja D, Butcher JT, Mitzner W, Rouf R, Hata S, Warren DS, Dietz HC2019Science Translational MedicineFibrosisHALO
Delayed Azithromycin Treatment Improves Recovery After Mouse Spinal Cord Injury Kopper TJ, McFarlane KE, Bailey WM, Orr MB, Zhang B, Gensel JC2019Frontiers in Ceullar NeuroscienceNeuroscienceHALO
Long-Term Persistence of Anti-HIV Broadly Neutralizing Antibody-Secreting Hematopoietic Cells in Humanized Mice Kuhlmann A-S, Haworth KG, Barber-Axthelm IM, Ironside C, Giese MA, Peterson CW, Kiem H-P2019Molecular TherapyInfectious DiseaseHALO
Temporal Analysis of Amylase Expression in Control, Autoantibody Positive, and Type 1 Diabetes Pancreatic Tissues Kusmartseva I, Beery M, Hiller H, Padilla M, Selman S, Posgai A, Nick HS, Campbell-Thompson M, Schatz DA, Haller MJ, Wasserfall CH, Atkinson MA2019DiabetesMetabolismHALO
Phosphorylation of connexin 43 at MAPK, PKC or CK1 sites each distinctly alter the kinetics of epidermal wound repair Lastwika JK, Dunn CA, Solan JL, Lampe PD2019Journal of Cell ScienceHALO
Active Cushing's Disease is Characterized by Increased Adipose Tissue Macrophage Presence Lee IT, Atuahene A, Egritag HE, Buettner C, Wang L, Geer EB, Donovan M2019The Journal of Clinical Endocrinology & MetabolismMetabolismHALO
Impact of a Pre-Operative Exercise Intervention on Breast Cancer Proliferation and Gene Expression: Results from the Pre-Operative Health and Body (PreHAB) Study Ligibel JA, Dillon D, Giobbie-Hurder A, McTiernan A, Frank E, Cornwell M, Pun M, Campbell N, Dowling RJO, Chang MC, Tolaney S, Chagpar AB, Yung RL, Freedman RA, Dominici LS, Golshan M, Rhei E, Taneja K, Huang Y, Brown M, Winer EP, Jeselsohn R, Irwin ML2019Clinical Cancer ResearchHALO
A phase 2 study of GVAX colon vaccine with cyclophosphamide and pembrolizumab in patients with mismatch repair proficient advanced colorectal cancerYarchoan M, Huang C-Y, Zhu Q, Ferguson AK, Durham JN, Anders RA, Thompson ED, Rozich NS, Thomas DL, Nauroth JM, Rodriguez C, Osipov A, De Jesus-Acosta A, Le DT, Murphy AG, Laheru D, Donehower RC, Jaffee EM, Zheng L, Azad NS2019Cancer MedicineImmuno-oncologyArea Quantification, Partitions (tiles, margins)HALO
Hotspot enumeration of CD8+ tumor infiltrating lymphocyte using digital image analysis in triple negative breast Cancer yields consistent resultsMcIntire PJ, Zhong E, Patel A, Khani F, D'Alfonso T, Chen Z, Shin SJ, Ginter PS2019Human PathologyOncologyCytonuclearHALO
Female-biased embryonic death from inflammation induced by genomic instability McNairn AJ, Chuang C-H, Bloom JC, Wallace MD, Schimenti JC2019NatureImmunologyCytonuclearHALO
Imaging CAR T cell therapy with PSMA-targeted positron emission tomography Minn I, Huss DJ, Ahn H-H, Chinn TM, Park A, Jones J, Brummet M, Rowe SP, Sysa-Shah P, Du Y, Levitsky HI, Pomper MG2019Science AdvancesOncologyCytonuclearHALO
Reliable identification of prostate cancer using mass spectrometry metabolomic imaging in needle core biopsies Morse N, Jamaspishvili T, Simon D, Patel PG, Ren KYM, Wang J, Oleschuk R, Kaufmann M, Gooding RJ, Berman DM2019Laboratory InvesigationsOncologyHALO
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HIF-independent synthetic lethality between CDK4/6 inhibition and VHL loss across species Nicholson HE, Tariq Z, Housden BE, Jennings RB, Stransky LA, Perrimon N, Signoretti S, Kaelin WG2019Cancer TherapyHALO
Prohibitin is a prognostic marker of relapse and therapeutic target to block chemotherapy resistance in Wilms tumorOrtiz MV, Ahmed S, Burns M, Henssen AG, Hollmann TJ, MacArthur I, Gunasekera S, Gaewsky L, Bradwin G, Ryan J, Letai A, He Y, Naranjo A, Chi Y-Y, LaQuaglia M, Heaton T, Cifani P, Dome JS, Gadd S, Perlman E, Mullen E, Steen H, Kentsis A2019JCI InsightOncologyCytonuclearHALO
Validation and characterisation of prognostically significant PD-L1+ immune cells in HPV+ oropharyngeal squamous cell carcinomaYoung RJ, Bressel M, Porceddu S, Cernelc J, Savas P, Liu H, Urban D, Thai AA, Cooper C, Fua T, Neeson P, Rischin D, Solomon B2019Oral OncologyOncology, Infectious DiseaseClassifier, Highplex FLHALO
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PTEN loss in Gleason grade 7 prostate tumors exhibits intratumoral heterogeneity and is associated with unfavorable pathological features Picanço-Albuquerque CG, Vidotto T, Pereira CS, Saggioro FP, Jamaspishvili T, Koti M, Berman DM, Squire JA, Reis RB2019Applied Cancer ResearchOncologyHALO
Extramammary Paget disease shows differential expression of B7 family members B7-H3, B7-H4, PD-L1, PD-L2 and cancer/testis antigens NY-ESO-1 and MAGE-A Pourmaleki M, Young JH, Socci ND, Chiang S, Edelweiss M, Li Y, Zhang M, Roshal L, Chi DS, Busam KJ, Mellinghoff IK, Hollmann TJ2019OncotargetHALO
Impact of TREM2 risk variants on brain region-specific immune activation and plaque microenvironment in Alzheimer's disease patient brain samples Prokop S, Miller KR, Labra SR, Pitkin RM, Hoxha K, Narasimhan S, Changolkar L, Rosenbloom A, Lee VM-Y, Trojanowski JQ2019Acta NeuropathologicaNeuroscienceHALO
Delta-like protein 3 expression and therapeutic targeting in neuroendocrine prostate cancer Puca L, Gavyert K, Sailer V, Conteduca V, Dardenne E, Sigouros M, Isse K, Kearney M, Vosoughi A, Fernandez L, Pan H, Motanagh S, Hess J, Donoghue AJ, Sboner A, Wang Y, Dittamore R, Rickman D, Nanus DM, Tagawa ST, Elemento O, Mosquera JM, Saunders L, Beltran H2019Science Translational MedicineOncologyHALO
Mitogenic and progenitor gene programmes in single pilocytic astrocytoma cellsReitman ZJ, Paolella BR, Bergthold G, Pelton K, Becker S, Jones R, Sinai CE, Malkin H, Huang Y, Grimmet L, Herbert ZT, Sun Y, Weatherbee JL, Alberta JA, Daley JF, Rozenblatt-Rosen O, Condurat AL, Qian K, Khadka P, Segal RA, Haas-Kogan D, Filbin MG,
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Pre-exposure prophylaxis differentially alters circulating and mucosal immune cell activation in herpes simplex virus type 2 seropositive women Richert-Spuhler LE, Pattacini L, Plews M, Irungu E, Muwonge TR, Katabira E, Mugo N, Meyers AFA, Celum C, Baeten JM, Lingappa JR, Lund JM2019AIDSInfectious DiseaseHALO
A MYC–GCN2–eIF2? negative feedback loop limits protein synthesis to prevent MYC-dependent apoptosis in colorectal cancerSchmidt S, Gay D, Uthe FW, Denk S, Paauwe M, Matthes N, Diefenbacher ME, Bryson S, Warrander FC, Erhard F, Ade CP, Baluapuri A, Walz S, Jackstadt R, Ford C, Vlachogiannis G, Valeri N, Otto C, Schülein-Völk C, Maurus K, Schmitz W, Knight JRP, Wolf E, Strathdee D, Schulze A, Germer C-T, Rosenwald A, Sansom OJ, Eilers M2019Nature Cell BiologyOncologyHALO
Mobilization of CD8+ T cells via CXCR4 blockade facilitates PD-1 checkpoint therapy in human pancreatic cancer Seo YD, Jiang X, Sullivan KM, Jalikis FG, Smythe KS, Abbasi A, Vignali M, Park JO, Daniel SK, Pollack SM, Kim TS, Yeung R, Crispe IN, Pierce RH, Robins H, Pillarisetty VG2019Clinical Cancer ResearchImmuno-oncologyHALO
Targeting glutamate metabolism in melanomaSingh S, Shah R, Chen S, Filipp FV2019arXivHALO
Logic-Gated ROR1 Chimeric Antigen Receptor Expression Rescues T Cell-Mediated Toxicity to Normal Tissues and Enables Selective Tumor Targeting Srivastava S, Salter A, Liggitt D, Yechan-Gunja S, Sarvothama M, Cooper K, Smythe KS, Dudakov JA, Pierce RH, Rader C, Riddell SR2019Cancer CellOncology, Immuno-oncologyHALO
Citrullination of fibronectin alters integrin clustering and focal adhesion stability promoting stromal cell invasion Stefanelli VL, Choudhury S, Hu P, Liu Y, Schwenzer A, Yeh C-R, Chambers DM, Pesson K, Li W, Segura T, Midwood KS, Torres M, Barker TH2019Matrix BiologyOncology, FibrosisHALO
A Short Isoform of Coagulation Factor XII mRNA Is Expressed by Neurons in the Human BrainlZamolodchikov D, Bai Y, Tang Y, McWhirter JR, Macdonald LE, Alessandri-Haber N2019NeuroscienceNeuroscienceFigure MakerHALO
Automated macrophage counting in DLBCL tissue samples: a ROF filter based approachWagner M, Hansel R, Reinke S, Richter J, Altenbuchinger M, Braumann U-D, Spang R, Loffler Mk Klapper W2019Biological Proectures OnlineOncologyObject ColocalizationHALO
Impact of pre?therapy glioblastoma multiforme microenvironment on clinical response to autologous CMV?specific T?cell therapy Walker DG, Shakya R, Morrison B, Neller MA, Matthews KK, Nicholls J, Smith C, Khanna R2019Clinical & Translational ImmunologyImmuno-oncologyClassifierHALO
Human pseudoislet system enables detection of differences in G-protein-coupledreceptor signaling pathways between ? and ? cellsWalker JT, Haliyur R, Nelson HA, Ishahak M, Poffenberger G, Aramandla R, Reihsmann C, Luchsinger JR, Saunders DC, Wang P, Garcia-Ocana A, Bottino R, Agarwal A, Powers AC, Brissove M2019bioRxivHALO
Multiplex Immunofluorescence of Bone Marrow Core Biopsies: Visualizing the Bone Marrow Immune Contexture Walters DK, Jelinek DF2019Journal of Histochemistry & CytochemistryHALO
No Evidence of Neurogenesis in Adult Rat Sympathetic Ganglia Following Guanethidine-Induced Neuronal Loss Walters KM, Boucher M, Boucher GG, Opsahl AC, Mouton PR, Liu C-N, Ritenour CR, Kawabe TT, Pryski HN, Somps CJ2019Toxicologic PathologyToxicology, NeuroscienceHALO
ATDC is required for the initiation of KRAS-induced pancreatic tumorigenesis Wang L, Yang H, Zamperone A, Diolaiti D, Palmbos PL, Abel EV, Purohit V, Dolgalev I, Rhim AD, Ljungman M, Hadju CH, Halbrook CJ, Bar-Sagi D, di Magliano MP, Crawford HC, Simeone DM2019Genes & DevelopmentOncologyHALO
Monocytes/Macrophages play a pathogenic role in IL-23 mediated psoriasis-like skin inflammation Wang Y, Edelmayer R, Wetter J, Salte K, Gauvin D, Leys L, Paulsboe S, Su Z, Weinberg I, Namovic M, Gauld SB, Honore P, Scott VE, McGaraughty S2019Scientific ReportsImmunology, DermatologyHALO
Myeloid Cell-Derived HB-EGF Drives Tissue Recovery After Pancreatitis Wen H-J, Gao S, Wang Y, Ray M, Magnuson MA, Wright CVE, Di Magliano MP, Frankel TL, Crawford HC2019Cellular and Molecular Gastroenterology and HepatologyImmunologyHALO
Nrf2 represses the onset of type 1 diabetes in non-obese diabetic mice Yagishita Y, Uruno A, Chartoumpekis DV, Kensler TW, Yamamoto M2019The Journal of EndocrinologyMetabolismHALO
Systemic mRNA Therapy for the Treatment of Fabry Disease: Preclinical Studies in Wild-Type Mice, Fabry Mouse Model, and Wild-Type Non-human Primates Zhu S, Li S, Escuin-Ordinas H, Dimatteo R, Xia W, Ribas A, Segura T2019The American Journal of Human GeneticsMetabolismHALO
Selective modulation of the androgen receptor AF2 domain rescues degeneration in spinal bulbar muscular atrophy Badders NM, Korff A, Miranda HC, Vuppala PK, Smith RB, Winborn BJ, Quemin ER, Sopher BL, Dearman J, Messing J, Kim NC, Moore J, Freibaum BD, Kanagaraj AP, Fan B, Tillman H, Chen P-C, Wang Y, Freeman BB, Li Y, Kim HJ, La Spada AR, Taylor JP2018Nature MedicineMyologyArea QuantificationHALO
Anti-NKG2A mAb Is a Checkpoint Inhibitor that Promotes Anti-tumor Immunity by Unleashing Both T and NK CellsAndre ?P, Denis C, Soulas C, Bourbon-Caillet C, Lopez J, Arnoux T, Ble?ry M, Bonnafous C, Gauthier L, Morel A, Rossi B, Remark R, Breso V, Bonnet E, Habif G, Guia S, Lalanne AI, Hoffmann C, Lantz O, Fayette J, Boyer-Chammard A, Zerbib R, Dodion P, Ghadially H, Jure-Kunkel M, Morel Y, Herbst R, Narni-Mancinelli E, Cohen RB, Vivier E2018CellOncology, Immuno-oncologyArea Quantification, CytonuclearHALO
Tuning of delta-protocadherin adhesion through combinatorial Bisogni AJ, Ghazanfar S, Williams EO, Marsh HM, Yang JYH, Lin DM2018eLifeNeuroscienceArea QuantificationHALO
RAD51 foci as a functional biomarker of homologous recombination repair and PARP inhibitor resistance in germline BRCA mutated breast cancer Cruz C, Castroviejo-Bermejo M, Gutiérrez-Enríquez S, Llop-Guevara A, Ibrahim YH, Gris-Oliver A, Bonache S, Morancho B, Bruna A, Rueda OM, Lai Z, Polanska UM, Jones GN,Kristel P, de Bustos L, Guzman M, Rodriguez O, Grueso J, Montalban G, Caratú G, Mancuso F, Fasani R, Jiménez J, Howat WJ, Dougherty B, Vivancos A, Nuciforo P, Serres-Créixams X, Rubio IT, Oaknin A, Cadogan O, Barrett JC, Caldas C, Baselga J, Saura C, Cortés J, Arribas J, Jonkers J, Díez O, O’Connor MJ, Balmaña J, SerraV2018Annals of OncologyOncologyClassifier, CytonuclearHALO
The brain-penetrant clinical ATM inhibitor AZD1390 radiosensitizes and improves survival of preclinical brain tumor models Durant ST, Zheng L, Wang Y, Chen K, Zhang L, Zhang T, Yang Z, Riches L, Trinidad AG, Fok JHL, Hunt T, Pike KG, Wilson J, Smith A, Colclough N, Reddy VP, Sykes A, Janefeldt A, Johnström P, Varnäs K, Takano A, Ling S, Orme J, Stott J, Roberts C, Barrett I, Jones G, Roudier M, Pierce A, Allen J, Kahn J, Sule A, Karlin J, Cronin A, Chapman M, Valerie K, Illingworth R, Pass M2018Science AdvancesOncology, NeuroscienceClassifier, CytonuclearHALO
High response rate to PD-1 blockade in desmoplastic melanomas Eroglu Z, Zaretsky JM, Hu-Lieskovan H, Kim DW, Algazi A, Johnson DB, Liniker E, Kong B, Munhoz R, Rapisuwon S, Gherardini PF, Chmielowski B, Wang X, Shintaku IP, Wei C, Sosman JA, Joseph RW, Postow MA, Carlino MS, Hwu W-J, Scolyer RA, Messina J, Cochran AJ, Long GV, Ribas A2018NatureOncology, Immuno-oncologyCytonuclearHALO
Early Stage HER2-Positive Breast Cancers Not Achieving a pCR From Neoadjuvant Trastuzumab- or Pertuzumab-Based Regimens Have an Immunosuppressive Phenotype Force J, Howie LJ, Abbot SE, Bentley R, Marcom PK, Kimmick G, Westbrook K, Sammons SL, Parks M, Topping DL, Emerson R, Broadwater G, Hyslop T, Blackwell KL, Nair SK2018Clinical Breast CancerOncology, Immuno-oncologyCytonuclearHALO
Bortezomib prevents cytarabine resistance in MCL, which is characterized by down-regulation of dCK and up-regulation of SPIB resulting in high NF-?B activity Freiburghaus C, Emruli VK, Johansson A, Eskelund CW, Grønbæk K, Olsson R, Ek F, Jerkeman M, Ek S2018BMC CancerOncology Classifier, CytonuclearHALO
The novel ATM inhbitior (AZ31) enhances antitumor activity in patient derived xenografts that are resistant to irinotecan montherapy Greene J, Nguyen A, Bagby SM, Jones GN, Tai WM, Quackenbush KS, Schreiber A, Messersmith WA, Devaraj KM, Blatchford P, Eckhardt SG, Cadogan EB, Hughes GD, Smith A, Pitts TM, Arcaroli JJ2018OncotargetOncology Classifier, Area Quantification, CytonuclearHALO
Cystic fibrosis–related diabetes is caused by islet loss and inflammation Hart NJ, Aramandla R, Poffenberger G, Fayolle C, Thames AH, Bautista A, Spigelman AF, Babon JAB, DeNicola ME, Dadi PK, Bush WS, Balamurugan AN, Brissova M, Dai C, Prasad N, Bottino R, Jacobson DA, Drumm ML, Kent SC, MacDonald PE, Powers AC2018JHI InsightsImmunology, Metabolism, FibrosisCytonuclearHALO
Attenuation of diet-induced hypotalamic inflammation following bariatric surgery in female mice Herrick MK, Favela KM, Simerly RB, Abumrad NN, Bingham NC2018Molecular MedicineImmunology, NeuroscienceCytonuclearHALO
pRAD50: a novel and clinically applicable pharmacodynamic biomarker of both ATM and ATR inhibition identified using mass spectrometry and immunohistochemistryJones GN, Rooney C, Griffin N, Roudier M, Young LA, Garcia-Trinidad A, Hughes GD, Whiteaker JR, Wilson Z, Odedra R, Zhao L, Ivey RG, Howat WJ, Harrington EA, Carrett JC, Ramos-Montoya A, Lau A, Paulovich AG, Cadogan EB, Pierce AJ2018British Journal of CancerOncologyClassifier, CytonuclearHALO
Mice harboring the human SLC30A8 R138X loss-of-function mutation have increased insulin secretory capacity Kleinera S, Gomeza D, Megraa B, Naa E, Bhavsara R, Cavinoa K, Xina Y, Rojasa J, Dominguez-Gutierreza G, Zambrowicza B, Carratb G, Chabosseaub P, Hub M, Murphya AJ, Yancopoulosa GD, Rutterb GA, Gromadaa J2018Proceedings of the National Academy of SciencesMetabolismCytonuclearHALO
TGF? inhibition restores a regenerative response in acute liver injury by suppressing paracrine senescence Bird TG, Müller M, Boulter L, Vincent DF, Ridgway RA, Elena Lopez-Guadamillas E, Lu W-Y, Jamieson T, Govaere O, Campbell AD, Ferreira-Gonzalez S, Cole AM, Hay T, Simpson KJ, Clark W, Hedley A, Clarke M, Gentaz P, Nixon C, Bryce S, Kiourtis C, Sprangers J, Nibbs RJB, Van Rooijen N, Bartholin L, McGreal SR, Apte U, Barry ST, Iredale JP, Clarke AR, Serrano M, Roskams TA, Sansom OJ, Forbes SJ2018Science Translational MedicineMetabolismISH/FISHHALO
Food Perception Primes Hepatic ER Homeostasis via Melanocortin-Dependent Control of mTOR Activation Brandt C, Nolte H, Henschke S, Ruud LE, Awazawa M, Morgan DA, Gabel P, Sprenger H-G, Hess ME, Günther S, Langer T, Rahmouni K, Fenselau H, Krüger M, Brüning JC2018CellNeuroscience, MetabolismISH/FISHHALO
Gene Signature of Proliferating Human Pancreatic ?-CellsDominguez Gutierrez G, Xin Y, Okamoto H, Kim J, Lee A-H, Ni M, Adler C, Yancopoulos GD, Murphy AJ, Gromada J2018EndocrionologyMetabolismISH/FISHHALO
A phase II study of the dual mTOR inhibitor MLN0128 in patients with metastatic castration resistant prostate cancer Graham L, Banda K, Torres A, Carver BS, Chen Y, Pisano K, Shelkey G, Curley T, Scher HI, Lotan TL, Hsieh AC, Rathkopf DE2018Investigational New DrugsOncologyISH/FISHHALO
Ultrasensitive automated RNA in situ hybridization for kappa and lambda light chain mRNA detects B-cell clonality in tissue biopsies with performance comparable or superior to flow cytometryGuo L, Wang Z, Anderson CA, Doolittle E, Kernag S, Cotta CV, Ondrejka SL, Ma X-J, Cook JR2018Modern PathologyOtherClassifier, ISH/FISHHALO
CD163+ macrophages promote angiogenesis and vascular permeability accompanied by inflammation in atherosclerosis Guo L, Akahori H, Harari E, Smith SL, Polavarapu R, Karmali V, Otsuka F, Gannon RL, Braumann RE, Dickinson MH, Gupta A, Jenkins AL, Lipinski MJ, Kim J, Chhour P, de Vries PS, Jinnouchi H, Kutys R, Mori H, Kutyna MD, Torii S, Sakamoto A, Choi CU, Cheng Q, Grove M, Mariem A. Sawan MA, Zhang Y, Cao Y, Kolodgie FD, Cormode DP, Arking DE, Boerwinkle E, Morrison AC, Erdmann J, Sotoodehnia N, Virmani R, and Finn AV2018The Journal of Clinical InvestigationImmunologyLayer ThicknessHALO
Glucagon contibutes to liver zonation Cheng X, Kim SK, Okamoto H, Xin Y, Yancopoulos GD, Murphy AJ, Gromada J2018Proceedings of the National Academy of SciencesMetabolismArea QuantificationHALO
Evaluation of PD-L1 expression on vortex-isolated circulating tumor cells in metastatic lung cancer Dhar M, Wong J, Che J, Matsumoto M, Grogan T, Elashof D, Garon EB, Goldman JW, Christen ES, Carlo DD, Kulkarni RP2018Scientific ReportsOncology, Immuno-oncologyArea QuantificationHALO
Digital image analysis of Ki67 proliferation index in breast cancer using virtual dual staining on whole tissue sections: clinical validation and inter?platform agreement Koopman T, Buikema HJ, Hollema H, de Bock GH, van der Vegt B2018Breast Cancer Research and TreatmentOncology Classifier, CytonuclearHALO
The neurotrophic tyrosine kinase receptor TrkA and its ligand NGF are increased in squamous cell carcinomas of the lung Gao F, Griffin N, Faulkner S, Rowe CW, Williams L, Roselli S, Thorne RF, Ferdoush A, Jobling P, Walker MM, Hondermarck H2018Scientific ReportsOncologyArea QuantificationHALO
Ovarian Tumor Microenvironment Signaling: Convergence on the Rac1 GTPaseHudson LG, Gillette JM, Kang H, Rivera MR, Wandinger-Ness A2018CancersReviewClassifier, Cytonuclear, Figure MakerHALO
A murine glaucoma model induced by rapid in vivo photopolymerization of hyaluronic acid glycidyl methacrylate Guo C, Qu X, Rangaswamy N, Leehy B, Xiang C, Rice D, Prasanna G2018PLOS OneBiomaterialsArea QuantificationHALO
Systemic messenger RNA as an etiological treatment for acute intermittent porphyria Jiang L, Berraondo P, Jericó D, Guey LT, Sampedro A, Frassetto A, Benenato KE, Burke K, Santamaría E, Alegre M, Pejenaute A, Kalariya M, Butcher W, Park JS, Zhu X, Sabnis S, Kumarasinghe ES, Salerno T, Kenney M, Lukacs CM, Ávila MA, Martini PGV, Fontanellas A2018Nature MedicineMetabolismArea QuantificationHALO
Tumor Microenvironment in Functional Adrenocortical Adenomas: Immune Cell Infiltration in Cortisol-producing Adrenocortical Adenoma Kitawaki Y, Nakamura Y, Kubota-Nakayama F, YamazakiY, Miki Y, Hata S, Ise K, Kikuchie K, MorimotoR, Satoh F, Sasano H2018Human PathologyOncology, Immuno-oncologyArea QuantificationHALO
Up-Regulation of Iba-1 and GFAP in the Acidic Saline Model of Chronic Widespread Musculoskeletal Pain: A Pilot Study Examining the Relationship Between Gliosis and HyperalgesiaLambert DM, Kumar U, Hafell UO2018Journal of Neuroscience and NeuropharmacologyNeuroscienceArea Quantification, Partitions (tiles, margins)HALO
Tough Composite Hydrogels with High Loading and Local Release of Biological Drugs Li J, Weber E, Guth?Gundel S, Schuleit M, Kuttler A, Halleux C, Accart N, Doelemeyer A, Basler A, Tigani B, Wuersch K, Fornaro M, Kneissel M, Stafford A, Freedman BR, Mooney DJ2018Advanced Healthcare MaterialsBiomaterialsArea QuantificationHALO
Blocking HIF signaling via novel inhibitors of CA9 and APE1/Ref-1 dramatically affects pancreatic cancer cell survival Logsdon DP, Fenil S, Fabrizio C, Supuran CT, Kamocka M, Jacobsen MH, Sandusky GE, Kelley MR, Fishel ML2018Scientific ReportsOncology Classifier, CytonuclearHALO
Diet-Induced Growth Is Regulated via Acquired Leptin Resistance and Engages a PomcSomatostatin-Growth Hormone Circuit Lohr H, Hess S, Pereira MMA, Reino P, Leibold S, Schenkel C, Wunderlich CM, Kloppenburg P, Bruning JC, Hammerschmidt M2018Cell ReportsNeuroscience, MetabolismCytonuclearHALO
Chronic Intermittent Hypoxia Induces Robust Astrogliosis in an Alzheimer's Disease-Relevant Mouse Model Macheda T, Roberts K, Lyons DN, Higgins E, Ritter KJ, Lin A-L, Alilain WJ, Bachstetter AD2018NeuroscienceNeuroscienceArea QuantificationHALO
Cellular milieu imparts distinct pathological ?-synuclein strains in ?-synucleinopathies Peng C, Gathagan RJ, Covell DJ, Medellin C, Stieber A, Robinson JL, Zhang B, Pitkin RM, Olufemi MF, Luk KC, Trojanowski JQ, Lee VM-Y2018NatureNeuroscienceArea QuantificationHALO
Differential ?-synuclein expression contributes to selective vulnerability of hippocampal neuron subpopulations to fibril-induced toxicity Luna E, Decker SC, Riddle DM, Caputo A, Zhang B, Cole T, Caswell C, Xie SX, Lee VMY, Luk KC2018Acta NeuopathologicaNeuroscience Area Quantification, CytonuclearHALO
Digital image analysis improves precision of PD?L1 scoring in cutaneous melanoma Koelzer VH, Gisler A, Hanhart JC, Griss J, Wagner SN, Willi N, Cathomas G, Sachs M, Kempf W, Thommen DS, Mertz KD2018HistopathologyOncology, Immuno-oncology Classifier, Multiplex IHCHALO
Lenvatinib inhibits angiogenesis and tumor fibroblast growth factor signaling pathways in human hepatocellular carcinoma models Matsuki M, Hoshi T, Yamamoto Y, Ikemori-Kawada M, Minoshima Y, Funahashi Y, Matsui J2018Cancer MedicineOncologyCytonuclearHALO
Hot Spot and Whole-Tumor Enumeration of CD8(+) Tumor-Infiltrating Lymphocytes Utilizing Digital Image Analysis Is Prognostic in Triple-Negative Breast Cancer McIntire PJ, Irshaid L, Liu Y, Chen Z, Menken F, Nowak E, Shin SJ, Ginter PS2018Clinical Breast CancerOncology, Immuno-oncologyCytonuclear, Figure MakerHALO
Altered dopaminergic regulation of the dorsal striatum is able to induce tic-like movements in juvenile rats Nespoli E, Rizzo F, Boeckers T, Schulze U, Hengerer B2018PLOS OneNeuroscienceCytonuclearHALO
Induction of hemangiosarcoma in mice after chronic treatment with S1P-modulator siponimod and its lack of relevance to rat and human Pognan F, Mahl JA, Papoutsi M, David Ledieu D, Raccuglia M, Theil D, Voytek SB, Devine PJ, Kubek?Luck K, Claudio N, Cordier A, Heier A, Kolly C, Hartmann A, Chibout S-D, Bouchard P, Trendelenburg C2018Archives of ToxicologyToxicology Classifier, CytonuclearHALO
Intermittent Hypoxia Exacerbates Increased Blood Pressure in Rats with Chronic Kidney Disease Riggs J, Pace C, Ward HH, Gonzalez Bosc L, Rios L, Barrera A, Kanagy NL2018American Jornal of Physiology-Renal PhysiologyMetabolism Classifier, CytonuclearHALO
Mild Impairment of Mitochondrial OXPHOS Promotes Fatty Acid Utilization in POMC Neurons and Improves Glucose Homeostasis in Obesity Timper K, Paeger L, Sánchez-Lasheras C, Varela L, Jais A, Nolte H, Vogt MC, Hausen AC, Heilinger C, Evers N, Pospisilik JA, Penninger JM, Taylor EB, Horvath TL, Kloppenburg P, Brüning JC2018Cell RepotsNeuroscience, MetabolismCytonuclearHALO
Biomarker Evaluation and Toxic Effects of an Acute Oral and Systemic Fumonisin Exposure of Pigs with a Special Focus on Dietary Fumonisin Esterase SupplementationSchertz H, Danicke S, Frahm J, Schatzmayr D, Dohnal I, Bichl G, Schwartz-Zimmerman HE, Colicchia S, Breves G, Teifke JP, Kluess J2018ToxinsToxicologyClassifierHALO
Mutant myocilin impacts sarcomere ultrastructure in mouse gastrocnemius muscle Lynch JM, Dolman AJ, Guo C, Dolan K, Xiang C, Reda S, Li B, Prasanna G2018PLOS OneGastroenterology, MyologyISH/FISHHALO
Breast and pancreatic cancer interrupt IRF8-dependent dendritic cell development to overcome immune surveillance Meyer MA, Baer JM, Knolhoff BL, Nywening TM, Panni RZ, Su X, Weilbaecher KN, Hawkins WG, Ma C, Fields RC, Linehan DC, Challen GA, Faccio R, Aft RL, DeNardo DG2018Nature CommunicationsOncology, Immuno-oncologyISH/FISHHALO
What is the added value of digital image analysis of HER2 immunohistochemistry in breast cancer in clinical practice? A study with multiple platforms Koopman T, Buikema HJ, Hollema H, de Bock GH, van der Vegt B2018HistopathologyOncologyMembraneHALO
Tumor Cell Subtypes Based on the Intracellular Hormonal Activity in KCNJ5-Mutated Aldosterone-Producing Adenoma Yamazaki Y, Omata K, Tezuka Y, Ono Y, Morimoto R, Adachi Y, Ise K, Nakamura Y, Gomez-Sanchez CE, Shibahara Y, Kitamoto T, Nishikawa T, Ito S, Satoh F, Sasano H2018HypertensionOncology Area Quantification, CytonuclearHALO
Disease Progression and Pharmacological Intervention in a Nutrient-Deficient Rat Model of Nonalcoholic Steatohepatitis Tølbøl KS, Stierstorfer B, Rippmann JF, Veidal SS, Rigbolt KTG, Schönberger T, Gillum MP, Hansen HH, Vrang N, Jelsing J, Feigh M, Broermann A2018Digestive Diseases and SciencesMetabolismArea QuantificationHALO
FOXM1 contributes to treatment failure in acute myeloid leukemia Khan I, Halasi M, Patel A, Schultz R, Kalakota N, Chen Y-H, Aardsma N, Liu L, Crispino JD, Mahmud N, Frankfurt O, Gartel AL2018JCI InsightOncologyMultiplex IHCHALO
A transcriptionally and functionally distinct PD-1+ CD8+ T cell pool with predictive potential in non-small-cell lung cancer treated with PD-1 blockade Thommen DS, Koelzer VH, Herzig P, Roller A, Trefny M, Dimeloe S, Kiialainen A, Hanhart J, Schil C, Hess C, Prince SS, Wiese M, Lardinois D, Ho P-C, Klein C, Karanikas V, Mertz KD, Schumacher TN, Zippelius A2018Nature MedicineOncology, Immuno-oncologyMultiplex IHCHALO
Relationship between mismatch repair immunophenotype and long-term survival in patients with resected periampullary adenocarcinoma Heby M, Lundgren S, Nodin B, Elebro J, Eberhard J, Jirström K2018Journal of Translational MedicineOncology, Immuno-oncologyObject ColocalizationHALO
Luminally-polarized mural and vascular remodeling in ileal strictures of Crohn's Disease Zhang X, Ko HM, Torres J, Panchal HJ, Cai Z, WagneR M, Sands BE, Colombel J-F, Cho J, Taouli B, Harpaz N2018Human PathologyImmunologyLayer ThicknessHALO
Age-related pathology after adenoviral overexpression of the leucine-rich repeat kinase 2 in the mouse striatum Kritzingerab A, Ferger B, Gillardon F, Stierstorfer B, Birk G, Kochanek S, Ciossek T2018Neurobiology of AgingNeuroscienceArea Quantification, Object Colocalization, MicrogliaHALO
Pharmacogenetic neuronal stimulation increases human tau pathology and trans-synaptic spread of tau to distal brain regions in mice Schultz MK, Gentzel R, Usenovic M, Gretzul C, Ware C, Parmentier-Batteur S, Schachter JB, Zariwala HA2018Neurobiology of DiseaseNeuroscienceObject ColocalizationHALO
Comparison of Biologic Effect and Particulate Embolization after Femoral Artery Treatment with Three Drug-Coated Balloons in Healthy Swine Model Torii S, Jinnouchi H, Sakamoto A, Romero ME, Kolodgie FD, Virmani R, Finn AV2018Journal of Vascular and Interventional RadiologyOtherObject ColocalizationHALO
Multidimensional, quantitative assessment of PD-1/PD-L1 expression in patients with Merkel cell carcinoma and association with response to pembrolizumab Giraldo NA, Nguyen P, Engle EL, Kaunitz GJ, Cottrell TR, Berry S, Green B, Soni A, Cuda JD, Stein JE, Sunshine JC, Succaria F, Xu H, Ogurtsova A, Danilova L, Church CD, Miller NJ, Fling S, Lundgren L, Ramchurren N, Yearley JH, Lipson EJ, Cheever M, Anders RA, Nghiem PT, Topalian SL, Taube JM2018Journal for ImmunoTherapy of CancerOncology, Immuno-oncologySpatial Analysis, Serial SectionHALO
A CD3-bispecific molecule targeting P-cadherin demonstrates T cell-mediated regression of established solid tumors in mice TS Fisher, AT Hooper, J Lucas, TH Clark, AK Rohner, B Peano, MW Elliott, K Tsaparikos, H Wang, J Golas, M Gavriil, N Haddish-Berhane, L Tchistiakova, H-P Gerber, AR Root, C May2018Cancer Immunology, ImmunotherapyOncology, Immuno-oncologyArea QuantificationHALO
Innate Sex Bias of Staphylococcus aureus Skin Infection Is Driven by a-HemolysinCastleman MJ, Pokhrel S, Triplett KD, Kusewitt DF, Elmore BO, Joyner JA, Femling JK, Sharma G, Hathaway HJ, Prossnitz ER, Hall PR2018The Journal of ImmunologyInfectious DiseaseHALO
Subclonal evolution of pulmonary adenocarcinomas delineated by spatially distributed somatic mitochondrial mutationsKazdal D, Harms A, Endris V, Penzel R, Kriegsmann M, Eichhorn F, Muley T, Stenzinger A, Pfarr N, Weichert W, and Warth A2018Lung CancerHALO
Molecular and immunologic analysis of laryngeal squamous cell carcinoma in smokers and non-smokers Malm I-J, rooper LM, Bishop JA, Ozgursoy SK, Hillel AT, Akst LM, Best SR2018American Journal of OtolaryngologyOncology, Immuno-oncologyHALO
Class 4 Semaphorins and Plexin-B receptors regulate GABAergic and glutamatergic synapse development in the mammalian hippocampus McDermott JE, Goldblatt D, Paradis S2018Molecular and Cellular NeuroscienceNeuroscienceHALO
Acquired cancer resistance to combination
immunotherapy from transcriptional loss
of class I HLA
Paulson KG, Voillet V, McAfee MS, Hunter DS, Wagener FD, Perdicchio, Valente WJ, Koelle SJ, Church CD, Vandeven N, Thomas H, Colunga AG, Iyer JG, Yee C, Kulikauskas R, Koelle DM, Pierce RH, Bielas JH, Greenberg PD, Bhatia S, Gottardo R, Nghiem P, Chapuis AG2018Nature CommunicationsImmuno-oncologyPartitions (tiles, margins), Figure MakerHALO
Digital image analysis supports a nuclear-to-cytoplasmic ratio cutoff value below 0.7 for positive for high-grade urothelial carcinoma and suspicious for high-grade urothelial carcinoma in urine cytology specimensMcIntire PJ, Snow JT, Elsoukkary SS, Soong L, Sweeney J, Robinson BD, Siddiqui MT2018Cancer CytopathologyOncologyHALO
Ossabaw Pigs With a PCSK9 Gain?of?Function Mutation Develop Accelerated Coronary Atherosclerotic Lesions: A Novel Model for Preclinical Studies Yuan F, Guo L, Park K-H, Woollard JR, Taek?Geun K, Jiang K, Melkamu T, Zang B, Smith SL, Fahrenkrug SC, Kolodgie FD, Lerman A, Virmani R, Lerman LO, Carlson DF2018Journal of the American Heart AssociationMyologyArea QuantificationHALO
Accelerated wound healing by injectable star poly(ethylene)-b-poly(propylene sulfide) scaffolds loaded with poorly water-soluble drugs Zhu X, Yin L, Theisen M, Zhuo J, Siddiqui S, Levy B, Presnyak V, Frassetto A, Milton J, Salerno T, Benenato KE, Milano J, Lynn A, Sabnis S, Burke K, Besin G, Lukacs CM, Guey LT, Finn PF, Martini PGV2018Journal of Controlled ReleaseBiomaterials, Wound HealingCytonuclearHALO
The use of automated Ki67 analysis to predict Oncotype DX risk-of-recurrence categories in early-stage breast cancerThakur SS, Li H, Chan AMY, Tudor R, Bigras G, Morris D, Enwere EK2018PLOS ONEOncologyCytonuclear, Figure Maker, Partitions (tiles, margins)HALO
Inhibiting Interleukin 36 Receptor Signaling Reduces Fibrosis in Mice with Chronic Intestinal Inflammation Scheibe K, Kersten C, Schmied A, Vieth M, Primbs T, Carlé B, Knieling F, Claussen J, Klimowicz AC, Zheng J, Baum P, Meyer S, Schürmann S, Friedrich O, Waldner MJ, Rath T, Wirtz S, Kollias G, Ekici AB, Atreya R, Raymond EL, Mbow ML, Neurath MF, Neufert C2018GastroenterologyImmunology, FibrosisHALO
Low and variable tumor reactivity of the intratumoral TCR repertoire in human cancers Scheper W, Kelderman S, Fanchi LF, Linnemann C, Bendle G, de Rooij MAJ, Hirt C, Mezzadra R, Slagter M, Dijkstra K, Kluin RJC, Snaebjornsson P, Milne K, Nelson BH, Zijlmans H, Kenter G, Voest EE, Haanen JBAG, Schumacher TN2018Nature MedicineOncology, Immuno-oncologyCytonuclearHALO
A suboptimal maternal diet combined with accelerated postnatal growth results in an altered aging profile in the thymus of male rats Tarry-Adkins JL, Aiken CE, Ashmore TJ, Fernandez-Twinn DS, Chen J-H, Ozanne SE2018The FASEB JournalNeuroscience, MetabolismClassifier, Vacuole HALO
A brain-penetrant triazolopyrimidine enhances microtubule-stability, reduces axonal dysfunction and decreases tau pathology in a mouse tauopathy model. Zhang B, Yao Y, Cornec A-S, Oukoloff K, James MJ, Koivula P, Trojanowski JQ, Smith AB III, Lee VM-Y, Ballatore C, Brunden KR2018Molecular NeurodegenerationNeuroscienceArea QuantificationHALO
GABA promotes ?-cell proliferation, but does not overcome impaired glucose homeostasis associated with diet-induced obesity Untereiner A, Abdo S, Bhattacharjee A, Gohil H, Pourasgari F, Ibeh N, Lai M, Batchuluun B, Wong A, Khuu N, Liu Y, Rijjal DA, Winegarden N, Virtanen C, Orser BA, Cabrera O, Varga G, Rocheleau J, Dai FF, Wheeler MB 2018The FASEB JournalMetabolismCytonuclearHALO
Ki67 reproducibility using digital image analysis: an inter-platform and inter-operator studyAcs B, Pelekanou V, Bai Y, Martinez-Morilla S, Toki M, Leung SCY, Nielsen TO, Rimm DL2017Laboratory InvesigationsOncologyClassifier, CytonuclearHALO
Efficacy of injectable praziquantel for elimination of trematode metacercariae in bluegills (Lepomis macrochirus) and quantification of parasite death by propidium iodide staining Bader C, Chelladurai JJ, Starling DE, Jones DE, Brewer MT2017Parasitology ResearchInfectious DiseaseArea QuantificationHALO
Both brown adipose tissue and skeletal muscle thermogenesis processes are activated during mild to severe cold adaptation in mice Bal NC, Singh S, Reis FCG, Maurya SK, Pani S, Rowland LA, Periasamy M2017Journal of Biological ChemistryMyologyArea QuantificationHALO
Sex- and Dose-Specific Effects of Maternal Bisphenol A Exposure on Pancreatic Islets of First- and Second-Generation Adult Mice Offspring Bansal A, Rashid C, Xin F, Li C, Polyak E, Duemler A, van der Meer T, Stefaniak M, Wajid S, Doliba N, Bartolomei MS, Simmons RA2017Environmental Health PerspectivesMetabolismArea QuantificationHALO
The R-enantiomer of ketorolac delays mammary tumor development in mouse mammary tumor virus-polyoma middle T antigen (MMTV-PyMT) mice AS Peretti, D Dominguez, MM Grimes, HJ Hathaway, ER Prossnitz, MR Rivera, A Wandinger-Ness, D Kusewitt, LG Hudson2017The American Journal of PathologyOncologyClassifier, Area Quantification, CytonuclearHALO
The clinical impact of tumour-infiltrating lymphocytes in colorectal cancer differs by anatomical subsite: A cohort study Berntsson J, Svensson MC, Leandersson K, Nodin B, Micke P, Larsson AH, Eberhard J, Jirstrom K2017International Journal of CancerOncology, Immuno-oncologyCytonuclearHALO
Acetate Recapturing by Nuclear Acetyl-CoA Synthetase 2 Prevents Loss of Histone Acetylation during Oxygen and Serum Limitation Bulusu V, Tumanov S, Michalopoulou E, van den Broek NJ, MacKay G, Nixon C, Dhayade S, Schug ZT, Voorde JV, Blyth K, Gottlieb E, Vazquez A, Kamphorst JJ2017Cell ReportsOncology, MetabolismCytonuclearHALO
Loss of the imprinted, non-coding Snord116 gene cluster in the interval deleted in the Prader Willi syndrome results in murine neuronal and endocrine pancreatic developmental phenotypes Burnett LC, Hubner G, LeDuc C, Morabito MV, Carli JFM, Leibel RL2017Human Moledular GeneticsMetabolismCytonuclearHALO
Identification of the SUMO E3 ligase PIAS1 as a potential survival biomarker in breast cancer Chanda A, Chan A, Deng L, Kornaga EN, Enwere EK, Morris DG, Bonni S2017PLOS OneOncologyClassifier, CytonuclearHALO
Spatial distribution of EGFR and KRAS mutation frequencies correlates with histological growth patterns of lung adenocarcinomasDietz S, Harms A, Endris V, Eichhorn, Kriegsmann M, Longuespée R, Stenzinger A, Sültmann H, Warth A, and Kazdal D2017International Journal of CancerOncologyCytonuclearHALO
Aging African green monkeys manifest transcriptional, pathological, and cognitive hallmarks of human Alzheimer's disease Cramer PE, Gentzel RC, Tanis KQ, Vardigan J, Wang Y, Connolly B, Manfre P, Lodge K, Renger JJ, Zerbinatti C, Uslaner JM2017Neurobiology of AgingNeuroscienceObject ColocalizationHALO
Retinoic-acid-orphan-receptor-C inhibition suppresses Th17 cells and induces thymic aberrations Guntermann C, Piaia A, Hamel M-L, Theil D, Rubic-Schneider T, del Rio-Espinola A, Dong L, Billich A, Kaupmann K, Dawson J, Hoegenauer K, Orain D, Hintermann S, Stringer R, Pate DD, Doelemeyer A, Deurinck M, and Schümann J2017JCI InsightOncology, Immuno-oncology Area Quantification, CytonuclearHALO
Digital image analysis agrees with visual estimates of bone marrow trephine biopsy cellularity Hagiya AS, Etman A, Siddiqi IN, Cen S, Matcuk Jr GR, Brynes RK, Salama ME2017International Journal of Laboratory HematologyOncologyCytonuclearHALO
Selective imaging of internalized proteopathic ?-synuclein seeds in primary neurons reveals mechanistic insight into transmission of synucleinopathies Karpowicz RJ, Haney CM, Mihaila TS, Sandler RM, Petersson EJ, and Lee VM-Y2017Journal of Biological ChemistryNeuroscience Area Quantification, CytonuclearHALO
Prevalence of somatic mitochondrial mutations and spatial distribution of mitochondria in non-small cell lung cancer Kazdal D, Harms A, Endris V, Penzel R, Oliveira C, Kriegsmann M, Longuespee R, Winter H, Schneider MA, Muley T, Pfarr N, Weichert W, Stenzinger A,Warth A2017British Journal of CancerOncologyCytonuclearHALO
Amino Acid Transporter Slc38a5 Controls Glucagon Receptor Inhibition-Induced Pancreatic ? Cell Hyperplasia in MiceKim J, Okamoto H, Huang ZJ, Anguiano G, Chen S, Liu Q, Cavino K, Xin Y, Na E, Hamid R, Lee J, Zambrowicz B, Unger R, Murphy AJ, Xu Y, Yancopoulos GD, Li W, Gromada J2017Cell MetabolismMetabolismCytonuclearHALO
APNG as a prognostic marker in patients with glioblastoma Fosmark S, Hellwege S, Dahlrot RH, Jensen KL, Derand H, Lohse J, Sørensen MD, Hansen S, Kristensen BW2017PLOS OneOncologyISH/FISHHALO
TGF? pathway limits dedifferentiation following WNT and MAPK pathway activation to suppress intestinal tumourigenesis Cammareri P, Vincent DF, Hodder MC, Ridgway RA, Murgia C, Nobis M, Campbell AD, Varga J, Huels DJ, Subramani C, Prescott KLH, Nixon C, Hedley A, Barry ST, Greten FR, Inman GJ, and Sansom OJ2017Cell Death and DifferentiationOncologyLayer ThicknessHALO
Digital analysis and epigenetic regulation of the signature of rejection in colorectal cancer Koelzer VH, Sokol L, Zahnd S, Christe L, Dawson H, Berger MD, Inderbitzin D, Zlobec I, Lugli A2017OncoImmunologyOncologyCytonuclearHALO
Asymmetry of post-mortem neuropathology in behavioural-variant frontotemporal dementia DJ Irwin, CT McMillan, SX Xie, K Rascovsky, VM Van Deerlin, HB Coslett, R Hamilton, G Aguirre, EB Lee, VMY Lee, JQ Trojanowski, M Grossman2017BrainNeuroscienceArea Quantification, Partitions (tiles, margins)HALO
Co-clinical Analysis of a Genetically Engineered Mouse Model and Human Prostate Cancer Reveals Significance of NKX3.1 Expression for Response to 5?-reductase Inhibition Dutta A, Panja S, Virk RK, Kim JY, Zott R, Cremers S, Golombos DM, Liu D, Mosquera JM, Mostaghel EA, Barbieri CE, Mitrofanova A, Abate-Shen C2017European UrologyOncologyArea QuantificationHALO
Amyloid-? plaques enhance Alzheimer's brain tau-seeded pathologies by facilitating neuritic plaque tau aggregationHe Z, Guo JL, McBride JD, Narasimhan S, Kim H, Changolkar L, Zhang B, Gathagan RJ, Yue C, Dengler C, Stieber A, Nitla M, Coulter DA, Abel T, Brunden KR, Trojanowski JQ, Lee V M-Y2017Nature MedicineNeuroscienceArea QuantificationHALO
An ancestral retroviral protein identified as a therapeutic target in type-1 diabetes Levet S, Medina J, Joanou J, Demolder A, Queruel N, Réant K, Normand M, Seffals M, Dimier J, Germi R, Piofczyk T, Portoukalian J, Touraine J-L, Perron H2017JCI InsightImmunology, Metabolism Classifier, CytonuclearHALO
Receptor tyrosine kinase expression and phosphorylation in canine nasal carcinoma Hocker SA, Higginbotham ML, Schermerhorn T, Henningson J2017Research in Veterinary ScienceOncologyArea Quantification, Multiplex IHCHALO
Differential roles of RET isoforms in medullary and papillary thyroid carcinomas Lian EY, Maritan SM, Cockburn JG, Kasaian K, Crupi MJF, Hurlbut D, Jones SJM, Wiseman SM, Mulligan LM2017Endocrine-Related CancerOncologyCytonuclearHALO
Ante mortem CSF tau levels correlate with post mortem tau pathology in FTLD Irwin DJ, Lleó A, Xie SX, McMillan CT, Wolk D, Lee EB, Van Deerlin VM, Shaw LM, Trojanowski JQ, Grossman M2017Annals of NeurologyNeuroscienceArea QuantificationHALO
Neutorphils dominate the immune cell composition in non-small cell lung cancer Kargl J, Busch SE, Yang GHY, Kim K-H, Hanke ML, Metz HE, Hubbard JJ, Lee SM, Madtes DK, McIntosh MW, Houghton AM2017Nature CommunicationsOncologyArea QuantificationHALO
DPP9 enzyme activity controls survival of mouse migratory tongue muscle progenitors and its absence leads to neonatal lethality due to suckling defect Kim M, Minoux M, Piaia A, Kueng B, Gapp B, Weber D, Haller C, Barbieri S, Namoto K, Lorenz T, Wirsching J, Bassilana F, Dietrich W, Rijli FM, Ksiazek I2017Developmental BiologyMyologyClassifier, Area QuantificationHALO
Connexin-43 and aquaporin-4 are markers of ageing-related tau astrogliopathy (ARTAG)-related astroglial response Kovacs GG, Yousef A, Kaindl S, Lee VM, Trojanowski JQ2017Neuropathology and Applied NeurobiologyNeuroscienceArea QuantificationHALO
Angptl4 does not control hyperglucagonemia or ?-cell hyperplasia following glucagon receptor inhibition Okamoto H, Cavino K, Na E, Krumm E, Kim SY, Stevis PE, Harp J, Murphy AJ, Yancopoulos GD, Gromada J2017Proceedings of the National Academy of SciencesMetabolismArea QuantificationHALO
Glucagon receptor inhibition normalizes blood glucose in severe insulin-resistant mice Okamoto H, Kim J, Aglione JP, Lee J, Cavino K, Na E, Rafique A, Kim JH, Harp J, Valenzuela DM, Yancopoulos GD, Murphy AJ, Gromada J2017Proceedings of the National Academy of SciencesMetabolismArea QuantificationHALO
Cysteinyl leukotriene receptor 1 facilitates tumorigenesis in a mouse model of colitis-associated colon cancerOsman J, Savari S, Chandrashekar NK, Bellamkonda K, Souglas D, Sjolander A2017OncotargetOncology, ImmunologyClassifier, Area QuantificationHALO
Plant-based vaccines for oral delivery of type 1 diabetes-related autoantigens: Evaluating oral tolerance mechanisms and disease prevention in NOD mice Posgai AL, Wasserfall CH, Kwon K-C, Daniell H, Schatz DA, Atkinson MA2017Scientific ReportsMetabolismArea QuantificationHALO
cFOS-SOX9 Axis Reprograms Bone Marrow-Derived Mesenchymal Stem Cells into Chondroblastic Osteosarcoma He Y, Zhu W, Shin MH, Gary J, Liu C, Dubois W, Hoover SB, Jiang S, Marrogi E, Mock B, Simpson RM, and Huang J2017Stem Cell ReportsOncologyClassifierHALO
Modulating the therapeutic response of tumours to dietary serine and glycine starvation Maddocks ODK, Athineos D, Cheung EC, Lee P, Zhang T, van den Broek NJF, Mackay GM, Labuschagne CF, Gay D, Kruiswijk F, Blagih J, Vincent DF, Campbell KJ, Ceteci F, Sansom OJ, Blyth K, Vousden KH2017NatureOncologyCytonuclearHALO
Expression of protein disulfide isomerase family members correlates with tumor progression and patient survival in ovarian cancer Samanta S, Tamura S, Dubeau L, Mhawech-Fauceglia P, Miyagi Y, Kato H, Lieberman R, Buckanovich RJ, Lin YG, Neamati N2017OncotargetOncologyArea QuantificationHALO
Targeting autophagy inhibits melanoma growth by enhancing NK cells infiltration in a CCL5-dependent mannerMgrditchiana T, Arakeliana T, Paggettia J, Nomana MZ, Virya E, Moussaya E, Van Moera K, Kreisb S, Guerinc C, Buartd S, Roberte C, Borgf C, Vielhg P, Chouaibd S, Berchema G, Janji B2017Proceedings of the National Academy of SciencesOncology, Immuno-oncologyCytonuclearHALO
Weight Pertubation Alters Leptin Signal Transduction in a Region-Specific Manner throughout the Brain Morabito MV, Ravussin Y, Mueller BR, Skowronski AA, Watanabe K, Foo KS, Lee SX, Lehmann A, Hjorth S, ZeltserLM, LeDuc CA, Leibel RL2017PLOS OneMetabolismCytonuclearHALO
A single dose of peripherally infused EGFRvIII-directed CAR T cells mediates antigen loss and induces adaptive resistance in patients with recurrent glioblastoma O’Rourke DM, Nasrallah MP, Desai A, Melenhorst JJ, Mansfield K, MorrissetteJJD, Martinez-Lage M, Brem S, Maloney E, Shen A, Isaacs R, Mohan S, Plesa G, Lacey SF, Navenot J-M, Zheng Z, Levine BL, Okada H, June CH, Brogdon JL, Maus MV2017Science Translational MedicineOncology, Immuno-oncology Cytonuclear, Multiplex IHCHALO
The action of ?-hydroxybutyrate on the growth, metabolism and global histone H3 acetylation of spontaneous mouse mammary tumours: evidence of a ?-hydroxybutyrate paradox Rodrigues LM, Uribe-Lewis S, Madhu B, Honess DJ, Stubbs M, Griffiths JR2017Cancer & MetabolismOncology, Metabolism Area Quantification, CytonuclearHALO
High levels of tumor-associated neutrophils are associated with improved overall survival in patients with stage II colorectal cancer RS Berry, M-J Xiong, A Greenbaum, P Mortaji, RA Nofchissey, F Schultz, C Martinez, L Luo, KT Morris, JA Hanson2017PLOS OneOncology, Immuno-oncologyCytonuclearHALO
Pathological tau strains from human brains recapitulate the diversity of tauopathies in non-transgenic mouse brain S Narasimhan, JL Guo, L Changolkar, A Stieber, JD McBride, LV Silva, Z He, B Zhang, RJ Gathagan, JQ Trojanowski, VMY Lee2017Journal of NeuroscienceNeuroscienceCytonuclearHALO
T-cell Localization, Activation, and Clonal Expansion in Human Pancreatic Ductal Adenocarcinoma Stromnes IM, Hulbert A, Pierce RH, Greenberg PD, Hingorani SR2017Cancer Immunology ResearchOncology, Immuno-oncologyHighplex FLHALO
Transcriptional mechanisms of resistance to anti-PD-1 therapy Ascierto ML, Makohon-Moore A, Lipson EJ, Taube JM, McMiller TL, Berger AE, Fan J, Kaunitz GJ, Cottrell TR, Kohutek ZA, Favorov A, Makarov V, Riaz N, Chan TA, Cope L, Hruban RH, Pardoll DM, Taylor BS, Solit DB, Iacobuzio-Donahue CA, Topalian SL2017Clinical Cancer ResearchOncology, Immuno-oncologyImmuneHALO
Comparison of branch and distally focused main renal artery denervation using two different radio-frequency systems in a porcine model Mahfoud F, Pipenhagen CA, Moon LB, Ewen S, Kulenthiran S, Fish JM, Jensen JA, Virmani R, Joner M, Yahagi K, Tsioufis C, Böhm M2017International Journal of CardiologyMyologyLayer ThicknessHALO
Treatment with the WNT5A-mimicking peptide Foxy-5 effictively reduces the metastatic spread of WNT5A-low prostate cancer cells in an orthotopic mouse model Canesin G, Evans-Axelsson S, Hellsten R, Krzyzanowska A, Prasad CP, Bjartell A, Andersson T2017PLOS OneOncologyMembraneHALO
Expression of PD-L1 and presence of CD8-positive T cells in pre-treatment specimens of locally advanced cervical cancer Enwere EK, Kornaga EN, Dean M, Koulis TA, Phan T, Kalantarian M, Köbel M, Ghatage P, Magliocco AM, Lees-Miller DP, Doll CM2017Modern PathologyOncology, Immuno-oncologyMembraneHALO
Association of HIV Status With Local Immune Response to Anal Squamous Cell Carcinoma: Implications for Immunotherapy Yanik EL, Kaunitz GJ, Cottrell TR, Succaria F, McMiller TL, Ascierto ML, Esandrio J, Xu H, Ogurtsova A, Cornish T, Lipson EJ, Topalian SL, Engels EA, Taube JM2017JAMA OncologyOncology, Immuno-oncologyCytonuclearHALO
Chronic Verubecestat Treatment Suppresses Amyloid Accumulation in Advanced Aged Tg2576-A?PPswe Mice Without Inducing Microhemorrhage Villarreal S, Zhao F, Hyde LA, Holder D, Forest T, Sondey M, Chen X, Sur C, Parker EM, Kennedy ME2017Journal of Alzheime's DiseaseNeuroscienceObject ColocalizationHALO
In vivo characterization of a new type of biodegradable starch microsphere for transarterial embolization Sommer CM, Do TD, Schlett CL, Flechsig P, Gockner TL, Kuthning A, Vollherbst DF, Pereira PL, Kauczor HU, Macher-Göppinger S2017Journal of Biomaterials ApplicationsOncologyClassifierHALO
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Validation of multiplex immunofluorescence and digital image analysis for programmed death-ligand 1 expression and immune cell assessment in non-small cell lung cancer: comparison with conventional immunohistochemistryWu J, Mao L, Sun W, Yang X, Wang H, Liu X, Chi K, Xiaozheng H, Lin D2021Journal of Clinical PathologyImmuno-oncologyHALO
VGLUT2 is a determinant of dopamine neuron resilience in a rotenone model of dopamine neurodegenerationBuck SA, De Miranda BR, Logan RW, Fish KN, Greenamyre JT, Freyberg Z2021The Journal of NeuroscienceNeuroscienceISH/FISHHALO
Ki-67 Proliferation Index Assessment in Gastroenteropancreatic Neuroendocrine Tumors by Digital Image Analysis With Stringent Case and Hotspot Level Concordance RequirementsBoukhar SA, Gosse MD, Bellizzi AM, Rajan A2021American Journal of Clinical PathologyOncologyHALO
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High estrogen receptor alpha activation confers resistance to estrogen deprivation and is required for therapeutic response to estrogen in breast cancerTraphagen NA, Hosford SR, Jiang A, Marotti JD, Brauer BL, Demidenko E, Miller TW2021OncogeneOncologyHALO
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TNFα secreted by glioma associated macrophages promotes endothelial activation and resistance against anti-angiogenic therapyWei Z, Singh O, Ekinci C, Gill J, Li M, Mamatjan Y, Karimi S, Bunda S, Mansouri S, Aldape K, Zadeh G2021Acta Neuropathologica CommunicationsImmunology, NeuroscienceClassifier, Multiplex IHCHALO
Tumor morphology and location associate with immune cell composition in pleomorphic sarcomaWustrack RL, Shao E, Sheridan J, Zimel M, Cho S-J, Horvai AE, Luong D, Kwek SS, Fong L, Okimoto RA2021Cancer Immunology, ImmunotherapyImmuno-oncologyCytonuclearHALO
Engineered red blood cells as an off-the-shelf allogeneic anti-tumor therapeuticZhang X, Lou M, Dastagir SR, Nixon M, Khamhoung A, Schmidt A, Lee A, Subbiah N, McLaughlin DC, Moore CL, Gribble M, Bayhi N, Amin V, Pepi R, Pawar S, Lyford TJ, Soman V, Mellen J, Carpenter CL, Turka LA, Wickham Tj, Chen TF2021Nature CommunicationsOncologyObject Colocalization, Highplex FLHALO
Mastocytosis-derived extracellular vesicles deliver miR-23a and miR-30a into pre-osteoblasts and prevent osteoblastogenesis and bone formationKim D-K, Bandara G, Cho Y-E, Komarow HD, Donahue DR, Karim B, Baek M-C, Kim HM, Metcalfe DD, Olivera A2021Nature CommunicationsClassifierHALO
Mitigation of endemic GI-tract pathogen-mediated inflammation through development of multimodal treatment regimen and its impact on SIV acquisition in rhesus macaquesBochart RM, Busman-Sahay K, Bondoc S, Morrow DW, Ortiz AM, Fennessey CM, Fischer MB, Shiel O, Swanson T, Shriver-Munsch CM, Crang HB, Armantrout KM, Barber-Axthelm AM, Langner C, Moats CR, Labriola CS, MacAllister R, Axthelm MK, Brenchley JM, Keele BF, Estes JD, Hansen SG, Smedley JV2021PLOS PathogensInfectious DiseaseISH/FISH, Multiplex IHCHALO
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Next-Generation Digital Histopathology of the Tumor MicroenvironmentMungenast F, Fernando A, Nica R, Boghiu B, Lungu B, Batra J, Ecker RC2021genesReviewHALO
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Single-cell dissection of cellular components and interactions shaping the tumor immune phenotypes in ovarian cancerHornburg M, Desbois M, Lu S, Guan Y, Lo AA, Kaufman S, Elrod A, Lotstein A, DesRochers TM, Munoz-Rodriguez JL, Wang X, Giltnane J, Mayba O, Turley SJ, Bourgon R, Daemen A, Wang Y2021Cancer CellImmuno-oncologyHALO
Acute inflammatory profiles differ with sex and age after spinal cord injuryStewart AN, Lowe JL, Glaser EP, Mott CA, Shahidehpour RK, McFarlane KE, Bailey WM, Zhang B, Gensel JC2021Journal of NeuroinflammationImmunology, NeuroscienceHALO
Analysis of genomic and non-genomic signaling of estrogen receptor in PDX models of breast cancer treated with a combination of the PI3K inhibitor alpelisib (BYL719) and fulvestrantJacquemetton J, Kassem L, Poulard C, Dahmani A, De Plater L, Montaudon E, Sourd L, Morisset L, El Botty R, Chateau-Joubert S, Vacher S, Bièche I, Treilleux I, Trédan O, Marangoni E, Le Romancer M2021Breast Cancer ResearchOncologyMultiplex IHCHALO
AP-3-dependent targeting of flippase ATP8A1 to lamellar bodies suppresses activation of YAP in alveolar epithelial type 2 cellsKook S, Wang P, Meng S, Jetter CS, Sucre JMS, Benjamin JT, Gokey JJ, Hanby HA, Jaume A, Goetzl L, Marks MS, Guttentag SH2021Proceedings of the National Academy of SciencesFibrosisHALO
Cellular Senescence in Human Aldosterone-Producing Adrenocortical Cells and Related DisordersPieroni J, Yamazaki Y, Gao X, Tezuka Y, Ogata H, Omata K, Ono Y, Morimoto R, Nakamura Y, Satoh F, Sasano H2021BiomedicinesMetabolismCytonuclearHALO
Functionally distinct POMC-expressing neuron subpopulations in hypothalamus revealed by intersectional targetingBiglari N, Gaziano I, Schumacher J, Radermacher J, Paeger L, Klemm P, Chen W, Corneliussen S, Wunderlich CM, Sue M, Vollmar S, Klöckener T, Sotelo-Hitschfeld T, Abbasloo A, Edenhofer F, Reimann F, Gribble FM, Fenselau H, Kloppenburg P, Wunderlich FT, Brüning JC2021Nature NeuroscienceNeuroscienceISH/FISHHALO
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Novel insulin sensitizer MSDC-0602K improves insulinemia and fatty liver disease in mice, alone and in combination with liraglutideKamm DR, Pyles KD, Sharpe MC, Healy LN, Colca JR, McCommis KS2021Journal of Biological ChemistryMetabolismHALO
Pathways of immune exclusion in metastatic osteosarcoma are associated with inferior patient outcomesLigon JA, Choi W, Cojocaru G, Fu W, Hsiue EH-C, Oke TF, Siegel N, Fong MH, Ladle B, Pratilas CA, Morris CD, Levin A, Rhee DS, Meyer CF, Tam AJ, Blosser R, Thompson ED, Suru A, McConkey D, Housseau F, Anders R, Pardoll DM, Llosa N2021Journal for ImmunoTherapy of CancerImmuno-oncologyMultiplex IHCHALO
Predicting nodal metastases in papillary thyroid carcinoma using artificial intelligenceEsce AR, Redemann JP, Sanchez AC, Olson GT, Hanson JA, Argwal S, Boyd NH, Martin DR2021The American Journal of SurgeryOncologyHALO
Toluidine blue staining of murine mast cells and quantitation by a novel, automated image analysis method using whole slide skin imagesRaja N, Naikodi S, Govindarajan A, Palanisamy K2021Journal of HistotechnologyImmunologyCytonuclearHALO
Pancreatic ? cell–selective zinc transporter 8 insufficiency accelerates diabetes associated with islet amyloidosisXu J, Wijesekara N, Regeenes R, Al Rijjal D, Piro AL, Song Y, Anne Wu A, Bhattacharjee A, Liu Y, Marzban L, Rocheleau JV, Fraser PE, Dai FF, Hu C, Wheeler MB2021JCI InsightMetabolismHALO
Human Type II Taste Cells Express ACE2 and are Infected by SARS-CoV-2Doyle M, Ashley Appleton A, Q Liu, Yao Q, Mazucanti C, Egan J2021American Journal of PathologyCytonuclearHALO
Oncogenic BRAF, unrestrained by TGF?-receptor signalling, drives right-sided colonic tumorigenesisLeach J, Vlahov N, Tsantoulis P, et al2021Nature CommunicationsOncologyISH/FISH, Highplex FLHALO
Attenuating CD3 affinity in a PSMAxCD3 bispecific antibody enables killing of prostate tumor cells with reduced cytokine releaseDang K, Castello G, Clarke S, et al.2021Journal for Immunotherapy of CancerImmuno-oncologyMultiplex IHCHALO
Heterogeneity in tertiary lymphoid structure B-cells correlates with patient survival in metastatic melanomLynch K, Young S, Menaveau M, et al.2021Journal for Immunotherapy of CancerImmuno-oncologyHighplex FLHALO
mRNA translation is a therapeutic vulnerability necessary for bladder epithelial transformationJana S, Deo R, Hough R, et al.2021JCI InsightOncologyMultiplex IHC, Highplex FLHALO
Approaches for Handling Immunopathological and Clinical Data Using Deep Learning Methodology: Multiplex IHC/IF Data as a ParadigmGoh S, Chua Y, Lee J, Yeong J, Cai Y2021Histopathology and Liquid BiopsyReviewHALO
Tumor necroptosis is correlated with a favorable immune cell signature and programmed death-ligand 1 expression in cholangiocarcinomaLomphithak T, Akara-amornthum P, Murakami K, et al. 2021Scientific ReportsImmuno-oncologyHighplex FLHALO
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Quantification of Human Epidermal Growth Factor Receptor 2 by Immunopeptide Enrichment and Targeted Mass Spectrometry in Formalin-Fixed Paraffin-Embedded and Frozen Breast Cancer TissuesKennedy J, Whiteaker J, Kennedy L, Bosch D, Lerch M, Schoenherr R, Zhao L, Lin C, Chowdhury S, Kilgore M, Allison K, Wang P, Hoofnagle A, Baird G, Paulovich A2021Clinical ChemistryOncologyClassifierHALO
Pathological Change and Whole Transcriptome Alternation Caused by ePTFE Implantation in MyocardiumShan Y, Zhang W, Chen G, Shi Q, Mi Y, Zhang H, Jia B2021BioMed Research InternationalFibrosisArea QuantificationHALO
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Q134R: Small chemical compound with NFAT inhibitory properties improves behavioral performance and synapse function in mouse models of amyloid pathologySompol P, Gollihue J, Kraner S, Artiushin I, Cloyd R, Chishti E, Koren S, Nation G, Abisambra J, Huzian O, Nagy L, Santha M, Hackler L, Puskas L, Norris C2021Aging CellNeuroscienceArea QuantificationHALO
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Lawsonia intracellularis infected enterocytes lack sucrase-isomaltase which contributes to reduced pig digestive capacityHelm E, Burrough E, Leite, F, Gabler, N2021Veterinary ResearchOtherISH/FISHHALO
Mechanism of Nucleic Acid Sensing in Retinal Pigment Epithelium (RPE): RIG-I Mediates Type I Interferon Response in Human RPESchustak J, Twarog M, Wu X, Huang Q, Bao Y2021Journal of Immunology ResearchArea Quantification, ISH/FISHHALO
Rejection of benign melanocytic nevi by nevus-resident CD4+ T cellsSchiferle E, Cheon S, Ham S, Son H, Messerschmidt J, Lawrence D, Cohen J, Flaherty K, Moon J, Lian C, Sullivan R, Demehri S2021Science AdvancesOncologyMultiplex IHCHALO
Wound healing with topical BRAF inhibitor therapy in a diabetic model suggests tissue regenerative effectsEscuin-Ordinas H, Liu Y, Hufo W, Dimatteo R, Huang R, Krystofinski P, Azhdam A, Lee J, Comin-Anduix B, Cochran A, Lo R, Segura T, Scumpia P, Ribas A2021PLOS ONEDermatologyObject Colocalization, Multiplex IHCHALO
The Goto Kakizaki rat: Impact of age upon changes in cardiac and renal structure, functionMeagher P, Civitarese R, Lee X, Gordon M, Bugyei-Twum A, Desjardins J, Kabir G, Zhang Y, Kosanam H, Visram A, Leong-Poi H, Advani A, Connelly K2022PLOS ONEMyologyMuscle FiberHALO
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Dissecting spatial heterogeneity and the immuneevasion mechanism of CTCs by single-cell RNA-seq in hepatocellular carcinomaSun Y, Wu L, Liu S, Jiang M, Hu B, Zhou K, Guo W, Xu Y, Zhong Y, Zhou X, Zhang Z, Liu G, Liu S, Shi Y, Ji Y, Du M, Li N, Li G, Zhao Z, Huang X, Xu L, Yu Q, Peng D, Qiu S, Sun H, Dean M, Wang X, Chung W, Dennison A, Zhou J, Hou Y, Fan J, Yang X2021Nature CommunicationsOncology, Immuno-oncologyHighplex FLHALO
TMEM229A suppresses non?small cell lung cancer progression via inactivating the ERK pathwayZhang X, He Y, Jiang Y, Bao Y, Chen Q, Xie D, Yu H, Wang X2021Oncology ReportsMultiplex IHCHALO
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Computational pathology reveals unique spatial patterns of immune response in H&E images from COVID-19 autopsies: preliminary findingsCorredor G, Toro P, Bera K, Rasmussen D, Viswanathan V, Buzzy C, Fu P, Barton L, Stroberg E, Duval E, Gilmore H, Mukhopadhyay, Madabhushi A2021Journal of Medical ImagingInfectious DiseaseHALO Link
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White adipose tissue autophagy and adipose-liver crosstalk exacerbate nonalcoholic fatty liver disease in miceSakane S, Hikita H, Shirai K, Myojin Y, Sasaki Y, Kudo S, Fukumoto K, Mizutani N, Tahata Y, Makino Y, Yamada R, Kodama T, Sakamori R, Tatsumi T, Takehara T2021Cellular and Molecular Gasteroenterology and HepatologyMetabolismHALO
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Histological Studies of the Ventricular–Subventricular Zone as Neural Stem Cell and Glioma Stem Cell NicheBrockman A, Mobley B, Rebecca I2021Journal of Histochemistry & CytochemistryReviewHALO
The deletion of yeaJ gene facilitates Escherichia coli escape from immune recognitionWang X, Lin X, Wan Z, Wang S, Zuo J, Wang Z, Xu Y, Han X, Miao J2021Journal of BacteriologyHALO
Naproxen chemoprevention promotes immune activation in Lynch syndrome colorectal mucosaReyes-Uribe L, Wu Wenhui, Gelincik O, Bommi P, Francisco-Cruz A, Solis L, Lynch P, Lim R, Stoffel E, Kanth P, Samadder N, Mork M, Taggart M, Milne G, Marnett L, Vornik L, Liu D, Revuelta M, Chang K, You Y, Kipelovich L, Wistuba I, Lee J, Sei S, Shoemaker R, Szabo E, Richmond E, Umar A, Perloff M, Brown P, Lipkin S, Vilar E2020The BMJOncology, GastroenterologyClassifier, CytonuclearHALO
Repeated porphyrin lipoprotein-based photodynamic therapy controls distant disease in mouse mesothelioma via the abscopal effectLou J, Aragaki M, Bernards N, Kinoshita T, Mo J Motooka Y, Ishiwata T, Gregor A, Chee T, Chen Z, Chen J, Kaga K, Wakasa S, Zheng G, Yasufuku K2021NanophotonicsOncologyCytonuclearHALO
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GOT1 inhibition promotes pancreatic cancer cell death by ferroptosisKremer D, Nelson B, Lin L, Yarosz E Halbrook C, Kerk S, Sajjakulnukit P, Myers A, Thurston G, Hou S, Carpenter E, Andren A, Nwosu Z, Cusmano N, Wisner S, Mbah N, Shan M, Das N, Magnuson B, Little A, Savani M, Ramos J, Gao T, Sastra S, Palermo C, Badgley M, Zhang L, Asara J, McBrayer S, Pasca di Magliano M, Crawford H, Shah Y, Olive K, Lyssiotis C2021Nature CommunicationsOncologyHALO
A preclinical trial and molecularly-annotated patient cohort identify predictive biomarkers in homologous recombination deficient pancreatic cancerWang Y, Park J, Pacis A, Denroche R, Jang G, Zhang A, Cuggia A, Domecq C, Monlong J, Raitses-Gurevich M, Grant R, Borgida A, Holter S, Stossel C, Bu S, Masoomian M, Lungu I, Bartlett J, Wilson J, Gao Z, Riazalhosseini Y, Asselah J, Bouganim N, Cabrera T, Boucher L, Valenti D, Biagi J, Greenwood C, Polak P, Foulkes W, Golan T, O'Kane G, Fischer S, Knox J, Gallinger S, Zogopoulos G2020Clinical Cancer ResearchOncologyClassifier, Cytonuclear, Multiplex IHCHALO
Epigenetic modifications precede molecular alterations and drive human hepatocarcinogenesisCzauderna C, Poplawski A, O'Roourke C, Castven D, Pérez-Aguilar B, Becker D, Heilmann-Heimbach S, Odenthal M, Amer W, Schmiel M, Drebber U, Binder H, Ridder D, Schindeldecker M, Straub B, Galle P, Andersen J, Thorgeirsson S, Park Y, Marquardt J2021JCI InsightOncologyCytonuclear, TMAHALO
Allostatic hypermetabolic response in PGC1?/? heterozygote mouse despite mitochondrial defectsRodriguez-Cuenca S, Lelliot C, Campbell M, Peddinti G, Martinuez-Uña M, Ingvorsen C, Dias A, Relat J, Mora S, Hyötyläinen T, Zorzano A, Oreši? M, Bjursell M, Bohlooly-Y M, Lindén D, Vidal-Puid A2021The FASEB JournalMetabolismVacuoleHALO
Distinct immune signatures in peripheral blood predict chemosensitivity in intrahepatic cholangiocarcinoma patientsWu T, Yang Y, Zheng B, Shi X, Li W, Ma W, Wang S, Li Z, Zhu Y, Wu J, Wang K, Zhao Y, Wu R, Sui C, Shen S, Wu X, Chen L, Yuan Z, Wang H2021EngineeringOncology, ImmunologyHighplex FLHALO
Constrictive and Hypertrophic Strictures in Ileal Crohn’s DiseaseLiu Q, Zhang X, Ko H, Stocker D, Ellman J, Chen J, Hao Y, Bhardwaj S, Liang Y, Cho J, Colombel J, Taouli B, Harpaz N2021Clinical Gastroenterology and HepatologyGastroenterologyHALO
The amino acid transporter SLC7A5 is required for efficient growth of KRAS-mutant colorectal cancerNajumudeen AK, Ceteci F, Fey SK, Hamm G, Steven RT, Hall H, Nikula CJ, Dexter A, Murta T, Race AM, Sumpton D, Vlahov N, Gay DM, Knight JRP, Jackstadt R, Leach JDG, Ridgway RA, Johnson ER, Nixon C, Hedley A, Gilroy K, Clark W, Malla SB, Dunne PD, Rodriguez-Blanco G, Critchlow SE, Mrowinska A, Malviya G, Solovyev D, Brown G, Lewis DY, Mackay GM, Strathdee D, Tardito S, Gottlieb E, CRUK Rosetta Grand Challenge Consortium, Takats Z, Barry ST, Goodwin RJA, Bunch J, Bushell M, Campbell AD, Sansom OJ2021Nature GeneticsOncologyISH/FISHHALO
HIF-independent synthetic lethality between CDK4/6 inhibition and VHL loss across speciesNicholson HE, Tariq Z, Housden BE, Jennings RB, Stransky LA, Perrimon N, Signoretti S, Kaelin WG2019Cancer TherapyOncologyHALO
Impact of TREM2 risk variants on brain region-specific immune activation and plaque microenvironment in Alzheimer's disease patient brain samples Prokop S, Miller KR, Labra SR, Pitkin RM, Hoxha K, Narasimhan S, Changolkar L, Rosenbloom A, Lee VM-Y, Trojanowski JQ2019Acta NeuropathologicaNeuroscienceClassifier, Area QuantificationHALO
ACT1 is required for murine IL-23-induced psoriasiform inflammation potentially independent of E3 ligase activityLipovsky A, Slivka PF, Su Z, Wang Y, Paulsboe S, Wetter J, Namovic MT, Gauvin D, Perron D, Gauld S, McGaragughty S, Goedken ER2021Journal of Investigative DermatologyImmunologyMultiplex IHCHALO
Robust and persistent reactivation of SIV and HIV by N-803 and depletion of CD8+ cellsMcBrien JB, Mavigner M, Li LF, Smith SA, White E, Tharp GK, Walum H, Busman-Suhay K, Aguilera-Sandoval CR, Thayer WO, Spagnuolo RA, Kovarova M, Wahl A, Cervasi B, Margolis DM, Vanderford TH, Carnathan DG, Paiardini M, Lifson JD, Lee JH, Safrit JT, Bosinger SE, Estes JD, Derdeyn CA, Garcia JV, Kulpa DA, Chahroudi A, Silvestri G2020NatureOtherISH/FISHHALO
Acute brain inflammation, white matter oxidative stress, and myelin deficiency in a model of neonatal intraventricular hemorrhageGoulding DS, Vogel RC, Gensel JC, Morganti JM, Stromberg AJ, Miller BA2020Journal of NeuroscienceImmunology, NeuroscienceArea Quantification, Object ColocalizationHALO
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Artificial Intelligence-Based Quantification of Epithelial Proliferation in Mammary Glands of Rats and Oviducts of Göttingen MinipigsHvid H, Skydsgaard M, Jensen NK, Vluff BM, Jensen HE, Oleksiewicz MB, Kvist PH2020Toxicologic PathologyToxicologyArea QuantificationHALO AI
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HIV-1-induced cytokines deplete homeostatic innate lymphoid cells and expand TCF7-dependent memory NK cellsWang Y, Lifschitz L, Gellatly K, Vinton CL, Busman-Sahay K, McCauley S, Vangala P, Kim K, Derr, Jaiswall S, Kucukural A, McDonel P, Hunt PW, Greenough T, Houghton J, Somsouk M, Estes JD, Brenchley JM, Garber M, Deeks SG, Luban J2020Nature ImmunologyImmunology, Infectious DiseaseArea Quantification, Cytonuclear, ISH/FISHHALO
IL6/STAT3 Signaling Hijacks Estrogen Receptor ? Enhancers to Drive Breast Cancer MetastasisSiersbæk R, Scabia V, Nagarajan S, Chernukhin I, Papachristou EK, Broome R, Johnston SJ, Joosten SEP, Green AR, Kumar S, Jones J, Omarjee S, Alvarez-Fernandez R, Glont S, Aitken SJ, Kishore K, Cheeseman D, Rakha EA, D'Santos C, Zwart W, Ruseel A, Brisken C, Carroll JS2020Cancer CellOncologyArea Quantification, Multiplex IHCHALO
Multimodal treatment combining cold atmospheric plasma and acidic fibroblast growth factor for multi?tissue regenerationTan F, Rui X, Xiang X, Yu Z, Al-Rubeai M2021The FASEB JournalOtherMultiplex IHCHALO
Promyelocytic leukemia protein promotes the phenotypic switch of smooth muscle cells in atherosclerotic plaques of human coronary arteriesKarle W, Becker S, Stenzel P, Knosalla C, Siegel G, Baum O, Zakrzewicz A, Berkholz J2021Clinical ScienceMyologyArea Quantification, Object ColocalizationHALO
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Genomic analysis of Vascular Invasion in Hepatocellular Carcinoma (HCC) Reveals Molecular Drivers and Predictive BiomarkersKrishnan MS, Rajan KD A, Park J, Arjunan V, Marques FJG, Bermudez A, Girvan OA, Hoang NS, Yin J, Nguyen MH, Kothary N, Pitteri S, Felsher DW, Dhanasekaran R2020HepatologyOncologyMultiplex IHC, TMAHALO
Dynamic Hydrogels for Prevention of Post?Operative Peritoneal AdhesionsStapleton LM, Lucian HJ, Grosskopf AK, Smith AAA, Totherow KP, Woo YJ, Appel EA2021Advanced TherapeuticsBiomaterialsArea QuantificationHALO
Efficacy and safety of a 3?in?1 antiaging night facial serum containing melatonin, bakuchiol, and ascorbyl tetraisopalmitate through clinical and histological analysisGoldberg DJ, Mraz-Robinson D, Granger C2020Journal of Cosmetic DermatologyDermatologyArea Quantification, Layer ThicknessHALO
ILC2-driven innate immune checkpoint mechanism antagonizes NK cell antimetastatic function in the lungSchuijs MJ, Png S, Richard AC, Tsyben A, Hamm G, Stockis J, Garcia C, Panaud S, Nicholls A, Ros XR, Su J, Eldridge MD, Riedel A, Serrao EM, Rodewald H-R, Mack M, Shields JD, Cohen ES, McKenzie ANJ, Goodwin RJA, Brindle KM, Marioni JC, Halim TYF2020Nature ImmunologyImmuno-oncologyMultiplex IHCHALO
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Blockade of the co-inhibitory molecule PD-1 unleashes ILC2-dependent antitumor immunity in melanomaJacquelot N, Seillet C, Wang M et al.2021Nature ImmunologyImmuno-oncologyClassifier, Highplex FLHALO
Expansion of Immature, Nucleated Red Blood Cells by Transient Low?Dose Methotrexate Immune Tolerance Induction in MiceTran JQ, Grover D, Zhang M, Stapels M, Brennan R, Bangari DS, Piepenhagen PA, Roberts E, Olivia P, Zubair F, Vela JL, Richards SM, Joseph AM2020Clinical & Experimental ImmunologyImmunologyArea quantificationHALO
The InSituPlex® Staining Method for Multiplexed Immunofluorescence Cell Phenotyping and Spatial Profiling of Tumor FFPE SamplesManesse M, Patel KK, Bobrow M, Downing SR2020Biomarkers for Immunotherapy of CancerOncology, Immuno-oncologyHighplex FLHALO
Highly efficient genome editing in primary human bronchial epithelial cells differentiated at air-liquid interfaceRapiteanu R, Karagyozova T, Zimmerman N, Singh K, Wayne G, Martufi M, Belyaev NN, Hessel EM, Michalovich D, Macarron R, Rowan WC, Cairns WJ, Roger J, Betts J, Beinke S, Maratou K2020European Respiratory JournalOtherHighplex FLHALO
IBI112, a selective anti-IL23p19 monoclonal antibody, displays high efficacy in IL-23-induced psoriasiform dermatitisLi L, Wu Z, Qiu X, Wu Y, Kuang Z, Wang L, Sun T, Liu Y, Yi S, Jing H, Zhou S, Chen B, Wu, D, Wu W, Liu J2020International ImmunopharmacologyImmunology, DermatologyClassifier, Layer ThicknessHALO
A four-chemokine signature is associated with a T cell-inflamed phenotype in primary and metastatic pancreatic cancerRomero JM, Grünwald BT, Jang G-H, Bavi PP, Jhaveri A, Masoomian M, Fischer SE, Zhang A, Denroche RE, Lungu IM, De Luca A, Bartlett JMS, Xu J, Li N, Dhaliwal S, Liang S-B, Chadwick D, Vyas F, Bronsert P, Khokha R, McGaha TL, Notta F, Ohashi PS, Done SJ, O'Kane GM, Wilson JM, Knox JJ, Connor A, Wang Y, Zogopoulos G, Gallinger S2020Clinical Cancer ResearchOncologyImmuneHALO
A Dedicated Evolutionarily Conserved Molecular Network Licenses Differentiated Cells to Return to the Cell CycleMiao Z-F, Lewis MA, Cho CJ, Adkins-Threats M, Park D, Brown JW, Sun J-X, Burclaff JR, Kennedy S, Lu J, Mahar M, Vietor I, Huber LA, Davidson NO, Cavalli V, Rubin DC, Wang Z-N, Mills JC2020Developmental CellOncologyHighplex FLHALO
Immune evasion before tumour invasion in early lung squamous carcinogenesis Mascaux C, Angelova M, Vasaturo A, Beane J, Hijazi K, Anthoine G, Rothe F, Willard-Gallo K, Haller A, Ninane V, Burny A, Sculier J-P, Spira A, Galon J2019NatureOncology, Immuno-oncologyMultiplex-IHCHALO
Mobilization of CD8+ T cells via CXCR4 blockade facilitates PD-1 checkpoint therapy in human pancreatic cancerSeo YD, Jiang X, Sullivan KM, Jalikis FG, Smythe KS, Abbasi A, Vignali M, Park JO, Daniel SK, Pollack SM, Kim TS, Yeung R, Crispe IN, Pierce RH, Robins H, Pillarisetty VG2019Clinical Cancer ResearchImmuno-oncologyCytonuclearHALO
STAT3 antisense oligonucleotide remodels the suppressive tumor microenvironment to enhance immune activation in combination with anti-PD-L1Proia T, Singh M, Woessner R, Carnevalli LS, Bommakanti G, Magiera L, Srinivasan SS, Grosskurth SE, Collins M, Womack C, Griffin M, Ye M, Cantin S, Russell DL, Xie M, Hughes AM, Deng N, Mele DA, Fawell SE, Barry ST, Reimer C, Barrett JC, McCoon P2020Clinical Cancer ResearchImmuno-oncologyMultiplex IHC, Highplex FLHALO
Imaging Tumor-Infiltrating Lymphocytes in Brain Tumors with [64Cu]Cu-NOTA-anti-CD8-Positron Emission TomographyNagle V, Henry K, Hertz C, et al.2021Clinical Cancer ResearchImmuno-oncologyMultiplex IHCHALO
Cooperative targeting of immunotherapy-resistant melanoma and lung cancer by an AXL-targeting antibody-drug conjugate and immune checkpoint blockadeBoshuizen J, Pencheva N, Krijgsman O, Altimari DD, Castro PG, de Bruijn B, Ligtenberg MA, den Heuvel EG, Vredevoogd DW, Song J-Y, Visser N, Apriamashvili G, Janmaat ML, Plantinga TS, Franken P, Houtkamp M, Lingnau A, Jure-Kunkel M, Peeper DS2021Cancer ResearchImmuno-oncologyMultiplex-IHCHALO
Over-expression of Th2-related molecules in the skin of patients with eosinophilic dermatosis of hematologic malignancyMaglie R, Ugolini F, De Logu F, Nassini R, Simi S, Nardiello P, Pasqualaini E, Baroini G, Del Bianco E, Massi D, Antiga E2021Journal of the American Academy of DermatologyOncology, Immuno-oncologyArea Quantification, Multiplex IHCHALO Link
Temporal Analysis of Amylase Expression in Control, Autoantibody Positive, and Type 1 Diabetes Pancreatic TissuesKusmartseva I, Beery M, Hiller H, Padilla M, Selman S, Posgai A, Nick HS, Campbell-Thompson M, Schatz DA, Haller MJ, Wasserfall CH, Atkinson MA2019DiabetesMetabolismCytonuclearHALO
Kras and Lkb1 mutations synergistically induce intraductal papillary mucinous neoplasm derived from pancreatic duct cellsCollet L, Ghurburrun E, Meyers N, Assi M, Pirlot B, Leclercq IA, Couvelard A, Komuta M, Cros J, Demetter P, Lemaigre FP, Borbath I, Jacquemin P2019GutOncologyArea QuantificationHALO
Prognostic features of the tumour microenvironment in oesophageal adenocarcinomaMcShane R, Arya S, Stewart A, Caie P, Bates M2021Biochimica et Biophysica Acta (BBA) - Reviews on CancerImmuno-oncology, ReviewCytonuclearHALO
Mammalian Retinal Cell QuantificationMuthuswamy A, Chen H, Hu Y, Turner OC, Aina OH2020Toxicologic PathologyOtherCytonuclearHALO
Cx43 phosphorylation sites regulate pancreatic cancer metastasisSolan JL, Hingorani SR, Lampe PD2021OncogeneOncologyClassifier, Area QuantificationHALO
MAOA-mediated reprogramming of stromal fibroblasts promotes prostate tumorigenesis and cancer stemnessLi J, Pu T, Yin L, Li Q, Liao C-P, Wu BJ2020OncogeneOncologyMultiplex IHCHALO
Multimodal In Vivo and Post-mortem Assessments of Tau in Lewy Body DisordersCoughlin DG, Phillips JS, Roll E, Peterson C, Lobrovich R, Rascovsky K, Ungrady M, Wolk DA, Das S, Weintraub D, Lee EB, Trojanowski JQ, Shaw LM, Vaishnavi S, Siderowf A, Nasrallah IM, Irwin DJ, McMillan CT2020Neurobiology of AgingNeuroscienceArea QuantificationHALO
B7-H3 immune checkpoint expression is a poor prognostic factor in colorectal carcinomaLu Z, Zhao Z-X, Cheng P, Huang F, Guan X, Zhang M-G, Chen H-P, Liu Z, Jiang Z, Zheng Z-X, Zou S-M, Wang X-S2020Modern PathologyImmuno-oncologyMultiplex-IHC, TMAHALO
Chemoradiotherapy efficacy is predicted by intra-tumour CD8+/FoxP3+ double positive T cell density in locally advanced N2 non–small-cell lung carcinomaBoulle G, Velut Y, Mansuet-Lupo A, Gibault L, Blons H, Fournel L, Boni A, Cremer I, Wislez M, Duchatelle V, Tredaniel J, Hammond SA, Herbst R, Alifano M, Giraud P, Damotte D2020European Journal of CancerOncologyHighplex FLHALO
Neonatal hydrocephalus leads to white matter neuroinflammation and injury in the corpus callosum of Ccdc39 hydrocephalic miceGoulding DS, Vogel RC, Pandya CD, Shula C, Gensel JC, Mangano FT, Goto J, Miller BA2020Journal of NeurosurgeryImmunology, NeuroscienceMultiplex IHC, Highplex FLHALO
The RAC1 target NCKAP1 plays a crucial role in progression of BRAF/PTEN -driven melanoma in miceSwaminathan K, Campbell A, Papalazarou V, Jaber-Hijazi F, Nixon C, McGhee E, Strathdee D, Sansom OJ, Machesky LM2020Journal of Investigative DermatologyOncology, DermatologyArea Quantification, Multiplex IHCHALO
Intraductal pancreatic cancer is less responsive than cancer in the stroma to neoadjuvant chemotherapyFujikura K, Hutchings D, Braxton AM, Zhu Q, Laheru DA, Hruban RH, Thompson ED, Wood LD2020Modern PathologyOncologyMultiplex IHCHALO
Phosphorylation of connexin 43 at MAPK, PKC or CK1 sites each distinctly alter the kinetics of epidermal wound repairLastwika JK, Dunn CA, Solan JL, Lampe PD2019Journal of Cell ScienceDermatologyCytonuclearHALO
T-regulatory cells predict clinical outcome in soft tissue sarcoma patients: a clinico-pathological studySmolle M, Herbsthofer L, Granegger B, Goda M, Brcic I, Bergovec M, Scheipl S, Prietl B, Pichler M, Gerger A, Rossmann C, Riedl J, Tomberger M, López-García P, El-Heliebi A, Leithner A, Liegl-Atzwanger B, Szkandera J2021British Journal of CancerOncologyHighplex FL, TMAHALO
Quantitative digital image analysis of tumor-infiltrating lymphocytes in HER2-positive breast cancer Abe N, Matsumoto H, Takamatsu R, Tamaki K, Takigami N, Uehara K, Kamada Y, Tamaki N, Motonari T, Unesoko M, Nakada N, Zaha N, Zaha H, Yoshimi N2019Vichows ArchivOncologyClassifier, CytonuclearHALO
RNA isoform screens uncover the essentiality and tumor-suppressor activity of ultraconserved poison exonsThomas JD, Polaski JT, Feng Q, De Neef EJ, Hoppe ER, McSharry MV, Pangallo J, Gabel AM, Belleville AE, Watson J, Nkinsi NT, Berger AH, Bradley RK2020Nature GeneticsOtherHighplex FLHALO
Glucagon Receptor Inhibition Reduces Hyperammonemia and Lethality in Male Mice with Urea Cycle DisorderCavino K, Sung B, Su Q, Na E, Kim J, Cheng X, Gromada J, Okamoto H2020EndocrinologyMetabolismISH/FISH, Multiplex IHCHALO
Characterization of the tumor immune microenvironment in human papillomavirus-positive and -negative head and neck squamous cell carcinomasSuccaria F, Kvistborg P, Stein JE, Engle EL, McMiller TL, Rooper LM, Thompson E, Berger AE, van den Brekel M, Zuur CL, Haanen J, Topalian SL, Taube JM2020Cancer Immunology, ImmunotherapyImmuno-oncologyImmuneHALO
Temporospatial Development of Neuropathologic Findings in a Canine Model of Mucopolysaccharidosis IIIBHarm TA, Hostetter SJ, Nenninger AS, Valentine BN, Ellinwood NM, Smith JD2020Veterinary PathologyImmunology, NeruoscienceArea Quantification, CytonuclearHALO
Development of a clinically relevant ovarian cancer model incorporating surgical cytoreduction to evaluate treatment of micro-metastatic diseaseMorse CB, Voillet V, Bates BM, Chiu EY, Garcia NM, Gottardo R, Greenberg PD, Anderson KG2020Gynecologic OncologyOncologyMultiplex IHCHALO
PIK3CA mutation and CNV status and post-chemoradiotherapy survival in patients with cervical cancerMartell K, McIntyre JB, Kornaga EN, Chan AMY, Phan T, Kobel M, Enwere EK, Dean ML, Ghatage P, Lees-Miller SP, Doll CM2020Gynecologic OncologyOncologyClassifier, Highplex FL, TMAHAO
Tumor Platinum Concentrations and Pathological Responses Following Cisplatin-Containing Chemotherapy in Gastric Cancer Patients Cao Y, Chang Q, Cabanero M, Zhang W, Hafezi-Bakhtiari S, Hedley D, Darling G, Quereshy F, Jang R, Elimova E, Knox J, Ornatsky O, Serra S, Chen E2019Journal of Gastrointestinal CancerOncologyArea Quantification, CytonuclearHALO
PLX3397 treatment inhibits constitutive CSF1R-induced oncogenic ERK signaling, reduces tumor growth, and metastatic burden in osteosarcomaSmeester BA, Slipek NJ, Pomeroy EJ, Laoharawee K, Osum SH, Larsson AT, Williams KB, Stratton N, Yamamoto K, Peterson JJ, Rathe SK, Mills LJ, Hudson WA, Crosby MR, Wang M, Rahramann EP, Moriarity SB, Largaespada DA2020BoneOncologyCytonuclear, TMAHALO
IFN-III is selectively produced by cDC1 and predicts good clinical outcome in breast cancerHubert M, Gobbini E, Couillault C, Manh T-PV, Doffin A-C, Berthet J, Rodriguez C, Ollion V, Kielbassa J, Sajous C, Treilleux I, Tredan O, Dubois B, Dalod M, Bendriss-Vermare N, Caux C, Valladeau-Guilemond J2020ImmunologyOncologyHighplex FL, Partitions (tiles, margins)HALO
Using immuno-PET imaging to monitor kinetics of T cell-mediated inflammation and treatment efficiency in a humanized mouse model for GvHD Pektor S, Schlöder J, Klasen B, Bausbacher N, Wagner D-C, Schreckenberger W, Grabbe S, Jonuleit H, Miederer M2019European Journal of Nuclear Medicine and Molecular ImagingImmunologyCytonuclearHALO
Association between CD8 and PD?L1 expression and outcomes after radical prostatectomy for localized prostate cancerVicier C, Ravi P, Kwak L, Werner L, Huang Y, Evan C, Loda M, Hamid AA, Sweeney CJ2020The ProstateImmuno-oncologyClassifier, Highplex FLHALO
?-Synuclein modulates tau spreading in mouse brainsBassil F, Meymand ES, Brown HJ, Xu H, Cox TO, Pattabhiraman S, Maghames CM, Wu Q, Zhang B, Trojanowski JQ, Lee VM-Y2020Journal of Experimental MedicineNeuroscienceArea QuantificationHALO
A locus coeruleus to dentate gyrus noradrenergic circuit modulates aversive contextual processingSeo D, Zhang E, Piantadosi S, et al2021NeuronNeuroscienceArea Quantification, Highplex FLHALO
Clinicopathological significance of nerves in esophageal cancerGriffin N, Rowe CW, Gao F, Jobling P, Wills V, Walker MM, Faulkner S, Hondermarck H2020The American Journal of PathologyOncologyArea QuantificationHALO
AST-120 Treatment Alters the Gut Microbiota Composition and Suppresses Hepatic Triglyceride Levels in Obese MiceHiraga Y, Kubota T, Katoh, M, et al. 2021Endocrine ResearchMetabolismVacuoleHALO
High CD8+ tumour infiltrating lymphocyte density associates with unfavourable prognosis in oesophageal adenocarcinoma following poor response to neo?adjuvant chemoradiotherapyKoemans WJ, van Dieren JM, van den Berg J, Meijer G, Snaebjornsson P, Chalabi M, Lecot F, Riedl R, Krijgsman O, Hofland I, Broeks A, Voncken FEM, Peppelenbosch MP, Sosef MN, van Sandick JW, Kodach LL2021HistopathologyImmuno-oncologyCytonuclearHALO
High density of cytotoxic T-lymphocytes is linked to tumoral PD-L1 expression regardless of the mismatch repair status in colorectal cancerMöller K, Blessin N, Höflmayer D, et al.2021Acta OncologicaImmuno-oncologyHighplex FLHALO
Discoidin Domain Receptor 1 (DDR1) is Necessary for Tissue Homeostasis in Pancreatic Injury and Pathogenesis of Pancreatic Ductal AdenocarcinomaRuggeri JM, Franco-Barraza J, Sohail A, Zhang Y, Long D, di Magliano MP, Cukierman E, Fridman R, Crawford HC2020The American Journal of PathologyOncology, ImmunologyCytonuclear, Multiplex IHC, Highplex FLHALO
Chronic stress differentially alters mRNA expression of opioid peptides and receptors in the dorsal hippocampus of female and male ratsJohnson MA, Contoreggi NH, Kogan JF, Bryson M, Rubin BR, Gray JD, Kreek MJ, McEwen BS, Milner TA2021The Journal of Comparative NeurologyNeruoscienceISH/FISHHALO
Monocyte and macrophage derived myofibroblasts: Is it fate? A review of the current evidenceVierhout M, Ayoub A, Naiel S, Yazdanshenas P, Revill S, Reihani A, Dvorkin-Gheva A, Shi W, Ask K2021Wound Repair and RegenerationReviewISH/FISHHALO
Necroptosis in biliary atresia of the liverHashimoto M, Fujishima F, Lomphithak T, Jitkaew S, Nio M, Sasano H2021Medical Molecular MorphologyMetabolismMultiplex IHCHALO
Intracranial administration of alpha-synuclein fibrils in A30P-synuclein transgenic mice causes robust synucleinopathy and microglial inductionGentzel R, Toolan D, Jinn S, Schachter J, Ma L, Kahle P, Smith S, Marcus J2021Neurobiology of AgingNeuroscienceArea QuantificationHALO
A comparative study of cirrhosis sub-staging using the Laennec system, Beijing classification, and morphometryZhang X, Schiano T, Doyle E, Branch A, Florman S, Fiel M.2021Modern PathologyMetabolismClassifier, Area QuantificationHALO
Alteration of Colonic Mucin Composition and Cytokine Expression in Acute Swine DysenteryLin S J-H, Arruda B, Burrough E2021Veterinary PathologyImmunologyArea Quantification, ISH/FISHHALO
Selective loss of resident macrophage-derived insulin-like growth factor-1 abolishes adaptive cardiac growth to stressZaman R, Hamidzada H, Kantores C, Wong A, Dick S, Wang Y, Momen A, Aronoff L, Lin J, Razani B, Mital S, Billia F, Lavine K, Nejat S, Epelman S2021ImmunityImmunologyHighplex FLHALO
Ki-67 Proliferation Index Assessment in Gastroenteropancreatic Neuroendocrine Tumors by Digital Image Analysis With Stringent Case and Hotspot Level Concordance RequirementsBoukhar SA, Gosse MD, Bellizzi AM, Rajan A2021American Journal of Clinical PathologyOncologyCytonuclearHALO
Establishing standardized immune phenotyping of metastatic melanoma by digital pathologySobottka B, Nowak M, Frei A, Haberecker M, Merki S, Tumor Profiler consortium, Levesque M, Dummer R, Moch H, Koelzer V2021Laboratory InvestigationImmuno-oncologyMultiplex IHC, Spatial AnalysisHALO AI
Orexin receptors 1 and 2 in serotonergic neurons differentially regulate peripheral glucose metabolism in obesityXiao X Yeghiazaryan G, Hess S, Klemm P, Sieben A, Kleinridders A, Morgan D, Wunderlich F. Rahmouni K. Kong D, Scammell T, Lowell B, Kloppenburg P, Brüning J, Hausen A.2021Nature CommunicationsMetabolismISH/FISHHALO
Multiplex Immunohistochemical Phenotyping of T Cells in Primary Prostate CancerOzbek B, Ertunc O, Erickson A, Vidal I, Alexandre C, Guner G, Hicks J, Jones T, Taube J, Sfanos K, Yegnasubramanian S, DeMarzo A2021medRxivImmuno-oncologyClassifier, Cytonuclear, Highplex FL, Serial Section, RegistrationHALO
Simultaneous targeting of TGF-b/PD-L1 synergizes with radiotherapy by reprogramming the tumor microenvironment to overcome immune evasionLan Y, Moustaga M, Knoll M, Xu C, Furkel J, Lazorchak A, Yeung T, Hasheminasab S, Jenkins M, Meister S, Yu H, Schlegel J, Marelli B, Tang Z, Qin G, Klein C, Qi J, Zhou C, Locke G, Krunic D, Derner M, Schwager C, Fontana R, Kriegsmann K, Jiang F, Rein K, Kriegsmann M, Debus J, Lo K, Abdollahi A2021Cancer CellOncologyCytonuclearHALO
SLFN11 captures cancer-immunity interactions associated with platinum sensitivity in high-grade serous ovarian cancerWinkler C, King M, Berthe J, Ferraioli D, Garuti A, Grillo F, Rodriguez-Canales J, Ferrando L, Chopin N, Ray-Coquard I, Delpuech O, Bedognetti D, Ballestrero A, Leo E, Zoppoli G2021JCI InsightOncologyClassifier, CytonuclearHALO
Three subtypes of lung cancer fibroblasts definedistinct therapeutic paradigmsHu H, Peotrowska Z, Hare P, Chen H, Mulvey H, Mayfield A, Noeen S, Kattermann K, Greenberg M, Williams A, Riley A, Wilson J, Mao Y, Huang R, Banwait M, Ho J, Crowther G, Hariri L, Sequist L, Benes C, Niederst M, Engelman J2021Cancer CellOncologyCytonuclear, ISH/FISHHALO
NR4A1 regulates expression of immediate early genes, suppressing replication stress in cancerGuo H, Golczer G, Wittner B, Langenbucher A, Zachariah M, Dubash T, Hong X, Comaills V, Burr R, Ebright R, Horwitz E, Vuille J, Hajizadeh S, Wiley D, Reeves B, Zhang J, Niederhoffer K, Lu C, Wesley B, Ho U, Nieman L, Toner M, Vasudevan S, Zou L, Mostoslavsky R, Maheswaran S, Lawrence M, Haber D2021Molecular CellOncologyHighplex FLHALO
AG-205 Upregulates Enzymes Involved in Cholesterol Biosynthesis and Steroidogenesis in Human Endometrial Cells Independently of PGRMC1 and Related MAPR ProteinsThieffry C, Van Wynendaele M, Aynaci A, Maja M, Dupuis C, Loriot A, Marbaix E, Henriet P2021BiomoleculesOtherCytonuclear, Highplex FLHALO
p53-mediated redox control promotes liver regeneration and maintains liver function in response to CCl4Humpton T, Hall H, Kiourtis C, Nixon C, Clark W, Hedley A, Shaw R, Bird T, Blyth K, Vousden K2021Cell Death & DifferentiationMetabolismCytonuclear, Multiplex IHCHALO
Single-cell RNA transcriptome landscape of hepatocytes and non-parenchymal cells in healthy and NAFLD mouse liverSu Q, Kim S, Adewale F, Zhou Y, Alder C, Ni M, Wei Y, Burcznski M, Atwal G, Sleeman M, Murphy A, Xin Y, Cheng X2021iScienceMetabolismArea QuantificationHALO
Functional heterogeneity of POMC neurons relies on mTORC1 signalingSaucisse N, Mazier W, Simon V, Binder E, Catania C, Bellocchio L, Romanov R, Leon S, Matias I, Zizzari P, Quarta C, Cannich A, Meece K, Gonzales D, Clark S, Becker J, Yeo G, Fioramonti X, Merkle F, Wardlaw S, Harkany T, Massa F, Marsicano G, Cota D2021Cell ReportsNeuroscienceISH/FISHHALO
Atypical chemokine receptor 3 (ACKR3) induces the perturbation of rRNA biogenesis in colonic cells: a novel mechanism of colorectal tumorigenesisYang J, Li Y, Pan T, Miao R, Zhang Y, Wu S, Qu X, Cui S2021Research SquareOncologyArea QuantificationHALO
IL-1-driven stromal–neutrophil interactions define a subset of patients with inflammatory bowel disease that does not respond to therapiesFriedrich M, Pohin M, Jackson M, Korsunsky I, Bullers S, Rue-Albrecht K, Christoforidou Z, Sathananthan D, Thomas T, Ravindran R, Tandon R, Peres R, Sharpe H, Wei K, Watts G, Mann E, Geremia A, Attar M, Oxford IBD Cohort Investigators, Roche Fibroblast Network Consortium, McCuaig S, Thomas L, Collantes E, Uhlig H, Sansom S, Easton A, Raychaudhuri S, Travis S, Powrie F2021Nature MedicineGastroenterologyCytonuclearHALO
Increased IL-6 expression precedes reliable viral detection in the rhesus macaque brain during acute SIV infectionGopalakrishnan R, Aid M, Mercado N, Davis C, Malik S, Geiger E, Varner V, Jones R, Bosinger S, Piedra-Mora C, Martinot A, Barouch D, Reeves R, Tan C2021JCI InsightInfectious DiseaseArea QuantificationHALO
Combined CTLA-4 and PD-L1 blockade in patients with chemotherapy-naïve metastatic castration-resistant prostate cancer is associated with increased myeloid and neutrophil immune subsets in the bone microenvironmentSubudhi S, Siddiqui B, Aparicio A, Yadav S, Basu S, Chen H, Jindal S, Tidwell R, Varma A, Logothetis C, Allison J, Corn P, Sharma P2021Journal for ImmunoTherapy of CancerImmuno-oncologyCytonuclear, Multiplex IHCHALO
Expression of SARS-CoV-2 Entry Factors in the Pancreas of Normal Organ Donors and Individuals with COVID-19Kusmartseva I, Wu W, Syed F, Van Der Heide V, Jorgensen M, Joseph P, Tang X, Candelario-Jalil E, Yang C, Nick H, Harbert J, Posgai A, Paulsen J, Lloyd R, Cechin S, Pugliese A, Campbell-Thomson M, Vander Heide R, Evans-Molina C, Homann D, Atkinson M2020Cell MetabolismInfectious DiseaseArea QuantificationHALO
Baricitinib Treatment Resolves Lower-Airway Macrophage Inflammation and Neutrophil Recruitment in Sars-Cov-2-Infected Rhesus MacaquesHoang T, Pino M, Boddapati A, Viox E, Starke C, Upadhyay A, Gumber S, Nekorchuk M, Busman-Sahay K, Strongin Z, Harper J, Tharp G, Pellegrini K, Kirejczyk S, Zandi K, Tao S, Horton T, Beagle E, Mahar E, Lee M, Cohen J, Jean S, Wood J, Connor-Stroud F, Stammen R, Delmas O, Wang S, Cooney K, Sayegh M, Wang L, Filev P, Weiskopf D, Silvestri G, Waggoner J, Piantadosi A, Kasturi S, Al-Shakhshir H, Ribeiro S, Sekaly R, Levit R, Estes J, Vanderfold T, Schinazi R, Bosinger S, Paiardine M2021CellInfectious DiseaseMultiplex IHCHALO
Diagnostic and prognostic implications of a three-antibody molecular subtyping algorithm for non-muscle invasive bladder cancerJackson C, Chen L, Hardy C, Ren K, Visram K, Bratti V, Johnstone J, Sjödahl G, Siemens D, Gooding R, Berman D2021The Journal of Pathology: Clinical ResearchOncologyCytonuclear, TMAHALO
Transcriptomic Analysis of Healthy and Atopic Dermatitis Samples Reveals the Role of IL-37 in Human SkinZhou J, Gemperline D, Turner M, Oldach J, Molignano J, Sims J, Stayrook K2021ImmunoHorizonsDermatologyArea Quantification, CytonuclearHALO
Interleukin-33 activates group 2 innate lymphoid cell expansion and modulates endometriosisMiller J, Lingegowda H, Symons L, Bougie O, Young S, Lessey B, Koti M, Tayade C2021JCI InsightOtherArea Quantification, CytonuclearHALO
Development of a novel humanized mouse model for improved evaluation of in vivo anti-cancer effects of anti-PD-1 antibodyKatano I, Hanazawa A, Otsuka I, Yamaguchi T, Mochizuki M, Kawai K, Ito R, Goto M, Kagawa T, Takahashi T2021Scientific ReportsOncologyCytonuclear, Multiplex IHCHALO
A comparability study of natural and deglycosylated PD-L1 levels in lung cancer: evidence from immunohistochemical analysisMei J, Xu J, Yang X, Gu D, Zhou W, Wang H, Liu C2021Molecular CancerOncologyCytonuclear, Multiplex IHCHALO
Automated Detection and Classification of Desmoplastic Reaction at the Colorectal Tumour Front Using Deep LearningNearchou I, Ueno H, Kajiwara Y, Lillard K, Mochizuki S, Takeuchi K, Harrison D, Caie P2021CancersOncologyHALO AI
Mitochondria exert age-divergent effects on recovery from spinal cord injuryStewart A, McFarlane K, Vekaria H, Bailey W, Slone S, Tranthem L, Zhang B, Patel S, Sullivan P, Gensel J2021Experimental NeurologyNeuroscienceObject ColocalizationHALO
Large-Section Histopathology Can Better Indicate the Immune Microenvironment and Predict the Prognosis of Pancreatic Ductal Adenocarcinoma Than Small-Section HistopathologyDing G, Guo M, Yang Y, Sun C, Wu S, Liu X, Wang J, Jiang H, Liu Y, Zheng J2021Frontiers in OncologyOncologyMultiplex IHCHALO
Androgen Receptor Signalling in Macrophages Promotes TREM-1-mediated Cancer Cell Line Migration and InvasionCioni B, Zaalberg A, van Beihnum J, Melis M, van Brugsteden J, Muraro M, Hooijberg E, Peters D, Hofland I, Lubeck Y, de Jong J, Sanders J, Vivie J, van der Poel J, Griffioen A, Zwart W, Bergman A2021Nature CommunicationsOncologyHighplex FL, Partitions (tiles, margins)HALO
Dysregulation of Innate Lymphoid Cells in Patients with Active Rheumatoid Arthritis and Mice with Collagen-Induced ArthritisYang F, Luo X, Zhu W, Li J, Zheng Z, Zhu P2021Mediators of InflammationSpatial Analysis, Highplex FLHALO
CD147 antibody specifically and effectively inhibits infection and cytokine storm of SARS-CoV-2 and its variants delta, alpha, beta, and gammaGeng J, Chen L, Yuan Y, Wang K, Wang Y, Qin C, Wu G, Chen R, Zhang Z, Wei D, Du P, Zhang J, Lin P, Zhang K, Deng Y, Xu K, Liu J, Sun X, Guo T, Yang X, Wu J, Jiang J, Li L, Zhang K, Wang Z, Zhang J, Yan Q, Zhu H, Zheng Z, Miao J, Fu X, Yang F, Chen X, Tang H, Zhang Y, Shi Y, Zhu Y, Pei Z, Huo F, Liang X, Wang Y, Wang Q, Xie W, Li Y, Shi M, Bian H, Zhu P, Chen Z2021Signal Transduction and Targeted TherapyInfectious DiseaseCytonuclear, Multiplex IHC, Highplex FLHALO
Suppression of insulin-induced gene 1 (INSIG1) function promotes hepatic lipid remodelling and restrains NASH progressionAzzu V, Vacca M, Kamzolas I, Hall Z, Leslie J, Carobbio S, Virtue S, Davies S, Lukasik A, Dale M, Bohlooly-Y M, Acharjee A, Linden D, Bidault G, Petsalaki E, Griffin J, Oakley F, Allison M, Vidal-Puig2021Molecular MetabolismMetabolismArea Quantification, Cytonuclear, Multiplex IHCHALO
An endogenous opioid circuit determines state-dependent appetitive behaviorCastro D, Oswell C, Zhang E, Pedersen C, Piantadosi S, Rossi M, Hunker A, Guglin A, Moron J, Zweifel L, Stuber G, Bruchas M2021bioRxivNeuroscienceCytonuclear, Highplex FLHALO
A faithful in vivo model of human macrophages in metastatic melanomaVoillet V, Berger T, McKenna K, Paulson K, Smythe K, Hunter D, Valente W, Weaver S, Campbell J, Kim T, Byrd D, Bielas J, Pierce R, Chapuis A, Gottardo R, Rongvaux2021bioRxivCytonuclear, Multiplex IHCHALO
Maternal platelets pass interstices of trophoblast columns and are not activated by HLA-G in early human pregnancyGuettler J, Forstner D, Cvirn G, Maninger S, Brugger B Nonn O, Kupper N, Pritz E, Wernitznig S, Dohr G, Hutter H, Juch H, Isermann B, Kohli S, Gauster M2021Journal of Reproductive ImmunologyOtherCytonuclear, Highplex FLHALO
Absolute copy number fitting from shallow whole genome sequencing dataSauer C, Eldridge M, Vias M, Hall J, Boyle S, Macintyre G, Bradley T, Markowetz F, Brenton J2021bioRxivOncologyClassifierHALO
E3 ligase-inactivation rewires CBL interactome to elicit oncogenesis by hijacking RTK–CBL–CIN85 axisAhmed S, Buetow L, Gabrielsen M, Lilla S, Sibbet G, Sumpton D, Zanivan S, Hedley A, Clark W, Huang D2021OncogeneOncologyCytonuclear, Multiplex IHCHALO
Detection of Epstein–Barr Virus in Periodontitis: A Review of Methodological ApproachesTonoyan L, Chevalier M, Vincent-Bungnas S, Marsault R, Doglio A2021MircroorganismsReviewISH/FISH, ISH-IHC/FISH-IFHALO
CYRI-A limits invasive migration through macropinosome formation and integrin uptake regulationLe A, Yelland T, Paul N, Fort L, Nikolaou S, Ismail S, Machesky L2021Journal of Cell BiologyOtherCytonuclear, Multiplex IHCHALO
Structure of the helicase core of Werner helicase, a key target in microsatellite instability cancersNewman J, Gavard A, Lieb S, Ravichandran M, Hauer K, Werni P, Geist L, Bottcher J, Engen J, Rumpel K, Samwer M, Petronczki, Gileadi O2021Life Science AllianceOncologyCytonuclear, Highplex FLHALO
In vitro amplification of pathogenic tau conserves disease-specific bioactive characteristicsXu H, O'Reilly M, Gibbons G, Changolkar L, McBride J, Riddle D, Zhang B, Stieber A, Nirschl J, Kim S, Hoxha K, Brunden K, Schellenberg G, Trojanowski J, Lee V2021Acta NeuropathologicaNeruoscienceCytonuclear, Multiplex IHCHALO
Cross-linking of T cell to B cell lymphoma by the T cell bispecific antibody CD20-TCB induces IFN?/CXCL10-dependent peripheral T cell recruitment in humanized murine modelCremasco F, Menietti E, Speziale D, Sam J, Sammicheli S, Richard M, Varol A, Klein C, Umana P, Bacac M, Colombetti S, Perro M2021PLOS ONEOncologyCytonuclear, Multiplex IHC, Highplex FLHALO
Tissue-resident FOLR2+ macrophages associate with tumor-infiltrating CD8+ T cells and with increased survival of breast cancer patientsRamos, R, Missolo-Koussou Y, Gerber-Ferder Y, Bromley C, Bugatti M, Nunez N, Tosello J, Richer W, Denizeau J, Sedlik C, Caudana P, Kotsias F, Niborski L, Viel S, Bohec M, Lameiras S, Baulande S, Lesage L, Nicolas A, Mesure D, Vincent-Salomon A, Reyal F, Dutertre C, Ginhoux F, Vimeux L, Donnadieu E, Buttard B, Galon J, Zelenay S, Vermi W, Guermonprez P, Piaggio E, Helft J2021bioRxivImmuno-oncologyCytonuclear, Highplex FL, TMAHALO
CCNE1 amplification is synthetic-lethal with PKMYT1 kinase inhibitionGallo D, Young J, Fourtounis J, Martino G, Alvarez-Quilon A, Bernier C, Duffy N, Papp R, Roulston A, Stocco R, Szychowski J, Veloso A, Alam H, Baruah P, Fortin A, Bowlan J, Chaudhary N, Desjardins J, Dietrich E, Fournier S, Fugere-Desjardins C, de Rugy T, Leclaire M, Liu B, Melo H, Nicolas O, Singhania A, Szilard R, Tkac J, Yin S, Morris S, Zinda M, Marshall C, Duocher D2021bioRxivOtherCytonuclear, Multiplex IHCHALO
MNK inhibition sensitizes KRAS-mutant colorectal cancer to mTORC1 inhibition by reducing eIF4E phosphorylation and c-MYC expressionKnight J, Alexandrou C, Skalka G, Vlahov N, Pennel K, Officer L, Teodosio A, Kanellos G, Gay D, May-Wilson S, Smith E, Najumudeen A, Gilroy K, Ridgway R, Flanagan D, Smith R, McDonald L, MacKay C, Cheasty A, McArthur K, Stanway E, Leach J, Jackstadt R, Waldron J, Campbell A, Vlachogiannis G, Valeri N, Haigis K, Sonenberg N, Proud C, Jones N, Swarbrick M, McKinnon H, Faller W, LeQuense J, Edwards J, Willis A, Bushell M, Sansom O2021Cancer DiscoveryOncologyCytonuclear, Highplex FLHALO
Computational modeling of tau pathology spread reveals patterns of regional vulnerability and the impact of a genetic risk factorCornblath E, Li H, Changolkar C, Zhang B, Brown H, Gathagan R, Olufemi M, Trojanowski J, Bassett D, Lee V, Henderson M2021Science AdvancesNeuroscienceArea QuantificationHALO
Tau-tubulin kinase 1 phosphorylates TDP-43 at disease-relevant sites and exacerbates TDP-43 pathologyTian Y, Wang Y, Jablonski A, Hu Y, Sugam J, Koglin M, Stachel S, Zhou H, Uslaner J, Parmentier-Batteur S2021Neurobiology of DiseaseNeuroscienceArea QuantificationHALO
Pilot study of Tremelimumab with and without cryoablation in patients with metastatic renal cell carcinomaCampbell M, Matin S, Tam A, Sheth R, Ahrar K, Tidwell R, Rao P, Karam J, Wood C, Tannir N, Jonasch E, Gao J, Zurita A, Shah A, Jindal S, Duan F, Basu S, Chen H, Espejo A, Allison J, Yadav S, Sharma P2021Nature CommunicationsOncologyCytonuclearHALO
Cancer immune therapy with PD-1-dependent CD137 co-stimulation provides localized tumour killing without systemic toxicityQiao Y, Qiu Y, Ding J, Luo N, Wang H, Ling X, Sun J, Wu Z, Wang Y, Liu Y, Guo F, Sun T, Shen W, Zhang M, Wu D, Chen B, Xu W, Wang X2021Nature CommunicationsImmuno-oncologyCytonuclear, Multiplex IHCHALO
Small molecule inhibitors of ?-synuclein oligomers identified by targeting early dopamine-mediated motor impairment in C. elegansChen K, Menezes K, Rodgers J, )'Hara D, Tran N, Fujisawa K, Ishikura S, Khodaei S, Chau H, Cranston A, Kapadia M, Pawar G, Ping S, Krizus A, Lacoste A, Spangler S, Visanji N, Marras C, Majbour N, El-Agnaf O, Lozano A, Culotti, Suo S, Ryu W, Kalia S, Kalia L2021Molecular NeurodegenerationNeuroscienceCytonuclearHALO
Intratumoral Heterogeneity and Immune Response Indicators to Predict Overall Survival in a Retrospective Study of HER2-Borderline (IHC 2+) Breast Cancer PatientsRadziuviene G, Rasmusson A, Augulis R, Grineviciute R, Zilenaite D, Laurinaviciene A, Ostapenko V, Laurinavicius A2021Frontiers in OncologyImmuno-oncologyMembrane, Multiplex IHCHALO AI
The TRPA1 Channel Amplifies the Oxidative Stress Signal in MelanomaDe Logu F, Monteiro de Araujo D, Ugolini F, Iannone L, Vannucchi M, Portelli F, Landini L, Titiz M, De Giorgi V, Geppetti P, Massi D, Nassini R2021CellsArea Quantification, Multiplex IHCHALO, HALO Link, HALO AI
CD98-induced CD147 signaling stabilizes the Foxp3 protein to maintain tissue homeostasisGeng J, Chen R, Yang F, Lin P, Zhu Y, Fu X, Wang K, Feng Z, Wu J, Zhang H, Li Q, Chen Z, Zhu P2021Cellular and Molecular ImmunologyImmuno-oncologyCytonuclear, Highplex FLHALO
Immune Response in Myocardial Injury: In Situ Hybridization and Immunohistochemistry Techniques for SARS-CoV-2 Detection in COVID-19 AutopsiesChong P, Iqbal J, Yeong J, Aw T, Chan K, Chui P2021Frontiers in Molecular BiosciencesInfectious DiseaseHALO
STING regulates peripheral nerve regeneration and colony stimulating factor 1 receptor (CSF1R) processing in microgliaMorozzi G, Rothen J, Toussaint G, De Lange K, Westritschnig K, Doelemeyer A, Ueberschlag V, Kahle P, Lambert C, Obrecht M, Beckmann N, Ritter V, Panesar M, Stauffer D, Garnier I, Mueller M, Guerini D, Keller C, Knehr J, Roma G, Bidinosti M, Brachat S, Morvan F, Forano M2021iScienceNeuroscienceCytonuclearHALO AI
Deleting DNMT3A in CAR T cells prevents exhaustion and enhances antitumor activityPrinzing B, Zebley C, Petersen C, Fan Y, Anido A, Yi Z, Nguyen P, Houke H, Bell M, Haydar D, Brown C, Boi S, Alli S, Crawford J, Riberdy J, Park J, Zhou S, Velasquez M, DeRenzo C, Lazzarotto C, Tsai S, Vogel P, Pruett-Miller S, Langfitt D, Gottschalk S, Youngblood B, Krenciute G2021Science Translational MedicineImmuno-oncologyCytonuclearHALO
Isoform specific anti-TGF? therapy enhances antitumor efficacy in mouse models of cancerGupta A, Budhu S, Fitzgerald K, Giese R, Michel A, Holland A, Campesato L, vanSnick J, Uyttenhove C, Ritter G, Wolchok J, Merghoub T2021Communications BiologyOncologyArea QuantificationHALO
Inhibitory effects and mechanisms of the anti-covid-19 traditional Chinese prescription, Keguan-1, on acute lung injuryBai, Z, Li P, Wen J, Han Y, Cui Y, Zhou Y, Shi Z, Chen S, Li Q, Zhao X, Wang Z, Li R, Guo Y, Zhan X, Xu G, Ding K, Wang J, Xiao X2021Journal of EthnopharmacologyInfectious DiseaseHighplex FLHALO
Soluble guanylate cyclase signalling mediates etoposide resistance in progressing small cell lung cancerSchenk M, Humprey S, Hossain A, Revill M, Pearsall S, Lallo A, Brown S, Bratt S, Galvin M, Descamps T, Zhou C, Pearce S, Priest L, Greenhalgh M, Chaturvedi A, Kerr A, Blackhall F, Dive C, Frese K2021Nature CommunicationsOncologyClassifier, Area QuantificationHALO
Spatial mapping of protein composition and tissue organization: a primer for multiplexed antibody-based imagingHickey J, Neumann E, Radtke A, Camarillo J, Beuschel R, Albanese A McDonough E, Hatler J, Wiblin A, Fisher J, Croteau J, Small E, Sood A, Caprioli R, Angelo R. Nolan G, Chung K, Hewitt S, Germain R, Spraggins J, Lundberg E, Snyder M, Kelleher N, Saka S2021Nature MethodsReviewHALO
Alpha-synuclein from patient Lewy bodies exhibits distinct pathological activity that can be propagated in vitroMarotta N, Ara J, Uemura N, Lougee M, Meymand E, Zhang B, Petersson E, Trojanowski J, Lee V2021Acta Neuropathologica CommunicationsNeuroscienceHALO
Advances in mass cytometry and its applicability to digital pathology in clinical-translational cancer researchCereceda K, Jorquera R, Villarroel-Espindola, F2021Advances in Laboratory MedicineReviewHALO
Immuno-transcriptomic profiling of extracranial pediatric solid malignanciesBrohl A, Sindiri S, Wei J, Milewski D, Chou H, Song Y, Wen X, Kumar J, Reardon H, Mudunuri U, Collins J, Nagaraj S, Gangalapudi V, Tyagi M, Zhu Y, Masih K, Yohe M, Shern J, Qi Y, Turpin B, Leino D, Iwata S, Andrulis I, Wunder J, Toledo S, Meltzer P, Lau C, Teicher B, Magnan H, Ladanyi M, Khan J2021Cell ReportsOncologyHALO
*Immune cell topography predicts response to PD-1 blockade in cutaneous T cell lymphomaPhillips D, Matusiak M, Gutierrez BR, Bhate SS, Barlow GL, Jiang S, Demeter J, Smythe KS, Pierce RH, Fling SP, Ramchurren N, Cheever MA, Goltsev Y, West RB, Khodadoust MS, Kim YH, Schürch CM, Nolan GP2021Nature CommunicationsImmuno-oncologyHALO
A single cell atlas reveals distinct immune landscapes in transplant and primary tumors that determine response or resistance to immunotherapyWisdom AJ, Mowery YM, Hong CS, Qin X, Zhang D, Himes JE, Chen L, Fradin H, Muise ES, Xu ES, Carpenter DJ, Kent CL, Smythe KS, Williams N, Luo L, Ma Y, Owzar K, Bradley T, Kirsch DG2020Nature CommunicationsOncology, Immuno-oncologyCytonuclearHALO
Spatial Clustering of CD68+ Tumor Associated Macrophages with Tumor Cells is Associated
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A Deep Learning Approach for Tissue Spatial Quantification and Genomic Correlations of Histopathological ImagesLu Z, Zhan X, Wu Y, Chng J, Shao W, Ni D, Han Z, Zhang J, Feng Q, Huang K2020Genomics, Proteomics & BioinformaticsReviewHALO
CD117/c-kit Defines a Prostate CSC-Like Subpopulation Driving Progression and TKI ResistanceKoran S. Harris, Shi L, Foster BM, Mobley ME, Elliott PL, Song CJ, Watabe K, Langefeld CD, Kerr BA2020Scientific ReportsOncologyHALO
Localization of KRAS downstream target ARL4C to invasive pseudopods accelerates pancreatic cancer cell invasionHarada A, Matsumoto S, Yasumizu Y, Akama T, Eguchi H, Kikuchi A2021bioRxivOncologyArea QuantificationHALO
ABCF1 regulates dsDNA-induced immune responses in human airway epithelial cellsCao QT, Aguiar JA, Tremblay BJ-M, Abbas N, Tiessen N, Revill S, Makhdami N, Ayoub A, Cox G, Ask K, Doxey AC, Hirota JA2020Frontiers in Cellular and Infection MicrobiologyImmunologyHALO
Accelerated phosphatidylcholine turnover in macrophages promotes adipose tissue inflammation in obesityPetkevicius K, Virtue S, Bidault G, Jenkins B, Cubuk C, Morgantini C, Aouadi M, Dopazo J, Serlie M, Koulman A, Vidal-Puig A2019ElifeClassifier, Vacuole HALO
Bone Morphogenetic Protein Pathway Antagonism by Grem1 Regulates Epithelial Cell Fate in Intestinal RegenerationKoppens MAJ, Davis H, Valbuena GN, Mulholland EJ, Nasreddin N, Colombe M, Antanaviciute A, Biswas S, Friedrich M, Lee L, Oxford IBD cohort investigators, Wang LM, Koelzer VH, East JE, Simmons A, Winton DJ, Leedham SJ2021GastroenterologyGastroenterologyArea QuantificationHALO
Two distinct immunopathological profiles in autopsy lungs of COVID-19Nienhold R, Ciani Y, Koelzer V, Tzankov A, Haslbauer J, Menter T, Schwab N, Henkel M, Frank A, Zsikla V, Willi N, Kempf W, Hoyler T, Barbareschi M, Moch H, Tolnay M, Cathomas G, Dernichelis F, Junt T, Mertz K2021Nature CommunicationsInfectious DiseaseMultiplex IHCHALO AI
Effects of advanced age upon astrocyte-specific responses to acute traumatic brain injury in miceEarly AN, Gorman AA, Van Eldik LJ, Bachstetter AD, Morganti JM2019Journal of NeuroinflammationNeuroscienceArea QuantificationHALO
FK506-binding protein 13 expression is upregulated in interstitial lung disease and correlated with clinical severity: a potentially protective roleTat V, Ayaub EA, Ayoub A, Vierhout M, Naiel S, Padwal MK, Abed S, Mekhael O, Tandon K, Revill SD, Yousof T, Bellaye PS, Kolb PS, Dvorkin-Gheva A, Naqvi A, Cutz JC , Hambly N, Kato J, Vaughan M, Moss J, Kolb MRJ, Ask K2019American Journal of Respiratory Cell and Molecular BiologyImmunology, FibrosisArea Quantification, CytonuclearHALO
Integrated human pseudoislet system and microfluidic platform demonstrate differences in GPCR signaling in islet cellsWalker JT, Haliyur R, Nelson HA, Ishahak M, Poffenberger G, Aramandla R, Reihsmann C, Luchsinger JR, Saunders DC, Wang P, Garcia-Ocana A, Bottino R, Agarwal A, Powers AC, Brissove M2019bioRxivGastroenterologyCytonuclearHALO
Detection of engineered T cells in FFPE tissue by multiplex in situ hybridization and immunohistochemistryWright JH, Huang L-Y, Weaver S, Archila LD, McAfee MS, Hirayama AV, Chapuis AG, Bleakley M, Rongvaux A, Turtle CJ, Chanthaphavong S, Campbell JS, Pierce RH2020Journal of Immunological MethodsImmunologyISH/FISH, ISH-IHC/FISH-IFHALO
Mesenchyme-derived IGF2 is a major paracrine regulator of pancreatic growth and functionHammerle CM, Sandovici I, Brierley GV, Smith NM, Zimmer WE, Zvetkova I, Prosser HM, Sekita Y, Lam BYH, Ma M, Cooper WN, Vidal-Puig A, Ozanne SE, Medina-Gomez G, Constancia M2020PLOS GeneticsToxicologyArea QuantificationHALO AI
Microbial regulation of enteric eosinophils and its impact on tissue remodeling and Th2 immunityJimenez-Saiz R, Anipindi VC, Galipeau H, Ellenbogen Y, Chaudhary R, Koenig JF, Gordon ME, Walker TD, Mandur TS, Abed S, Humbles A, Chu DK, Ask K, Verdu EF, Jordana M2019Frontiers in ImmunologyImmunology, Infectious DiseaseArea QuantificationHALO
Distinct fibroblast functional states drive clinical outcomes in ovarian cancer and are regulated by TCF21Hussain A, Voisin V, Poon S, Dmytryshyn J ,Richman C, Meens J, Ho VW, Tang KH, Paterson J, Clarke B, Bernardini M, Bader G, Neel B, Ailles L2019Journal of Experimental MedicineOncologyClassifier, Area QuantificationHALO
Transcriptomic analysis links diverse hypothalamic cell types to fibroblast growth factor 1-induced sustained diabetes remissionBentsen MA, Rausch DM, Mirzadeh Z, Muta K, Scarlett JM, Brown JM, Herranz-Perez V, Baquero AF, Thompson J, Alonge KM, Faber CL, Kaiyala KJ, Bennett C, Pyke C, Ratner C, Egerod KL, Holst B, Meek TH, Kutlu B, Zhang Y, Sparso T, Grove KL, Morton GJ, Kornum BR, Garcia-Verdugo J-M, Secher A, Jorgensen R, Schwartz MW, Pers TH2020Nature CommunicationsMetabolismISH/FISHHALO
PPAR-gamma induced AKT3 expression increases levels of mitochondrial biogenesis driving prostate cancerGalbraith L, Mui E, Nixon C, Hedley A, Strachan D, MacKay G, Sumpton D, Sansom O, Leung H, Ahmad I2021OncogeneOncologyISH/FISHHALO
Pixelwise H-score: a novel digital image analysis-based metric to quantify membrane biomarker expression from immunohistochemistry imagesRam S, Vizcarra P, Whalen P, Deng S, Painter C, Jackson-Fisher A, Pirie-Shepherd S, Xia X, Powell E2021PLOS OneOtherCytonuclear, Multiplex IHCHALO
EHF is essential for epidermal and colonic epithelial homeostasis and suppresses Apc-initiated colonic tumorigenesisReehorst C, Nightingale R, Luk I, Jenkins L, Koentgen F, Williams D, Darido C, Tan F, Anderton H, Chopin M, Schoffer K, Eissmann M, Buchert M, Mouradov D, Sieber O, Ernst M, Dhillon A, Maridason J2021DevelopmentOncologyCytonuclear, Highplex FLHALO
LRPPRC regulates redox homeostasis via the circANKHD1/FOXM1 axis to enhance bladder urothelial carcinoma tumorigenesisWei W, Wang N, Deng M, Dong P, Liu J, Xiang Z, Li X, Li Z, Liu Z, Peng Y, Li Z, Jiang L, Yao K, Ye Y, Lu W, Zhang Z, Zhou F, Liu Z, Xie D, Yu C2021Redox BiologyMetabolismCytonuclear, Multiplex IHCHALO
A growth factor–expressing macrophage subpopulation orchestrates regenerative inflammation via GDF-15Patsalos A, Halasz L, Medina-Serpas M, Berger W, Daniel B, Tzerpos P, Kiss M, Nagy G, Fischer C, Simandi Z, Varga T, Nagy L2021Journal of Experimental MedicineMuscle FiberHALO
Antiretroviral therapy timing impacts latent tuberculosis infection reactivation in a tuberculosis/simian immunodeficiency virus coinfection modelSharan R, Ganatra S, Bucsan A, Cole J, Singh D, Alvarez X, Gough M, Alvarez C, Blakley A, Ferdin J, Thippeshappa R, Singh B, Escobedo R, Shivanna V, Dick E, Hall-Ursone S, Khader S, Mehra S, Rengarajan J, Kaushal D2021The Journal of Clinical InvestigationInfectious DiseaseCytonuclear, Highplex FLHALO
Effects of Dietary Pork Fat Cooked Using Different Methods on Glucose and Lipid Metabolism, Liver Inflammation and Gut Microbiota in RatsZhu W, Xu Y, Liu J, Chen D, Zhang H, Yang Z, Zhou X2021FoodsMetabolismArea QuantificationHALO
Low immunogenicity of LNP allows repeated administrations of CRISPR-Cas9 mRNA into skeletal muscle in miceKenjo E, Hozumi H, Makita Y, Iwabuchi K, Fujimoto N, Matsumoto S, Kimura M, Amano Y, Ifuku M, Naoe Y, Inukai N, Hotta A2021Nature CommunicationsOtherMuscle FiberHALO
Comprehensive clinicopathologic study of alpha fetoprotein-expression in a large cohort of patients with hepatocellular carcinomaRidder D, Weinmann A, Schindeldecker M, Urbansky L, Berndt K, Gerber T, Lang H, Lotz J, Lackner K, Roth W, Straub B2021International Journal of CancerOncologyCytonuclear, TMAHALO
Nuclear pore protein NUP210 depletion suppresses metastasis through heterochromatin-mediated disruption of tumor cell mechanical responseAmin R, Shukla A, Zhu J, Kim S, Wang P, Tian S, Tran A, Paul D, Cappell S, Burkett S, Liu H, Lee M, Kruhlak M, Dwyer J, Simpson R, Hager G, Ruan Y, Hunter K2021Nature CommunicationsOncologyArea QuantificationHALO AI
Inter-organ transmission of hepatocellular senescence induces multi-organ dysfunction through the TGF? signalling pathwayKiourtis C, Terradas-Terradas M, Gee L, Hsieh Y, Nixon C, Clark W, Shaw R, Hanson P, Sumpton D, Mackay G, May S, Muller M, Najumudeen A, Campbell A, Barry S, Morris C, LeBeau F, Sansom O, Kirschner K, Oakley F, Bird T2021Research SquareOtherArea Quantification, Cytonuclear, Multiplex IHCHALO
Hedgehog-signalling in papillary fibroblasts is essential for hair follicle regeneration during wound healingFrech S, Forsthuber A, Korosec A, Lipp K, Kozumov V, Lichtenberger B2021Journal of Investigative DermatologyDermatologyCytonuclear, Multiplex IHCHALO
Heterocellular OSM-OSMR signalling reprograms fibroblasts to promote pancreatic cancer growth and metastasisLee B, Hogg E, Below C, Kononov A, Blanco-Gomez A, Heider F, Xu J, Hutton C, Zhang X, Scheidt T, Beattie K, Lamarca A, McNamara M, Valle J, Jorgensen C2021Nature CommunicationsOncologyClassifier, Area QuantificationHALO
Evaluation of Early Markers of Ischemia-reperfusion Injury and Preservation Solutions in a Modified Hindlimb Model of Vascularized Composite AllotransplantationRostami S, Xu M, Datta S, Haykal S2022Transplantation DirectCytonuclear, Multiplex IHCHALO
B7-1 and programmed cell death-ligand 1 in primary and lymph node metastasis lesions of non-small cell lung carcinomaYamada T, Miki Y, Suzuki M, Kondoh O, Saito-Koyama R, Ono K, Okada Y, Sasano H2021Cancer MedicineOncologyCytonuclear, Multiplex IHCHALO
A minimal standardized human bone marrow microphysiological system to assess resident cell behavior during normal and pathological processesVoeltzel T, Fossard G, Degaud M, Geistlich K, Gadot N, Jeanpierre S, Mikaelian I, Brevet M, Anginot A, Le Bousse-Kerdiles M, Trichet V, Lefort S, Maguer-Satta V2021Biomaterials ScienceBiomaterialsArea Quantification, CytonuclearHALO
Effect of Electroacupuncture at Siguan Acupoints on Expression of BDNF and TrkB Proteins in the Hippocampus of Post-Stroke Depression RatsKang Z, Ye H, Chen T, et al.2021Journal of Molecular NeuroscienceNeuroscienceHALO
An ex vivo tumor fragment platform to dissect response to PD-1 blockade in cancerVoabil P, de Bruijn M, Roelofsen L, Hendriks S, Brokamp S, van den Braber M, Broeks A, Sanders J, Herzig P, Zippelius A, Blank C, Hartemink K, Monkhorst K, Haanen J, Schumacher T, Thommen D2021Nature MedicineImmuno-oncologyClassifier, Multiplex IHC, HALO
Computational pathology reveals unique spatial patterns of immune response in H&E images from COVID-19 autopsies: preliminary findingsCorredor G, Toro P, Bera K, Rasmussen D, Viswanathan V, Buzzy C, Fu P, Barton L, Stroberg E, Duval E, Gilmore H, Mukhopadhyay, Madabhushi A2021Journal of Medical ImagingInfectious DiseaseHALO Link
Anti-CD47 antibody administration via cisterna magna in proper dosage can reduce perihematomal cell death following intracerebral hemorrhage in ratsSong Y, Wang H, Li F, Huang Q, Zhang Z2021Brain Research BulletinOtherHighplex FLHALO
Investigation of Breast Cancer Microstructure and Microvasculature from Time-Dependent DWI and CEST in Correlation with Histological BiomarkersSomeya Y, Iima M, Imai H, Yoshizawa A, Kataoka M, Isoda H, Le Bihan D, Nakamoto Y2021Research SquareClassifier, Multiplex IHCHALO
Secretory pathway Ca-ATPase2 (SPCA2) gene knockout results in mouse mammary gland changes and a secretory defectReinhardt T, Lippolis J, Palmer M2021Research SquareOtherHALO
Specificity and off-target effects of AAV8-TBG viral vectors for the manipulation of hepatocellular gene expression in miceKiourtis C, Wilczynska A, Nixon C, Clark W, May S, Bird T2021Biology OpenOtherMultiplex IHCHALO
Cross-Platform Comparison of Computer-assisted Image Analysis Quantification of In Situ mRNA Hybridization in Investigative PathologyHolzer TR, Hanson JC, Wray EM, Bailey JA, Kennedy KR, Finnegan PR, Nasir A, Credille KM2019Applied Immunohistochemistry & Molecular MorpholgyOtherISH/FISHHALO
The SGLT2i Dapagliflozin Reduces RV Hypertrophy Independent of Changes in RV Pressure Induced by Pulmonary Artery BandingConnelly K, Wu E, Visram A, Friedberg M, Batchu S, Yeera V, Thai K, Nghiem L, Zhang Y, Kabir G, Desjardins J, Advani A, Gilbert R2021Research SquareOtherArea QuantificationHALO
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Local radiotherapy and E7 RNA-LPX vaccination show enhanced therapeutic efficacy in preclinical models of HPV16+ cancerSalomon N, Selmi A, Grunwitz C, Kong A, Stanganello E, Neumaier J, Petschenka J, Diken M, Kreiter S, Tureci O, Sahin U, Vascotto F2021Cancer Immunology, ImmunotherapyOncology, Infectious DiseaseHighplex FLHALO
Clinically relevant mitochondrial-targeted therapy improves chronic outcomes after traumatic brain injuryHubbard W, Spry M, Gooch J, Cloud A, Vekaria H, Burden S, Powell D, Berkowitz B, Geldenhuys W, Harris N, Sullivan P2021BrainNeuroscienceArea QuantificationHALO
Anti-CAIX BB? CAR4/8 T Cells Exhibit Superior Efficacy in a Clear Cell Renal Cell Carcinoma (ccRCC) Mouse ModelWang Y, Buck A, Grimaud M, Culhane A, Kodangattil S, Razimbaud C, Bonal D, Nguyen Q, Zhu Z, Wei K, O'Donnell M, Huang Y, Signoretti S, Choueiri T, Freeman G, Zhu Q, Marasco2021Molecular Therapy: OncolyticsOncologyCytonuclear, Multiplex IHCHALO
The microglial P2Y6 receptor mediates neuronal loss and memory deficits in neurodegenerationPuigdellivol M, Milde S, Vilalta A, Cockram T, Allendorf D, Lee J, Dundee J, Pampuscenko K, Borutaite V, Nuthall H, Brelstaff J, Spillantini G, Brown G2021Cell ReportsNeuroscienceArea Quantification, Cytonuclear, Multiplex IHCHALO
Cannabinoid control of gingival immune activation in chronically SIV-infected rhesus macaques involves modulation of the indoleamine-2,3-dioxygenase-1 pathway and salivary microbiomeMcDew-White M, Lee E, Alvarez X, Sestak K, Ling B, Byrareddy S, Okeoma C, Mohan M2022EBioMedicineInfectious DiseaseArea Quantification, Cytonuclear, Highplex FLHALO
Neoadjuvant immunotherapy with nivolumab and ipilimumab induces major pathological responses in patients with head and neck squamous cell carcinomaVos J, Elbers J, Krijgsman O, Traets J, Qiao X, van der Leun A, Lubeck Y, Seignette I, Smit L, Willems S, van den Brekel M, Dirven R, Karakullukcu B, Karssemakers L, Klop W, Lohuis P, Schreuder W, Smeele L, van der Velden L, Tan I, Onderwater S, Jasperse B, Vogel W, Al-Mamgani A, Keijser A, van der Noort V, Broeks A, Hooijberg E, Peeper D, Schumacher T, Blank C, de Boer J, Haanen J, Zuur C2021Nature CommunicationsOncologyClassifier, Highplex FLHALO
ACE2-IgG1 fusions with improved in vitro and in vivo activity against SARS-CoV-2Iwanaga N, Cooper L, Rong L, Maness N, Beddingfield B, Qin Z, Crabtree J, Tripp R, Yang H, Blair R, Jangra S, Garcia-Sastre A, Schotsaert M, Chandra S, Robinson J, Srivastava A, Rabito F, Qin X, Kolls J2022iScienceInfectious DiseaseHighplex FLHALO AI
Tumor MHC Class I Expression Associates with Intralesional Interleukin-2 Response in MelanomaPourmaleki M, Jones C, Ariyan C, Zeng Z, Pirun M, Navarrete D, Li Y, Zhang M, Nandakumar S, Campos C, Nadeem S, Klimstra D, Temple-Oberle C, Brenn T, Kipson E, Schenk K, Stein J, Taube J, White M, Traweek R, Wargo J, Kirkwood J, Gasmi B, Goff S, Corwin A, McDonough E, Ginty F, Callahan M, Schietinger A, Socci N, Mellinghoff I, Hollmann T2022Cancer Research ImmunologyImmuno-oncologyHighplex FLHALO
Progranulin mediates immune evasion of pancreatic ductal adenocarcinoma through regulation of MHCI expressionCheung P, Yang J, Fang R, Borgers A, Krengel K, Stoffel A, Althoff K, Yip C, Siu E, Ng L, Lang K, Cham L, Engel D, Soun C, Cima I, Scheffler B, Striefler J, Sinn M, Bahra M, Pelzer U, Oettle H, Markus P, Smeets E, Aarntzen E, Savvatakis K, Liffers S, Lueong S, Neander C, Bazarna A, Zhang X, Paschen A, Crawford H, Chan A, Cheung S, Siveke J2022Nature CommunicationsOncologyCytonuclear, Spatial Analysis, Highplex FLHALO
Tumor cell-derived exosomes deliver TIE2 protein to macrophages to promote angiogenesis in cervical cancerDu S, Qian J, Tan S, Li W, Liu P, Zhao J, Zeng Y, Xu L, Wang Z, Cai J2022Cancer LettersOncologyArea Quantification, Cytonuclear, Spatial Analysis, Highplex FLHALO
Understanding the impact of chemotherapy on the immune landscape of high-grade serous ovarian cancerVanguri R, Benhamida J, Young J, Li Y, Zivanovic O, Chi D, Snyder A, Hollmann T, Mager K2022Gynecologic Oncology ReportsOncologyClassifier, Cytonuclear, Highplex FLHALO
Landscape of cancer-associated fibroblasts identifies the secreted biglycan as a protumor and immunosuppressive factor in triple-negative breast cancerZheng S, Zou Y, Tang Y, Yang A, Liang J, Wu L, Tian W, Xiao W, Xie X, Yang L, Xie J, Wei W, Xie X2022OncoImmunologyImmuno-oncologyCytonuclear, Multiplex IHCHALO
The Tumor Immune Landscape and Architecture of Tertiary Lymphoid Structures in Urothelial Cancervan Dijk N, Gil-Himenez A, Silina K, van Montfoort M, Einerhand S, Jonkman L, Voskuilen C, Peters D, Sanders J, Lubeck Y, Broeks A, Hooijberg E, Vis D, van den Broek M, Wessels L, van Rhijn B, van der Heijden M2021Frontiers in ImmunologyImmuno-oncologyCytonuclear, Spatial Analysis, Highplex FLHALO AI
Postmortem high-dimensional immune profiling of severe COVID-19 patients reveals distinct patterns of immunosuppression and immunoactivationWu H, He P, Ren Y, Xiao S, Wang W, Liu Z, Li H, Wang Z, Zhang D, Cai J, Zhou X, Jiang D, Fei X, Zhao L, Zhang H, Liu Z, Chen R, Li W, Wang C, Zhang S, Qin J, Nasan B, Sun C2022Nature CommunicationsInfectious DiseaseMultiplex IHCHALO
EBV+ tumors exploit tumor cell-intrinsic and -extrinsic mechanisms to produce regulatory T cell-recruiting chemokines CCL17 and CCL22Jorapur A, Marshall L, Jacobson S, Xu M, Marubayashi S, Zibinsky M, Hu D, Robles O, Jackson J, Baloche V, Busson P, Wustrow D, Brockstedt D, Talay O, Kassner P, Cutler G2022PLOS PathogensOncologyISH/FISHHALO
AAV9/MFSD8 gene therapy is effective in preclinical models of neuronal ceroid lipofuscinosis type 7 diseaseChen X, Dong T, Hu Y, Shaffo F, Belur N, Mazzulli J, Gray S2022The Journal of Clinical InvestigationNeuroscienceArea Quantification, ISH/FISHHALO
Transcription factor Mesenchyme Homeobox Protein 2 (MEOX2) modulates nociceptor functionKokotovic T, Lenartowicz E, Langeslag M, Ciotu C, Fell C, Scaramuzza A, Fischer M, Kress M, Penninger J, Nagy V2022The FEBS JournalNeruoscienceMultiplex IHCHALO
Collaborative workflow between pathologists and deep learning for evaluation of tumor cellularity in lung adenocarcinomaSakamoto T, Furukawa T, Pham H, Kuroda K, Tabata K, Kshima Y, Okoshi E, Morimoti S, Bychkov A, Fukuoka J2022bioRxivOncologyCytonuclear, Multiplex IHCHALO AI
Switching to Regular Diet Partially Resolves Liver Fibrosis Induced by High-Fat, High-Cholesterol Diet in MiceFarooq M, Hameed H, Dimanchi-Boitrel M, Piquet-Pellorce C, Samson M, Le Seyec J2022NutrientsMetabolismArea QuantificationHALO
T cell-mediated anti-tumor immunity cooperatively induced by TGF?R1 antagonism and gemcitabine counteracts reformation of the stromal barrier in pancreatic cancerLi D, Schaub N, Guerin T, Bapiro T, Richards F, Chen V, Talsania K, Kumar P, Gilbert D, Scholmer J, Kim S, Sorber R, Teper Y, Bautista W, Palena C, Ock C, Jodrell D, Pate N, Mehta M, Zhao Y, Kozlov S, Rudloff U2021Molecular Cancer TherapeuticsImmuno-oncologyHighplex FLHALO
Genome Sequence and Experimental Infection of Calves with Bovine Gammaherpesvirus 4 (BoHV-4)Bauermann F, Falkenberg S, Martins M, Dassanayake R, Neill J, Ridpath J, Silveira S, Palmer M, Buysse A, Mohr A, Flores E, Diel D2022Research SquareInfectious Disease, OtherISH/FISHHALO
New Fully Automated Preparation of High Apparent Molar Activity 68Ga-FAPI-46 on a Trasis AiO PlatformDa Pieve C, Braga M, Turton D, Valla F, Cakmak P, Plate K, Kramer-Marek G2022MoleculesOtherCytonuclear, Highplex FLHALO
Retrospective analysis of the efficacy of adjuvant cytokine-induced killer cell immunotherapy combined with chemotherapy in colorectal cancer patients after surgeryLi X, Zhou H, Huang W, Wang X, Meng M, Hou Z, Liao L, Tang W, Xie Y, Wang R, Yu H, Wang L, Zhu H, Wang W, Tan J, Li R2022Clinical & Translational ImmunologyOncologyCytonuclear, Highplex FLHALO
Fasting improves therapeutic response in hepatocellular carcinoma through p53-dependent metabolic synergismKrstic J, Reinisch I, Schindlmaier K, Galhuber M, Riahi Z, Berger N, Kupper N, Moyschewitz E, Auer M, Michenthaler H, Nossing C, Repaoli M, Ramadani-Muja J, Usluer S, Stryeck S, Pichler M, Rinner B, Deutsch A, Reinisch A, Madl T, Chiozzi R, Heck A, Huch M, Malli R, Prokesch2022Science AdvancesOncologyClassifierHALO
GPNMB expression identifies TSC1/2/mTOR-associated and MiT family translocation-driven renal neoplasmsSalles D, Asrani K, Woo J, Vidotto T, Liu H, Vidal I, Matoso A, Netto G, Argani P, Lotan T2022The Journal of PathologyOncologyMembraneHALO
High-dose rifampin improves bactericidal activity without increased intracerebral inflammation in animal models of tuberculous meningitisRuiz-Bedoya C, Mota F, Tucker E, Mahmud F, Reyes-Mantilla M, Erice C, Bahr M, Flavahan K, De Jesus P, Kim J, Foss C, Peloquin C, Hammound D, Ordonez A, Pardo C, Jain S2022The Journal of Clinical InvestigationInfectious DiseaseArea QuanitificationHALO
Evaluation of a PEGylated Fibroblast Growth Factor 21 Variant Using Novel Preclinical Magnetic Resonance Imaging and Magnetic Resonance Elastography in a Mouse Model of Nonalcoholic SteatohepatitisTang H, Li J, Zinker B, Boehm S, Mauer A, Rex-Rabe S, Glaser K, Fronheiser M, Bradstreet T, Nakao Y, Petrone T, Pena A, Villano M, Chow P, Malhi H, Charles E, Hayes W, Ehman R, Du S, Yin M2022Journal of Magnetic Resonance ImagingMetabolismVacuoleHALO
Therapeutic treatment with the anti-inflammatory drug candidate MW151 may partially reduce memory impairment and normalizes hippocampal metabolic markers in a mouse model of comorbid amyloid and vascular pathologyBraun D, Powell D, McLouth C, Roy S, Watterson D, Van Eldik2022PLOS OneNeruoscienceClassifier, Area QuantificationHALO
African-Ancestry Associated Gene Expression Signatures and Pathways in Triple Negative Breast Cancer, a Comparison across Women of African DescentMartini R, Delpe P, Chu T, Arora K, Lord B, Verma A, Chen Y, Gebregzabher, Oppong J, Adjei E, Jibril A, Awuah B, Bekele M, Abebe E, Kyei I, Aitpillah F, Adinku M, Ankomah K, Osei-Bonsu E, Chitale D, Bensenhaver J, Nathanson S, Jackson L, Jiagge E, Petersen L, Proctor E, Gyan K, Gibbs L, Monojlovic Z, Kittles R, White J, Yates C, Manne U, Gardner K, Mongan N, Cheng E, Ginter P, Hoda S, Elemento O, Robine N, Sboner A, Carpten J, Newman L, Davis M2022medRxivOncologyMulitplex IHC, Serial SectionHALO
A selective and orally bioavailable VHL-recruiting PROTAC achieves SMARCA2 degradation in vivoKofink C, Trainor N, Mair B, Wrhrle S, Wurm M, Mischerikow N, Bader G, Rumpel K, Gerstberger T, Cui Y, Greb P, Garavel G, Scharnweber M, Fuchs J, Gremel G, Chette P, Hopf S, Budano N, Rinnenthal J, Gmaschitz G, Diers E, McLennan R, Roy M, Whitworth C, Vetma V, Mayer M, Koegl M, Ciulli A, Weinstabl H, Farnaby W2022Biological and Medicinal ChemistryClassifier, Cytonuclear, Multiplex IHCHALO
Obesity due to Steroid Receptor Coactivator-1 deficiency is associated with endocrine and metabolic abnormalitiesCacciottolo T, Henning E, Keogh J, Lassen P, Lawler K, Bounds R, Ahmed R, Perdikari A, Mendes de Oliverira E, Smith M, Godfrey E, Johnson E, Hodson L, Clement K, van der Klaauw A, Farooqi I2022The Journal of Clinical Endocrinology & MetabolismMetabolismVacuoleHALO
Intratumoural spatial distribution of S100B?+?folliculostellate cells is associated with proliferation and expression of FSH and ER? in gonadotroph tumoursIlie M, Vasiljevic A, Chanal M, Gadot N, Chinezu L, Jouanneau E, Hennino A, Raverot G, Bertolino P2022Acta Neuropathologica CommunicationsOncologyCytonuclear, Spatial AnalysisHALO
High-Field Asymmetric Waveform Ion Mobility Spectrometry and Parallel Reaction Monitoring Increases Sensitivity for Clinical Biomarker Quantitation from FormalinFixed, Paraffin-Embedded Tumor BiopsiesSweet S, Chain D, Yu W, Martin P, Rebelatto M, Chambers A, Cecchi F, Kim Y2022bioRxivOtherHALO AI
Glioblastoma exosomes influence glial cell hyaluronic acid deposition to promote invasiveness<Koessinger D, Novo D, Koessinger A, Zerbst D, Moore M, Mitchell L, Neilson M, Stevenson K, Chalmers A, Birch J, Norman J2022bioRxivCytonuclearHALO
The oral drug nitazoxanide restricts SARS-CoV-2 infection and attenuates disease pathogenesis in Syrian hamstersMiorin L, Mire C, Ranjbar S, Hume A, Huang J, Crossland N, White K, Laporte M, Kehrer T, Haridas V, Moreno E, Nambu A, Jangra S, Cupic A, Dejosez M, Abo K, Tseng A, Werder R, Rathnasinghe R, Mutetwa T, Ramos I, Sainz de Aja J, Garcia de Alba Rivas C, Schotsaert M, Corley R, Falvo J, Fernandez-Sesma A, Kim C, Rossingnol J, Wilson A, Zwaka T, Kotton D, Muhlberger E, Garcia-Sastre A, Goldfeld A2022bioRxivInfectious DiseaseArea QuantificationHALO
Pathogenesis of follicular thymic hyperplasia associated with rheumatoid arthritisOhe R, Yang S, Yamashita D, Ichikawa C, Saito A, Kabasawa T, Utsunomiya A, Aung N, Urano Y, Kitaoka T, Suzuki K, Takahara D, Sasaki A, Takakubo Y, Takagi M, Yamakawa M, Futakuchi M2022Pathology InternationalOtherCytonuclear, Multiplex IHCHALO
Pancreas resident macrophage-induced fibrosis has divergent roles in pancreas inflammatory injury and PDACBaer J, Zuo C, Kang L, Alarcon de la Lastra A, Bocherding N, Knolhoff B, Bogner S, Zhu Y, Lewis M, Zhang N, Kim K, Fields R, Mills J, Ding L, Randolph G, DeNardo D2022bioRxivFibrosisClassifier, Area Quantification, Cytonuclear, Multiplex IHC, Highplex FL, Figure MakerHALO
Nuclear expression of pSTAT3Tyr705 and pSTAT3Ser727 in the stromal compartment of localized hormone-naïve prostate cancerMarginean F, Hellsten R, Krzyanowska A, Bjartell A2022Pathology - Research and PracticeOncologyCytonuclear, Multiplex IHC, TMAHALO
Extracellular vesicles released after cranial radiation: An insight into an early mechanism of brain injurySukati S, Ho J, Chaiswing L, Sompol P, Pandit H, Wei W, Izumi T, Chen Q, Weiss H, Noel T, Bondada S, Butterfield D, St. Cair D2022Brain ResearchNeuroscienceArea QuantificationHALO
An Fc-inert PD-L1×4-1BB bispecific antibody mediates potent anti-tumor immunity in mice by combining checkpoint inhibition and conditional 4-1BB co-stimulationMuik A, Altintas I, Gieseke F, Schoedel K, Burm S, Toker A, Salcedo T, Verzijl, Eisel D, Grunwitz C, Kranz L, Vormehr M, Satijn D, Diken M, Kreiter S, Sasser K, Ahmadi T, Tureci O, Breij E, Jure-Kunkel M, Sahin U2022OncoImmunologyImmuno-oncologyArea Quantification, Immune, Multiplex IHCHALO
Eradicating tumor in a recurrent cervical cancer patient with autologous tumorinfiltrating lymphocytes and a modified lymphodepleting regimenGuo J, Luo N, Ai G, Yang W, Zhu J, Li C, Chen R, Zhang C, Liu S, Jin H, Cheng Z2022Journal for ImmunoTherapy of CancerImmuno-oncology
e The Association of Cholesterol Uptake and Synthesis with Histology and Genotype in Cortisol-Producing Adenoma (CPA)Motomura N, Yamazaki Y, Koga D, Harashima S, Gao X, Tezuka Y, Omata K, Ono Y, Morimoto R, Satoh F, Nakamura Y, Kwon G, Choi M, Ito A, Sasano H2022International Journal of Molecular SciencesArea Quantification, Cytonuclear, MembraneHALO
IgA-dominated humoral immune responses govern patients' outcome in endometrial cancerMandal G, Biswas S, Anadon C, Yu X, Gatenbee C, Prabhakaran S, Payne K, Chaurio R, Martin A, Innamarato P, Moran C, Powers J, Harro C, Mine J, Sprenger K, Rigolizzo K, Wang X, Curiel T, Rodriguez P, Anderson A, Saglam O, Conejo-Garcia J2021Cancer ResearchImmuno-oncologyClassifier, Cytonuclear, Highplex FLHALO
Tertiary lymphoid structures critical for prognosis in endometrial cancer patients - a TransPORTEC studyHoreweg N, Workel, H, Loiero D, Church D, Vermij L, Léon-Castillo A, Krog R, de Boer S, Nout R, Powel M, Mileshkin L, MacKay H, Leary A, Singh N, Jürgenliemk-Schulz I, Creutzberg C, Koelzer V, Nijman H, Bosse T, Bruyn M2022Nature CommunicationsOncologyCytonuclear, Multiplex IHC, TMAHALO, HALO AI
Genomic and single-cell landscape reveals novel drivers and therapeutic vulnerabilities of transformed cutaneous T-cell lymphomaSong X, Chang S, Seminario-Vidal L, de Mingo Pulido A, Tordesillas L, Song X, Reed R, Harkins A, Whiddon S, Nguyen J, Segura C, Zhang C, Yoder S, Sayegh Z, Zhao Y, Messina J, Harro C, Zhang X, Conejo-Garcia J, Berglund A, Sokol L, Zhang J, Rodriguez P, Mule J, Futreal A, Tsai K, Chen P2022Cancer DiscoveryOncologyCytonuclear, Highplex FL, TMAHALO
Collagen-VI expression is negatively mechanosensitive in pancreatic cancer cells and supports the metastatic nichePapalazarou V, Drew J, Juin A, Spence H, Nixon C, Salmeron-Sanchez M, Machesky L2022bioRxivOncologyArea Quantification, Figure MakerHALO
An immunoPET probe to SARS-CoV-2 reveals early infection of the male genital tract in rhesus macaquesMadden P, Thomas Y, Blair R, Samer S, Doyle M, Midkiff C, Becker M, Arif M, McRaven M, Simons L, Carias A, Martinelli E, Lorenzo-Redondo R, Hultquist J, Villinger F, Veazey R, Hope T2022bioRxivInfectious DiseaseHALO
Transcriptional and DNA Methylation Signatures of Subcutaneous Adipose Tissue and Adipose-Derived Stem Cells in PCOS WomenDivoux A, Erdos E, Whytock K, Osborne T, Smith S2022CellsArea QuantificationHALO
Tumor immune cell clustering and its association with survival in African American women with ovarian cancerWilson C, Soupir A, Thapa R, Creed J, Nguyen J, Segura C, Gerke T, Schildkraut J, Peres L, Fridley B2022PLOS Computational BiologyCytonuclear, Highplex FLHALO
Inhibition of CK2 mitigates Alzheimer’s tau pathology by preventing NR2B synaptic mislocalizationMarshall C, McBride J, Changolkar L, Riddle D, Trojanowski J, Lee V M-Y2022Acta Neuropathologica CommunicationsArea Quantification,HALO
Immunologic Gene Signature Analysis Correlates Myeloid Cells and M2 Macrophages with Time to Trabectedin Failure in Sarcoma PatientsSchroder B, Zhang Y, Smythe K, Desai P, Thomas A, Viveiros P, Alexiev B, Obeidin F, Chen E, Cranmer L, Wagner M, Jones R, Campbell J, Pierce R, He Q, Pollack S2022CancersOncologyCytonuclear, Highplex FLHALO
Fatal Neurodissemination and SARS-CoV-2 Tropism in K18-hACE2 Mice Is Only Partially Dependent on hACE2 ExpressionCarossino M, Kenney D, O'Connell A, Montarnaro P, Tseng A, Gertje H, Grosz K, Ericsson M, Huber B, Kurnick S, Subramaniam S, Kirkland T, Walker J, Francis K, Klose A, Paragas N, Bosmann M, Saeed M, Balasuriya U, Douam F, Crossland N2022VirusesInfectious DiseaseClassifier, Area Quantification, Highplex FLHALO
Multi-modal molecular imaging maps the correlation between tumor microenvironments and nanomedicine distributionStrittmatter N, Moss J, Race A, Sutton D, Canales J, Ling S, Wong E, Wilson J, Smith A, Howes C, Bunch J, Barry S, Goodwin R, Ashford M2022TheranosticsImmuno-oncologyHighplex FLHALO, HALO AI
An anti-PD-1–GITR-L bispecific agonist induces GITR clustering-mediated T cell activation for cancer immunotherapyChan S, Belmar N, Ho S, Rogers B, Stickler M, Graham M, Lee E, Tran N, Zhang D, Gupta P, Sho M, MacDonough T, Woolley A, Kim H, Zhang H, Liu W, Zheng P, Dezso Z, Halliwill K, Ceccarelli M, Rhodes S, Thakur A, Forsyth C, Xiong M, Tan S, Iyer R, Lake M, Digiammarino E, Zhou L, Bigelow L, Longenecker K, Judge R, Liu C, Trumble M, Remis J, Fox M, Cairns B, Akamatsu Y, Hollenbaugh D, Farding F, Alvarez H2022Nature CancerImmuno-oncologyArea Quantification, Cytonuclear, Highplex FLHALO
ZEB1 transcription factor promotes immune escape in melanomaPlaschka M, Benboubker V, Grimont M, Berthet J, Tonon L, Lopez J, Le-Bouar M, Balme B, Tondeau G, de la Fouchardiere A, Larue L, Puisieux A, Grinberg-Bleyer Y, Bendriss-Vermare N, Dubois B, Caux C, Dalle S, Caramel J2022Journal for ImmunoTherapy of CancerImmuno-oncologyCytonuclear, Multiplex IHC, Highplex FLHALO
Malfunction of airway basal stem cells plays a crucial role in pathophysiology of tracheobronchopathia osteoplasticaHong Y, Shan S, Gu Y, Huang H, Zhang Q, Han Y, Dong Y, Liu Z, Huang M, Ren T2022Nature CommunicationsOtherCytonuclear, Multiplex IHCHALO
Deep-Learning-Aided Detection of Mycobacteria in Pathology Specimens Increases the Sensitivity in Early Diagnosis of Pulmonary Tuberculosis Compared with Bacteriology TestsZaizen Y, Kanhori Y, Ishijima S, Kitamura Y, Yoon H, Ozasa M, Mukae H, Bychkov A, Hoshino T, Fukuoka J2022DiagnosticsInfectious DiseaseHALO, HALO AI
Acetyl-CoA-carboxylase 1 (ACC1) plays a critical role in glucagon secretionVeprik A, Denwood G, Liu D, Bakar R, Morfin V, McHugh K, Tebeka N, Vetterli L, Yonova-Doing E, Gribble F, Reimann F, Hoehn K, Hemsley P, Ahnfelt-Ronne J, Rorsman P, Zhang Q, Wet H, Cantley J2022Communications BiologyMetabolismCytonuclear, Highplex FLHALO
Sulforaphane exhibits antiviral activity against pandemic SARS-CoV-2 and seasonal HCoV-OC43 coronaviruses in vitro and in miceOrdonez A, Bullen C, Villabona-Rueda A, Thompson E, Turner M, Merino V, Yan Y, Kim J, Davis S, Komm O, Powell J, D'Alessio F, Yolken R, Jain S, Jones-Brando L2022Communications BiologyInfectious DiseaseArea Quantification, Multiplex IHCHALO
Construction of immune related prognostic model for pancreatic ductal adenocarcinoma based on single cell RNA-seq analysisChen K, Wang Q, Liu X, Wang F, Ma Y, Zhang S, Shao Z, Yang Y, Tian X2022Research SquareOncologyCytonuclear, Highplex FLHALO
Extracellular matrix proteins regulate NK cell function in peripheral tissuesBunting M, Vyas M, Requesens M, Langenbucher A, Schiferle E, Manguso R, Lawrence M, Demehri S2022Science AdvancesDermatologyCytonuclear, Highplex FLHALO
Multiplex Immunohistochemical Phenotyping of T Cells in Primary Prostate CancerOzbek B, Ertunc O, Erickson A, Vidal I, Gomes-Alexandre C, Guner G, Hicks J, Jones T, Taube J, Sfanos K, Yegnasubramanian S, DeMarzo A2022The ProstateImmuno-oncologyClassifier, Cytonuclear, Highplex FL, Serial Section, Registration, Figure Maker, TMAHALO
Interspatial Distribution of Tumor and Immune Cells in Correlation with PD-L1 in Molecular Subtypes of Gastric CancersDislich B, Mertz K, Gloor B, Langer R2022CancersImmuno-oncologyMultiplex IHC, Spatial Analysis, Figure MakerHALO
Adrenal tropism of SARS-CoV-2 and adrenal findings in a post-mortem case series of patients with severe fatal COVID-19Paul T, Ledderose S, Bartsch H, Sun N, Soliman S, Markl B, Ruf V, Herms J, Stern M, Keppler O, Delbridge C, Muller S, Piontek G, Kimoto Y, Schreiber F, Williams T, Neumann J, Knosel T, Schulz H, Spallek R, Graw M, Kirchner T, Walch A, Rudelius M2022Nature CommunicationsInfectious DiseaseCytonuclear, Highplex FLHALO
Soluble TREM2 induces microglia dysfunction and brain damage while cleavage-reduced TREM2 shows sustained microglia activation with enhanced remyelination in the cuprizone modelBeckmann N, Neuhaus A, Zurbruegg S, Joller S, Feuerbach D, Doelemeyer A, Schweizer T, Rudin S, Nuemann U, Berth R, Frieauff W, Gasparani F, Shimshek D2022Research SquareNeuroscienceHALO
Genome-wide mapping of oncogenic pathways and genetic modifiers of chemotherapy using a high-risk hepatoblastoma genetic modelFang J, Singh S, Natarajan S, Tillman H, Abuzaid A, Durbin A, Lee H, Wu Q, Steele J, Connelly J, Cheng C, Jin H, Chen W, Fan Y, Pruett-Miller S, Rehg J, Emmons J, Cairo S, Wang R, Glazer E, Murphy A, Chen T, Davidoff A, Easton J, Chen X, Yang J2022Research SquareOncologyClassifierHALO
Spatially mapping the immune landscape of melanoma using imaging mass cytometryMoldoveanu D, Ramsay L, Lajoie M, Anderson-Trocme L, Lingrand M, Berry D, Perus L, Wei Y, Moraes C, Alkallas R, Rajkumar S, Zuo D, Dankner M, Xu E, Bertos N, Najafabadi H, Gravel S, Costantino S, Richer M, Lund A, Del Rincon S, Spatz A, Miller W, Jamal R, Lapointe R, Mes-Masson A, Turcotte S, Petrecca K, Dumitra S, Meguerditchian A, Richardson K, Tremblay F, Wang B, Chergui M, Guiot M, Watters K, Stagg J, Quail D, Mihalcioiu C, Meterissian S, Watson I2022Science ImmunologyOncologyHighplex FLHALO
Improved cognitive impairments by silencing DMP1 via enhancing the proliferation of neural progenitor cell in Alzheimer-like miceZhao H, Wei J, Du Y, Chen P, Liu X, Liu H2022Aging CellNeuroscienceCytonuclear, Highplex FLHALO
A tumor suppressor role for EZH2 in diffuse midline glioma pathogenesisDhar S, Gadd S, Patel P, Vaynshteyn Jm Raju G, Hashizume R, Brat D, Becher O2022Acta Neuropathologica CommunicationsNeuroscienceHALO
Loss of ubiquitin-specific peptidase 18 destabilizes 14-3-3? protein and represses lung cancer metastasisChen Z, Zheng L, Chen Y, Liu X, Kawakami M, Mustachi L, Roszik J, Ferry-Galow K, Parchment R, Liu X, Andresson T, Duncan G, Kurie J, Rodriguez-Canales J, Liu X, Dmitrovsky E2022Cancer Biology & TherapyOncologyClassifier, CytonuclearHALO
Ad26.COV2.S prevents upregulation of SARS-CoV-2 induced pathways of inflammation and thrombosis in hamsters and rhesus macaquesAid M, Vidal S, Piedra-Mora C, Ducat S, Chan C, Bondoc S, Colarusso A, Starke C, Nekorchuk M, Busman-Sahay K, Estes J, Martinot A, Barouch D2022PLOS PathogensInfectious DiseaseArea Quantification, Multiplex IHCHALO, HALO AI
Clinical tissue biomarker digital image analysis: A review of current applicationsLi Z, Bui M, Pantanowitz L2022Human Pathology ReportsReviewHALO
Peritumoral TIGIT+CD20+ B cell infiltration indicates poor prognosis but favorable adjuvant chemotherapeutic response in gastric cancerLiu H, Wu J, Xu X, Wang H, Zhang C, Yin S, He Y2022International ImmunopharmacologyOncologyCytonuclear, Spatial Analysis, Highplex FLHALO
Subpopulations of cancer-associated fibroblasts link the prognosis and metabolic features of pancreatic ductal adenocarcinomaHu B, Wu C, Mao H, Gu H, Dong H, Yan J, Qi Z, Yuan L, Dong Q, Long J2022Annals of Translational MedicineOncologyCytonuclear, Highplex FLHALO
Vertical transmission of attaching and invasive E. coli from the dam to neonatal mice predisposes to more severe colitis following exposure to a colitic insult later in lifeBrand M, Proctor A, Hostetter J, Zhou N, Friedberg I, Jergens A, Phillips G, Wannemuehler M2022PLOS ONEOtherISH/FISHHALO
Advanced Age and Neurotrauma Diminish Glutathione and Impair Antioxidant Defense after Spinal Cord InjuryStewart A, Glaser E, Mott C, Bailey W, Sullivan P, Patel S, Gensel J2022Journal of NeurotraumaNeuroscienceAxonHALO
Humanized mice reveal a macrophage-enriched gene signature defining human lung tissue protection during SARS-CoV-2 infectionKenney D, O'Connell A, Turcinovic J, Montanaro P, Hekman R, Tamura T, Berneshawi A, Cafiero T, Abdullatif S, Blum B, Goldstein S, Heller B, Gertje H, Bullitt E, Trachtenberg A, Chavez E, Nono E, Morrison C, Tseng A, Sheikh A, Kurnick S, Grosz K, Bosmann M, Ericsson M, Huber B, Saeed M, Balazs A, Francis K, Klose A, Paragas N, Campbell J, Connor J, Emili A, Crossland N, Ploss A, Douam F2022Cell ReportsInfectious DiseaseArea Quantification, Highplex FLHALO
A Deep Learning Convolutional Neural Network Can Differentiate Between Helicobacter Pylori Gastritis and Autoimmune Gastritis With Results Comparable to Gastrointestinal PathologistsFranklin M, Schultz F, Tafoya M, Kerwin A, Broehm C, Fischer E, Gullapalli R, Clark D, Hanson J, Martin D2022Archives of Pathology & Laboratory MedicineOncology, GastroenterologyHALO, HALO AI
Interface astrogliosis in contact sport head impacts and military blast exposureBabcock K, Abdolmohammadi B, Kiernan P, Mahar I, Cherry J, Alvarez V, Goldstein L, Stein T, McKee, Huber B2022Acta Neuropathologica CommunicationsNeruoscienceArea QuantificationHALO
The GBA1 D409V mutation exacerbates synuclein pathology to differing extents in two alpha-synuclein modelsPolinski N, Martinez T, Ramboz S, Sasner M, Herberth M, Switzer R, Ahmad S, Pelligrino L, Clark S, Marcus J, Smith S, Dave K, Frasier M2022Disease Models & MechanismsNeuroscienceObject ColocalizationHALO
Organelle resolved proteomics reveals new chordoma cell surface markers required for proliferation and association with outcomeKhan S, Zuccato J, Ignatchenko V, Singh O, Govindarajan M, Waas M, Gao A, Zadeh G, Kislinger T2022Research SquareOncologyCytonuclear, Multiplex IHCHALO
Intraoperative abobotulinumtoxinA alleviates pain after surgery and improves general wellness in a translational animal modelCornet S, Carre D, Limana L, Castel D, Meilin S, Horn R, Pons L, Evans S, Lezmi S, Kalinichev M2022Research SquareOtherArea Quantification, Object ColocalizationHALO
Immune cell subsets in interface cutaneous immune-related adverse events (cirAEs) associated with anti-PD-1 therapy resemble accute graft vs host disease more than licen planusCruz G, Kaunitz G, Stein J, Sander I, Hollmann T, Cottrell T, Taube J, Sunshine J2022Journal of Cutaneous PathologyImmunologyCytonuclear, Multiplex IHCHALO
Therapeutic impact of BET inhibitor BI 894999 treatment: backtranslation from the clinicTontsch-Grunt U, Traexler P, Baum A, Musa H, Marzin K, Wang S, Trapani F, Engelhardt H, Solca F2022British Journal of CancerOncologyClassifier, Cytonuclear, Multiplex IHCHALO
Immune and epithelial determinants of age-related risk and alveolar injury in fatal COVID-19Chait M, Yilmaz M, Shakil S, Ku A, Dogra P, Connors T, Szabo P, Gray J, Wells S, Kubota M, Matsumoto R, Poon M, Snyder M, Baldwin M, Sims P, Saqi A, Farber D, Weisberg S2022JCI InsightInfectious DiseaseMultiplex IHCHALO
Neuropathology and virus in brain of SARS-CoV-2 infected non-human primatesRutkai I, Mayer M, Hellmers L, Ning B, Huang Z, Monjure C, Coyne C, Silvestri R, Golden N, Hensley K, Chandler K, Lehmicke G, Bix G, Maness N, Russell-Lodrigue K, Hu T, Roy C, Blair R, Bohm R, Doyle-Meyers L, Rappaport J, Fisher T2022Nature CommunicationsInfectious DiseaseArea QuantificationHALO
Increased apoptotic sensitivity of glioblastoma enables therapeutic targeting by BH3-mimeticsKoessinger A, Cloix C, Koessinger D, Heiland D, Bock F, Strathdee K, Kinch K, Martinez-Escardo L, Paul N, Nixon C, Malviya G, Jackson M, Campbell K, Stevenson K, Davis S, Elmasry Y, Ahmed A, O'Prey J, Ichim G, Schnell O, Stewart W, Blyth K, Ryan K, Chalmers A, Norman J, Tait S2022Cell Death & DifferentiationOncologyHALO
SPOP promotes cervical cancer progress by inducing PD-1 move away from PD-L1 in spatial localizationWu J, Wu Y, Guo Q, Chen S, Wang S, Zhu J, Wu X, Ju X2022Research SquareOncologyCytonuclear, Spatial Analysis, Highplex FL, TMAHALO
Hyperpolarized 13C-Pyruvate Metabolism as a Surrogate for Tumor Grade and Poor Outcome in Renal Cell Carcinoma—A Proof of Principle StudyUrsprung S, Woitek R, McLean M, Priest A, Crispin-Ortuzar M, Brodie C, Gill A, Gehrung M, Beer L, Riddick A, Field-Rayner J, Grist J, Deen S, Riemer F, Kaggie J, Zaccagna F, Duarte J, Locke M, Frary A, Aho T, Armitage J, Casey R, Mendichovszky I, Welsh S, Barrett T, Graves M, Eisen T, Mitchell T, Warren A, Brindle K, Sala E, Stewart G, Gallagher F2022CancersOncologyArea Quantification, Cytonuclear, Multiplex IHCHALO
Title (click the + for more info)AuthorsYearJournalApplicationHALO ModulesProduct
Stem cell–derived CAR T cells traffic to HIV reservoirs in macaquesBarber-Axthelm IM, Barber-Axthelm V, Sze KY, Zhen A, Suryawanshi GW, Chen ISY, Zack JA, Kitchen SG, Kiem H-P, Peterson CW2021JCI InsightImmunology, Infectious DiseaseArea QuantificationHALO
IL-1-driven stromal-neutrophil interaction in deep ulcers defines a pathotype of therapy non-responsive inflammatory bowel disease Friedrich M, Pohin M, Jackson MA, Korsunsky I, Bullers S, Rue-Albrecht K, Christoforidou Z, Sathananthan D, Ravindran R, Peres RS, Sharpe H, Wei K, Watts GFM, Mann EH, Geremia A, Thomas T, Attar M, Oxford IBD Cohort Investigators, Roche Fibroblast Network Consortium, McCuaig S, Thomas L, Collantes E, Uhlig HH, Sansom S, Easton A, Raychaudhuri S, Travis SP, Powrie FM2021bioRxivImmunologyCytonuclearHALO
Highly Fermentable Fiber Alters Fecal Microbiota and Mitigates Swine Dysentery Induced by Brachyspira hyodysenteriaeHelm ET, Gabler NK, Burrough ER2021AnimalsInfectious DiseaseCytonuclearHALO
Vascular endothelial ERp72 is involved in the inflammatory response in a rat model of skeletal muscle injuryKhalaf NB, Al-Mehatab D, Fathallah DM2021Medicine ReportsImmunologyCytonuclearHALO
Lipid Source and Peroxidation Status Alter Immune Cell Recruitment in Broiler Chicken Ileum Fries-Craft KA, Meyer MM, Lindblom SC, Kerr BJ, Bobeck EA2021The Journal of NutritionImmunologyISH/FISHHALO
Frontotemporal lobar degeneration proteinopathies have disparate microscopic patterns of white and grey matter pathologyGiannini LAA, Peterson C, Ohm D, Xie SX, McMillan CT, Raskovsky K, Massimo L, Suh E, Van Deerlin VM, Wolk DA, Trojanowski JQ, Lee EB, Grossman M, Irwin DJ2021Acta Neuropathologica CommunicationsNeuroscienceArea QuantificationHALO
Fasting reverses drug-resistance in hepatocellular carcinoma through p53-dependent metabolic synergismKrstic J, Reinisch I, Schindlmaier K, Galhuber M, Berger N, Kupper N, Moyschewitz E, Auer M, Michenthaler H, Nössing C, Depaoli MR, Ramadani-Muja J, Stryeck S, Pichler M, Rinner B, Deutsch AJA, Reinisch A, Madl T, Chiozzi RZ, Heck AJR, Huch M, Malli R, Prokesch A2021bioRxivOncologyClassifier, CytonuclearHALO
Recruitment of KRAS downstream target ARL4C to membrane protrusions accelerates pancreatic cancer cell invasionHarada A, Matsumoto S, Yasumizu Y, Akama T, Eguchi H, Kikuchi A2021bioRxivOncologyArea QuantificationHALO
Potential role of M2 TAMs around lymphatic vessels during lymphatic invasion in papillary thyroid carcinomaKabasawa T, Ohe R, Aung NY, Urano Y, Kitaoka T, Tamazawa N, Utsunomiya A, Yamakawa M2021Scientific ReportsOncologyArea QuantificationHALO
Amylin deposition activates HIF1? and 6-phosphofructo-2-kinase/fructose-2, 6-biphosphatase 3 (PFKFB3) signaling in failing hearts of non-human primatesLiu M, Li N, Qu C, Gao Y, Wu L, Hu LG2021Communications BiologyMetabolismArea Quantification, CytonuclearHALO
BMP pathway antagonism by Grem1 regulates epithelial
cell fate in intestinal regeneration
Koppens MAJ, Davis H, Valbuena GN, Mulholland EJ, Nasreddin N, Colombe M, Antanaviciute A, Biswas S, Friedrich M, Lee L, Oxford IBD cohort investigators, Wang LM, Koelzer VH, East JE, Simmons A, Winton DJ, Leedham SJ2021bioRxivGastroenterologyArea QuantificationHALO
A distinct repertoire of cancer-associated fibroblasts is enriched in cribriform prostate cancerHesterberg AB, Rios BL, Wolf EM, Tubbs C, Wong HY, Schaffer KR, Lotan TL, Giannico GA, Gordetsky JB, Hurley PJ2021Journal of Pathology:Clinical ResearchOncologyClassifier, ISH/FISHHALO
Dystrophic microglia are associated with neurodegenerative disease and not healthy aging in the human brainShahidehpour RK, Higdon RE, Crawford NG, Neltner JH, Ighodaro ET, Patel E, Price D, Nelson PT, Bachstetter AD2021Neurobiology of AgingNeuroscienceArea QuantificationHALO
Inhibition of Hedgehog signaling alters fibroblast composition in pancreatic cancer Steele NG, Biffi G, Kemp SB, Zhang Y, Drouillard D, Syu L-J, Hao Y, Oni TE, Brosnan E, Elyada E, Doshi A, Hansma C, Espinoza C, Abbas A, The S, Irizarry-Negron VM, Halbrook CJ, Franks N, Hoffman M, Brown KL, Carpenter ES, Nwosu ZC, Johnson C, Lima F, Anderson MA, Park Y, Crawford HC, Lyssiotis CA, Frankel TF, Rao A, Bednar F, Dlugosz AA, Preall J, Tuveson DA, Allen B, di Magliano MP2021Clinical Cancer ResearchOncologyArea QuantificationHALO
Locally confined IFN? production by CD4+ T cells provides niches for murine cytomegalovirus
4 replication in the salivary gland
Oderbolz J, Zangger N, Zimmerman L, Sandu I, Starruß J, Graw F, Oxenius A2021bioRxivClassifier, Spatial Analysis, Highplex FLHALO
Kaiso (ZBTB33) subcellular partitioning functionally links LC3A/B, the tumor microenvironment, and breast cancer survivalSinghal SK, Byun JS, Park S, Yan T, Yancey R, Caban A, Hernandez SG, Hewitt SM, Boisvert H, Hennek S, Bobrow M, Ahmed SU, White J, Yates C, Aukerman A, Vanguri R, Bareja R, Lenci R, Farré PL, De Siervi A, Nápoles AM, Vohra N, Gardner K2021Communications BiologyOncologyCytonuclear, TMAHALO
Deep Learning-Based Annotation Transfer between Molecular Imaging Modalities: An Automated Workflow for Multimodal Data IntegrationRace AM, Sutton D, Hamm G, Maglennon G, Morton JP, Strittmatter N, Campbell A, Sansom OJ, Wang Y, Barry ST, Takáts Z, Goodwin RJA, Bunch J2021Analytical ChemistryOncologyHALO AI
Integrative molecular characterization of sarcomatoid and rhabdoid renal cell carcinomaBakouny Z, Braun DA, Shukla SA, Pan W, Gao X, Hou Y, Flaifel A, Tang S, Bosma-Moody A, He MX, Vokes N, Nyman J, Xie W, Nassar AH, Alaiwi SA, Flippot R, Bouchard G, Steinharter JA, Nuzzo PV, Ficial M, Sant’Angelo M, Forman J, Berchuck JE, Dudani S, Bi K, Park J, Camp S, Sticco-Ivins M, Hirsch L, Baca SC, Wind-Rotolo M, Ross-Macdonald P, Sun M, Mary Lee G-SM, Chang SL, Wei XX, McGregor BA, Harshman LC, Genovese G, Ellis L, Pomerantz M, Hirsch MS, Freedman ML, Atkins MB, Wu CJ, Ho TH, Linehan WM, McDermott DF, Heng DYC, Viswanathan SR, Signoretti S, Van Allen EM, Choueiri TK2021Nature CommunicationsOncologyHighplex FLHALO
IgA transcytosis and antigen recognition govern ovarian cancer immunityBiswas S, Mandal G, Payne KK, Anadon CM, Gatenbee CD, Chaurio RA, Costich TL, Moran C, Harro CM, Rigolizzo KE, Mine JA, Trillo-Tinoco J, Sasamoto N, Terry KL, Marchion D, Buras A, Wenham RM, Yu X, Townsend MK, Tworoger SS, Rodriguez CR, Anderson AR, Conejo-Garcia JR2021NatureImmuno-oncologyHighplex FLHALO
Characterization of Macrophages and Osteoclasts in the Osteosarcoma Tumor Microenvironment at Diagnosis: New Perspective for Osteosarcoma Treatment?Gomez-Brouchet A, Gilhodes J, Van Acker N, Brion R, Bouvier C, Assemat P, Gaspar N, Aubert S, Guinebretiere J-M, Marie B, Larousserie F, Entz-Werlé N, de Pinieux G, Mascard E, Gouin F, Brousset P, Tabone M-D, Jimenez M, Le Deley M-C, Blay J-Y,
Brugieres L , Piperno-Neumann S, Rédini F
2021CancersImmuno-oncologyHighplex FLHALO
CD30+OX40+ Treg is associated with improved overall survival in colorectal cancerLam JH, Hong M, Koo S-L, Chua CWL, Lim KL, Wee F, Wan WK, Leow WQ, Yeo JG, Tan IBH, Yeong J, Lim TKH, Lim TS2021Cancer Immunology, ImmunotherapyImmuno-oncologyHighplex FLHALO
Sustained Helicobacter pylori infection accelerates gastric dysplasia in a mouse modelO’Brien VP, Koehne AL, Dubrulle J, Rodriguez AE, Leverich CK, Kong VP, Campbell JS, Pierce RH, Goldenring JR, Choi E, Salama NR2021Life Science AllianceImmuno-oncologyHighplex FLHALO
A feasibility study of combined epigenetic and vaccine therapy in advanced colorectal cancer with pharmacodynamic endpointBever KM, Thomas DL, Zhang J, Rivera EAD, Rosner GL, Zhu Q, Nauroth JM, Christmas B, Thompson ED, Anders RA, Judkins C, Liu M, Jaffee EM, Ahuja N, Zheng L, Azad NS2021Clinical EpigeneticsOncologyImmune, MembraneHALO
CD8+ T cells fail to limit SIV reactivation following ART withdrawal until after viral amplificationOkoye AA, Duell DD, Fukazawa Y, Varco-Merth B, Marenco A, Behrens H, Chaunzwa TM, Selseth AN, Gilbride RM, Shao J, Edlefsen PT, Geleziunas R, Pinkevych M, Davenport MP, Busman-Sahay K, Nekorchuk MD, Park H, Smedley JV, Axthelm MK, Estes JD, Hansen SG, Keele BF, Lifson JD, Picker LJ2021The Journal of Clinical InvestigationImmunology, Infectious DiseaseISH/FISHHALO
The effect of cyfluthrin on testis inhibin B in rats and the intervention of Lycium barbarum polysaccharideGuo X, Xie Y-X, Guo C, Wei J-L, Yang H-F2021Molecular & Cellular ToxicologyToxicologyMultiplex IHCHALO
Cooperative targeting of immunotherapy-resistant melanoma and lung cancer by an AXL-targeting antibody-drug conjugate and immune checkpoint blockadeBoshuizen J, Pencheva N, Krijgsman O, Altimari DD, Castro PG, de Bruijn B, Ligtenberg MA, den Heuvel EG, Vredevoogd DW, Song J-Y, Visser N, Apriamashvili G, Janmaat ML, Plantinga TS, Franken P, Houtkamp M, Lingnau A, Jure-Kunkel M, Peeper DS2021Cancer ResearchImmuno-oncologyHALO
ATP-binding cassette transporters restrict drug delivery and efficacy against brain tumors even when blood-brain barrier integrity is lostde Gooijer MC, Kemper EM, Buil LCM, Citirikkaya CH, Buckle T, Beijnen JH, van Tellingen O2021Cell Reports MedicineOncologyHALO
The amino acid transporter SLC7A5 is required for efficient growth of KRAS-mutant colorectal cancerNajumudeen AK, Ceteci F, Fey SK, Hamm G, Steven RT, Hall H, Nikula CJ, Dexter A, Murta T, Race AM, Sumpton D, Vlahov N, Gay DM, Knight JRP, Jackstadt R, Leach JDG, Ridgway RA, Johnson ER, Nixon C, Hedley A, Gilroy K, Clark W, Malla SB, Dunne PD, Rodriguez-Blanco G, Critchlow SE, Mrowinska A, Malviya G, Solovyev D, Brown G, Lewis DY, Mackay GM, Strathdee D, Tardito S, Gottlieb E, CRUK Rosetta Grand Challenge Consortium, Takats Z, Barry ST, Goodwin RJA, Bunch J, Bushell M, Campbell AD, Sansom OJ2021Nature GeneticsOncologyHALO
Single-cell analysis shows that adipose tissue of persons with both HIV and diabetes is enriched for clonal, cytotoxic, and CMV-specific CD4+ T cellsWanjalla CN, McDonnell WY, Ram R, Chopra A, Gangula R, Leary S, Mashayekhi M, Simmons JD, Warren CM, Bailin S, Gabriel CL, Cuo L, Furch BD, Lima MC, Woodward BO, Hannah L, Pilkinton MA, Fuller DT, Kawai K, Virmani R, Finn AV, Hasty AH, Mallal SA, Kalams SA, Koethe JR2021Cell Reports MedicineImmunology, MetabolismHALO
Acute Respiratory Distress in Aged, SARS-CoV-2 Infected African Green Monkeys but not Rhesus MacaquesBlair RV, Vaccari M, Doyle-Meyers LA, Roy CJ, Russell-Lodrigue K, Fahlberg M, Monjure CJ, Beddingfield B, Plante KS, Plante JA, Weaver SC, Qin X, Midkiff CC, Lehmicke G, Golden N, Threeton B, Penney T, Allers C, Barnes MB, Pattison M, Datta PK, Maness NJ, Birnbaum A, Fischer T, Bohm RP, Rappaport J2020The American Journal of PathologyInfectious DiseaseClassifierHALO
Association of COVID-19 inflammation with activation of the C5a–C5aR1 axisCarvelli J, Demaria O, Vely F, Batista L, Benmansour NC, Fares J, Carpentier S, Thibult M-L, Morel A, Andre P, Represa A, Piperoglou C, Cordier PY, Le Dault E, Guervilly C, Simone P, Gainnier M, Morel Y, Ebbo M, Schleinitz N, Vivier E2020NatureImmunologyCytonuclearHALO
Impact of Preanalytical Factors During Histology Processing on Section Suitability for Digital Image AnalysisChlipala EA, Butters M, Brous M, Fortin JS, Archuletta R, Copeland K, Bolon B2020Toxicologic PathologyToxicologyArea Quantification, CytonuclearHALO
Tumor vessel normalization, immuno-stimulatory reprogramming, and improved survival in glioblastoma with combined inhibition of PD-1, angiopoietin-2, and VEGF Di Tacchio M, Macas J, Weissenberger J, Sommer K, Bähr O, Steinbach JP, Senft C, Seifert V, Glas M, Herrlinger U, Krex D, Meinhardt M, Weyerbrock A, Timmer M, Goldbrunner R, Deckert M, Scheel AH, Büttner R, Grauer OM, Schittenhelm J, Tabatabai G, Harter PN, Guenther S, Devraj K, Plate KH, Reiss Y2020Cancer Immunology ResearchOncology, Immuno-oncologyClassifier, CytonuclearHALO
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The prevalence and prognostic significance of estrogen receptor beta expression in non-small cell lung cancerEnwere EK, Dean ML, Li H, D'Silva A, Bebb DG2020Translational Lung Cancer ResearchOncologyCytonuclear, TMAHALO
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Conformation-selective tau monoclonal antibodies inhibit tau pathology in primary neurons and a mouse model of Alzheimer’s diseaseGibbons GS, Kim S-J, Wu Q, Riddle DM, Leight SN, Changolkar L, Xu H, Meymand ES, O'Reilly M, Zhang B, Brunden KR, Trojanowski JQ, Lee VMY2020Molecular NeurodegenerationNeuroscienceArea QuantificationHALO
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Ex-vivo delivery of monoclonal antibody (Rituximab) to treat human donor lungs prior to transplantationKu TJY, Ribeiero RVP, Ferreira VH, Galasso M, Keshavjee S, Kumar D, Cypel M, Humar A2020EBioMedicineOtherClassifier, CytonuclearHALO
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Implementation of PD-L1 22C3 IHC pharmDxTM in Cell Block Preparations of Lung Cancer: Concordance with Surgical Resections and Technical Validation of CytoLyt® PrefixationLou SK, Ko HM, Kinoshita T, MacDonald S, Weiss J, Czarnecka-Kujawa K, Boerner SL, Yasufuku K, Tsao M-S, Schwock J2020Acta CytologicaOncologyClassifier, MembraneHALO
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Assessment of associations between clinical and immune microenvironmental factors and tumor mutation burden in resected nonsmall cell lung cancer by applying machine learning to whole-slide imagesOno A, Terada Y, Kawata T, Serizawa M, Isaka M, Kawabata T, Imai T, Mori K, Muramatsu K, Hayashi I, Kenmotsu H, Oshima K, Urakami K, Nagashima T, Kusuhara M, Akiyama Y, Sugino T, Ohde Y, Yamaguchi K, Takahashi T T2020Cancer MedicineClassifier, Multiplex IHC, Serial SectionHALO
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RUNX1 is a driver of renal cell carcinoma correlating with clinical outcomeRooney N, Mason SM, McDonald L, Däbritz HM, Campbell KJ, Hedley A, Howard S, Athineos D, Nixon C, Clark W, Leach JDG, Samsom OJ, Edwards J, Cameron ER, Blyth K2020Cancer ResearchOncologyCytonuclearHALO
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Prognostic significance of mesothelin expression in colorectal cancer disclosed by area-specific four-point tissue microarraysShiraishi T, Shinto E, Nearchou IP, Tsuda H, Kajiwara Y, Einama T, Caie PD, Kishi Y, Ueno H2020Vichows ArchivOncologyCytonuclear, TMAHALO AI
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Lung Expression of Human ACE2 Sensitizes the Mouse to SARS-CoV-2 InfectionHan K, Blair RV, Iwanaga N, Liu F, Russell-Lodrigue KE, Qin Z, Midkiff CC, Golden NA, Doyle-Meyers LA, Kabir ME, Chandler KE, Cutrera KL, Ren M, Monjure CJ, Lehmicke G, Fischer T, Beddingfield B, Wanek AG, Birnbaum A, Maness NJ, Roy CJ, Datta PK, Rappaport J, Kolls JK, Qin X2020American Journal of Respiratory Cell and Molecular BiologyInfectious DiseaseHALO AI
Human ileal organoid model recapitulates clinical incidence of diarrhea associated with small molecule drugsBelair DG, Visconti RJ, Hong M, Marella M, Peters MF, Scott CW, Kolaja KL2020Toxicology in VitroToxicologyHighplex FLHALO
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Tumoral PD-1hiCD8+ 1 T cells are partially exhausted and 2 predict favorable outcome in triple-negative breast cancer Guo L, Cao C, Goswami S, Huang X, Ma L, Guo Y, Yang B, Li T, Chi Y, Zhang X, Wu J2020Clinical ScienceImmuno-oncologyHighplex FLHALO
CXCR4+ cells are increased in lung tissue of patients with idiopathic pulmonary fibrosisJaffar J, Griffiths K, Oveissi S, Duan M, Foley M, Glaspole I, Symons K, Organ L, Westfall G2020Respiratory ResearchFibrosisHighplex FLHALO
Rova-T enhances the anti-tumor activity of anti-PD1 in a murine model of small cell lung cancer with endogenous Dll3 expressionVitorino P, Chuang C-H, Iannello Z, Zhao X, Anderson W, Ferrando R, Zhang Z, Madhavan S, Karsunky H, Saunders LR2020Translational OncologyImmuno-oncologyHighplex FLHALO
Safety, immunogenicity, and clinical efficacy of durvalumab in combination with folate receptor alpha vaccine TPIV200 in patients with advanced ovarian cancer: a phase II trialZamarin D, Walderich S, Holland A, Zhou Q, Iasonos AE, Torrisi JM, Merghoub T, Chesebrough LF, Mcdonnell AS, Gallagher JM, Li Y, Hollmann TJ, Grisham RN, Erskine CL, Block MS, Knutson KL, O'Cearbhaill RE, Aghajanian C, Konner JA2020Journal for ImmunoTherapy of CancerImmuno-oncologyHighplex FLHALO
Trajectory and Functional Analysis of PD-1high CD4+CD8+ T Cells in Hepatocellular Carcinoma by Single-Cell Cytometry and Transcriptome SequencingZheng B, Wang D, Qiu X, Luo G, Wu T, Yang S, Li Z, Zhu Y, Wang S, Wu R, Sui C, Gu Z, Shen S, Jeong S, Wu Z, Gu J, Wang H, Chen L2020Advanced ScienceImmuno-oncologyHighplex FLHALO
Pulmonary Mycobacterium tuberculosis control associates with CXCR3- and CCR6-expressing antigen-specific Th1 and Th17 cell recruitmentShanmugasundaram U, Bucsan AN, Ganatra SR, Ibegbu C, Quezada M, Blair RV, Alvarez X, Velu V, Kaushal D, Rengarajan J2020JCI InsightInfectious DiseaseHighplex FLHALO AI
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STAT3 inhibition with galiellalactone efectively targets the prostate cancer stem?like cell populationCanesin G, Maggio V, Palominos M, Stiehm A, Contreras HR, Castellon EA, Morote J, Paciucci R, Maitland NJ, Bjartell A, Hellsten R2020Scientific ReportsOncologyMembraneHALO
Genetic alterations and expression characteristics of ARID1A impact tumor immune contexture and survival in early-onset gastric cancerZou J, Qin W, Wang L, Wang Y, Shen J, Xiong W, Yu S, Song S, Ajani JA, Lin S-Y, Mills GB, Yuan X, Chen J, Peng G2020American Journal of Cancer ResearchImmuno-oncologySpatial Analysis, Highplex FLHALO
Computational image analysis of T-cell infiltrates in resectable gastric cancer: association with survival and molecular subtypesChalloner BR, von Loga K, Woolston A, Griffiths B, Sivamanoharan N, Semiannikova M, Newey A, Barber LJ, Mansfield D, Hewitt LC, Saito Y, Davarzani N, Starling N, Melcher A, Grabsch HI, Gerlinger M2020JNCI: Journal of the National Cancer InstituteImmuno-oncologyMultiplex IHCHALO
Temporal and Spatial Heterogeneity of Host Response to SARS-CoV-2 Pulmonary InfectionDesai N, Neyaz A, Szabolcs A, Shih AR, Chen JH, Thapar V, Nieman LT, Solovyov A, Mehta A, Lieb DJ, Kulkarni AS, Jaicks C, Pinto CJ, Juric D, Chebib I, Colvin RB, Kim AY, Monroe R, Warren SE, Danaher P, Reeves JW, Gong J, Rueckert EH, Greenbaum BD, Hacohen N, Lagana SM, Rivera MN, Sholl LM, Stone JR, Ting DT, Deshpande V2020medRxivInfectious DiseaseMultiplex IHCHALO
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Immunogradient Indicators for Antitumor Response Assessment by Automated Tumor-Stroma Interface Zone DetectionRasmusson A, Zilenaite D, Nestarenkaite A, Augulis R, Laurinaviciene A, Ostapenko V, Poskus T, Laurinavicius A2020The American Journal of PathologyMultiplex IHCHALO AI
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MCL1 inhibition is effective against a subset of small-cell lung cancer with high MCL1 and low BCL-XL expressionYasuda Y, Ozasa H, Kim YH, Yamazoe M, Ajimizu H, Funazo TY, Nomizo T, Tsuji T, Yoshida H, Sakamori Y, Najajima N, Menju T, Yoshizawa A, Date H, Hirai T2020Cell Death & DiseaseOncology, Immuno-oncologyCytonuclearHALO
Inhibition of myostatin prevents microgravity-induced loss of skeletal muscle mass and strengthSmith RC, Cramer MS, Mitchell PJ, Lucchesi J, Ortega AM, Livingston EW, Ballard D, Zhang L, Hanson J, Barton K, Berens S, Credille KM, Bateman TA, Ferguson VL, Ma YL, Stodieck LS2020PLOS OneMyologyMuscle FiberHALO
Photoacoustic imaging biomarkers for monitoring biophysical changes during nanobubble-mediated radiation treatmentHysi E, Fadhel MN, Wang Y, Sebastian JA, Giles A, Czarnota GJ, Exner AA, Kolios MC2020PhotoacousticsOtherClassifier, Area Quantification, Object ColocalizationHALO
Single-cell analysis of germinal-center B cells informs on lymphoma cell of origin and outcomeHolmes AB, Corinaldesi C, Shen Q, Kumar R, Compagno N, Wang Z, Nitzan M, Grunstein E, Pasqualucci L, Dalla-Favera R, Basso K2020Journal of Experimental MedicineOncologyRegistrationHALO
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Prognostic relevance of programmed cell death protein 1/programmed death-ligand 1 pathway in thymic malignancies with combined immunohistochemical and biomolecular approachBerardi R, Goteri G, Brunelli A, Pagliaretta S, Paolucci V, Caramanti M, Rinaldi S, Refai M, Pompili C, Morgese F, Torniai, Marcantognini, Ricci G, Mazzanti P, Onofri A, Bianchi F, Sabbatini A, Cascinu S2020Expert Opinion on Therapeutic TargetsOncologyHALO
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Growth Factor Receptor Expression in Oropharyngeal Squamous Cell Cancer: Her1–4 and c-Met in Conjunction with the Clinical Features and Human Papillomavirus (p16) StatusDeuss E, Gößwein D, Gül D, Zimmer S, Foersch S, Eger CS, Limburg I, Stauber RH, Künzel J2020CancersOncologyHALO
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Deep Brain Stimulation of the Medial Septal Nucleus Induces Expression of a Virally Delivered Reporter Gene in Dentate GyrusFomenko A, Lee DJ, McKinnon C, Lee EJ, de Snoo ML, Gondard E, Neudorfer C, Hamani C, Lozano AM, Kalia LV, Kalia SK2020Frontiers of NeuroscienceNeuroscienceHALO
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Nicotinic Receptor Subunit Distribution in Auditory Cortex: Impact of Aging on Receptor Number and FunctionGhimire M, Cai R, Ling L, Hackett TA, Caspary DM2020Journal of NeuroscienceNeuroscienceHALO
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Multiplexed Immunohistochemistry for Molecular and Immune Profiling in Lung Cancer—Just About
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Ex vivo tissue slice culture system to measure drug-response rates of hepatic metastatic colorectal cancerMartin SZ, Wagner DC, Hörner N, Horst D, Lang H, Tagscherer KE, Roth W2019BMC CancerOncologyClassifier, CytonuclearHALO
Neutrophil content predicts lymphocyte depletion and anti-PD1 treatment failure in NSCLCKargl J, Zhu X, Zhang H, Yang GHY, Friesen TJ, Shipley M, Maeda DY, Zebala JA, McKay-Fleisch J, Meredith G, Mashadi-Hossein A, Baik C, Pierce RH, Redman MW, Thompson JC, Albelda SM, Bolouri H, Houghton AM2019JCI InsightImmuno-oncologyClassifier, Highplex FLHALO
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Extramammary Paget disease shows differential expression of B7 family members B7-H3, B7-H4, PD-L1, PD-L2 and cancer/testis antigens NY-ESO-1 and MAGE-A Pourmaleki M, Young JH, Socci ND, Chiang S, Edelweiss M, Li Y, Zhang M, Roshal L, Chi DS, Busam KJ, Mellinghoff IK, Hollmann TJ2019OncotargetHALO
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Mobilization of CD8+ T cells via CXCR4 blockade facilitates PD-1 checkpoint therapy in human pancreatic cancer Seo YD, Jiang X, Sullivan KM, Jalikis FG, Smythe KS, Abbasi A, Vignali M, Park JO, Daniel SK, Pollack SM, Kim TS, Yeung R, Crispe IN, Pierce RH, Robins H, Pillarisetty VG2019Clinical Cancer ResearchImmuno-oncologyHALO
Targeting glutamate metabolism in melanomaSingh S, Shah R, Chen S, Filipp FV2019arXivHALO
Logic-Gated ROR1 Chimeric Antigen Receptor Expression Rescues T Cell-Mediated Toxicity to Normal Tissues and Enables Selective Tumor Targeting Srivastava S, Salter A, Liggitt D, Yechan-Gunja S, Sarvothama M, Cooper K, Smythe KS, Dudakov JA, Pierce RH, Rader C, Riddell SR2019Cancer CellOncology, Immuno-oncologyHALO
Citrullination of fibronectin alters integrin clustering and focal adhesion stability promoting stromal cell invasion Stefanelli VL, Choudhury S, Hu P, Liu Y, Schwenzer A, Yeh C-R, Chambers DM, Pesson K, Li W, Segura T, Midwood KS, Torres M, Barker TH2019Matrix BiologyOncology, FibrosisHALO
A Short Isoform of Coagulation Factor XII mRNA Is Expressed by Neurons in the Human BrainlZamolodchikov D, Bai Y, Tang Y, McWhirter JR, Macdonald LE, Alessandri-Haber N2019NeuroscienceNeuroscienceFigure MakerHALO
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Multiplex Immunofluorescence of Bone Marrow Core Biopsies: Visualizing the Bone Marrow Immune Contexture Walters DK, Jelinek DF2019Journal of Histochemistry & CytochemistryHALO
No Evidence of Neurogenesis in Adult Rat Sympathetic Ganglia Following Guanethidine-Induced Neuronal Loss Walters KM, Boucher M, Boucher GG, Opsahl AC, Mouton PR, Liu C-N, Ritenour CR, Kawabe TT, Pryski HN, Somps CJ2019Toxicologic PathologyToxicology, NeuroscienceHALO
ATDC is required for the initiation of KRAS-induced pancreatic tumorigenesis Wang L, Yang H, Zamperone A, Diolaiti D, Palmbos PL, Abel EV, Purohit V, Dolgalev I, Rhim AD, Ljungman M, Hadju CH, Halbrook CJ, Bar-Sagi D, di Magliano MP, Crawford HC, Simeone DM2019Genes & DevelopmentOncologyHALO
Monocytes/Macrophages play a pathogenic role in IL-23 mediated psoriasis-like skin inflammation Wang Y, Edelmayer R, Wetter J, Salte K, Gauvin D, Leys L, Paulsboe S, Su Z, Weinberg I, Namovic M, Gauld SB, Honore P, Scott VE, McGaraughty S2019Scientific ReportsImmunology, DermatologyHALO
Myeloid Cell-Derived HB-EGF Drives Tissue Recovery After Pancreatitis Wen H-J, Gao S, Wang Y, Ray M, Magnuson MA, Wright CVE, Di Magliano MP, Frankel TL, Crawford HC2019Cellular and Molecular Gastroenterology and HepatologyImmunologyHALO
Nrf2 represses the onset of type 1 diabetes in non-obese diabetic mice Yagishita Y, Uruno A, Chartoumpekis DV, Kensler TW, Yamamoto M2019The Journal of EndocrinologyMetabolismHALO
Systemic mRNA Therapy for the Treatment of Fabry Disease: Preclinical Studies in Wild-Type Mice, Fabry Mouse Model, and Wild-Type Non-human Primates Zhu S, Li S, Escuin-Ordinas H, Dimatteo R, Xia W, Ribas A, Segura T2019The American Journal of Human GeneticsMetabolismHALO
Selective modulation of the androgen receptor AF2 domain rescues degeneration in spinal bulbar muscular atrophy Badders NM, Korff A, Miranda HC, Vuppala PK, Smith RB, Winborn BJ, Quemin ER, Sopher BL, Dearman J, Messing J, Kim NC, Moore J, Freibaum BD, Kanagaraj AP, Fan B, Tillman H, Chen P-C, Wang Y, Freeman BB, Li Y, Kim HJ, La Spada AR, Taylor JP2018Nature MedicineMyologyArea QuantificationHALO
Anti-NKG2A mAb Is a Checkpoint Inhibitor that Promotes Anti-tumor Immunity by Unleashing Both T and NK CellsAndre ?P, Denis C, Soulas C, Bourbon-Caillet C, Lopez J, Arnoux T, Ble?ry M, Bonnafous C, Gauthier L, Morel A, Rossi B, Remark R, Breso V, Bonnet E, Habif G, Guia S, Lalanne AI, Hoffmann C, Lantz O, Fayette J, Boyer-Chammard A, Zerbib R, Dodion P, Ghadially H, Jure-Kunkel M, Morel Y, Herbst R, Narni-Mancinelli E, Cohen RB, Vivier E2018CellOncology, Immuno-oncologyArea Quantification, CytonuclearHALO
Tuning of delta-protocadherin adhesion through combinatorial Bisogni AJ, Ghazanfar S, Williams EO, Marsh HM, Yang JYH, Lin DM2018eLifeNeuroscienceArea QuantificationHALO
RAD51 foci as a functional biomarker of homologous recombination repair and PARP inhibitor resistance in germline BRCA mutated breast cancer Cruz C, Castroviejo-Bermejo M, Gutiérrez-Enríquez S, Llop-Guevara A, Ibrahim YH, Gris-Oliver A, Bonache S, Morancho B, Bruna A, Rueda OM, Lai Z, Polanska UM, Jones GN,Kristel P, de Bustos L, Guzman M, Rodriguez O, Grueso J, Montalban G, Caratú G, Mancuso F, Fasani R, Jiménez J, Howat WJ, Dougherty B, Vivancos A, Nuciforo P, Serres-Créixams X, Rubio IT, Oaknin A, Cadogan O, Barrett JC, Caldas C, Baselga J, Saura C, Cortés J, Arribas J, Jonkers J, Díez O, O’Connor MJ, Balmaña J, SerraV2018Annals of OncologyOncologyClassifier, CytonuclearHALO
The brain-penetrant clinical ATM inhibitor AZD1390 radiosensitizes and improves survival of preclinical brain tumor models Durant ST, Zheng L, Wang Y, Chen K, Zhang L, Zhang T, Yang Z, Riches L, Trinidad AG, Fok JHL, Hunt T, Pike KG, Wilson J, Smith A, Colclough N, Reddy VP, Sykes A, Janefeldt A, Johnström P, Varnäs K, Takano A, Ling S, Orme J, Stott J, Roberts C, Barrett I, Jones G, Roudier M, Pierce A, Allen J, Kahn J, Sule A, Karlin J, Cronin A, Chapman M, Valerie K, Illingworth R, Pass M2018Science AdvancesOncology, NeuroscienceClassifier, CytonuclearHALO
High response rate to PD-1 blockade in desmoplastic melanomas Eroglu Z, Zaretsky JM, Hu-Lieskovan H, Kim DW, Algazi A, Johnson DB, Liniker E, Kong B, Munhoz R, Rapisuwon S, Gherardini PF, Chmielowski B, Wang X, Shintaku IP, Wei C, Sosman JA, Joseph RW, Postow MA, Carlino MS, Hwu W-J, Scolyer RA, Messina J, Cochran AJ, Long GV, Ribas A2018NatureOncology, Immuno-oncologyCytonuclearHALO
Early Stage HER2-Positive Breast Cancers Not Achieving a pCR From Neoadjuvant Trastuzumab- or Pertuzumab-Based Regimens Have an Immunosuppressive Phenotype Force J, Howie LJ, Abbot SE, Bentley R, Marcom PK, Kimmick G, Westbrook K, Sammons SL, Parks M, Topping DL, Emerson R, Broadwater G, Hyslop T, Blackwell KL, Nair SK2018Clinical Breast CancerOncology, Immuno-oncologyCytonuclearHALO
Bortezomib prevents cytarabine resistance in MCL, which is characterized by down-regulation of dCK and up-regulation of SPIB resulting in high NF-?B activity Freiburghaus C, Emruli VK, Johansson A, Eskelund CW, Grønbæk K, Olsson R, Ek F, Jerkeman M, Ek S2018BMC CancerOncology Classifier, CytonuclearHALO
The novel ATM inhbitior (AZ31) enhances antitumor activity in patient derived xenografts that are resistant to irinotecan montherapy Greene J, Nguyen A, Bagby SM, Jones GN, Tai WM, Quackenbush KS, Schreiber A, Messersmith WA, Devaraj KM, Blatchford P, Eckhardt SG, Cadogan EB, Hughes GD, Smith A, Pitts TM, Arcaroli JJ2018OncotargetOncology Classifier, Area Quantification, CytonuclearHALO
Cystic fibrosis–related diabetes is caused by islet loss and inflammation Hart NJ, Aramandla R, Poffenberger G, Fayolle C, Thames AH, Bautista A, Spigelman AF, Babon JAB, DeNicola ME, Dadi PK, Bush WS, Balamurugan AN, Brissova M, Dai C, Prasad N, Bottino R, Jacobson DA, Drumm ML, Kent SC, MacDonald PE, Powers AC2018JHI InsightsImmunology, Metabolism, FibrosisCytonuclearHALO
Attenuation of diet-induced hypotalamic inflammation following bariatric surgery in female mice Herrick MK, Favela KM, Simerly RB, Abumrad NN, Bingham NC2018Molecular MedicineImmunology, NeuroscienceCytonuclearHALO
pRAD50: a novel and clinically applicable pharmacodynamic biomarker of both ATM and ATR inhibition identified using mass spectrometry and immunohistochemistryJones GN, Rooney C, Griffin N, Roudier M, Young LA, Garcia-Trinidad A, Hughes GD, Whiteaker JR, Wilson Z, Odedra R, Zhao L, Ivey RG, Howat WJ, Harrington EA, Carrett JC, Ramos-Montoya A, Lau A, Paulovich AG, Cadogan EB, Pierce AJ2018British Journal of CancerOncologyClassifier, CytonuclearHALO
Mice harboring the human SLC30A8 R138X loss-of-function mutation have increased insulin secretory capacity Kleinera S, Gomeza D, Megraa B, Naa E, Bhavsara R, Cavinoa K, Xina Y, Rojasa J, Dominguez-Gutierreza G, Zambrowicza B, Carratb G, Chabosseaub P, Hub M, Murphya AJ, Yancopoulosa GD, Rutterb GA, Gromadaa J2018Proceedings of the National Academy of SciencesMetabolismCytonuclearHALO
TGF? inhibition restores a regenerative response in acute liver injury by suppressing paracrine senescence Bird TG, Müller M, Boulter L, Vincent DF, Ridgway RA, Elena Lopez-Guadamillas E, Lu W-Y, Jamieson T, Govaere O, Campbell AD, Ferreira-Gonzalez S, Cole AM, Hay T, Simpson KJ, Clark W, Hedley A, Clarke M, Gentaz P, Nixon C, Bryce S, Kiourtis C, Sprangers J, Nibbs RJB, Van Rooijen N, Bartholin L, McGreal SR, Apte U, Barry ST, Iredale JP, Clarke AR, Serrano M, Roskams TA, Sansom OJ, Forbes SJ2018Science Translational MedicineMetabolismISH/FISHHALO
Food Perception Primes Hepatic ER Homeostasis via Melanocortin-Dependent Control of mTOR Activation Brandt C, Nolte H, Henschke S, Ruud LE, Awazawa M, Morgan DA, Gabel P, Sprenger H-G, Hess ME, Günther S, Langer T, Rahmouni K, Fenselau H, Krüger M, Brüning JC2018CellNeuroscience, MetabolismISH/FISHHALO
Gene Signature of Proliferating Human Pancreatic ?-CellsDominguez Gutierrez G, Xin Y, Okamoto H, Kim J, Lee A-H, Ni M, Adler C, Yancopoulos GD, Murphy AJ, Gromada J2018EndocrionologyMetabolismISH/FISHHALO
A phase II study of the dual mTOR inhibitor MLN0128 in patients with metastatic castration resistant prostate cancer Graham L, Banda K, Torres A, Carver BS, Chen Y, Pisano K, Shelkey G, Curley T, Scher HI, Lotan TL, Hsieh AC, Rathkopf DE2018Investigational New DrugsOncologyISH/FISHHALO
Ultrasensitive automated RNA in situ hybridization for kappa and lambda light chain mRNA detects B-cell clonality in tissue biopsies with performance comparable or superior to flow cytometryGuo L, Wang Z, Anderson CA, Doolittle E, Kernag S, Cotta CV, Ondrejka SL, Ma X-J, Cook JR2018Modern PathologyOtherClassifier, ISH/FISHHALO
CD163+ macrophages promote angiogenesis and vascular permeability accompanied by inflammation in atherosclerosis Guo L, Akahori H, Harari E, Smith SL, Polavarapu R, Karmali V, Otsuka F, Gannon RL, Braumann RE, Dickinson MH, Gupta A, Jenkins AL, Lipinski MJ, Kim J, Chhour P, de Vries PS, Jinnouchi H, Kutys R, Mori H, Kutyna MD, Torii S, Sakamoto A, Choi CU, Cheng Q, Grove M, Mariem A. Sawan MA, Zhang Y, Cao Y, Kolodgie FD, Cormode DP, Arking DE, Boerwinkle E, Morrison AC, Erdmann J, Sotoodehnia N, Virmani R, and Finn AV2018The Journal of Clinical InvestigationImmunologyLayer ThicknessHALO
Glucagon contibutes to liver zonation Cheng X, Kim SK, Okamoto H, Xin Y, Yancopoulos GD, Murphy AJ, Gromada J2018Proceedings of the National Academy of SciencesMetabolismArea QuantificationHALO
Evaluation of PD-L1 expression on vortex-isolated circulating tumor cells in metastatic lung cancer Dhar M, Wong J, Che J, Matsumoto M, Grogan T, Elashof D, Garon EB, Goldman JW, Christen ES, Carlo DD, Kulkarni RP2018Scientific ReportsOncology, Immuno-oncologyArea QuantificationHALO
Digital image analysis of Ki67 proliferation index in breast cancer using virtual dual staining on whole tissue sections: clinical validation and inter?platform agreement Koopman T, Buikema HJ, Hollema H, de Bock GH, van der Vegt B2018Breast Cancer Research and TreatmentOncology Classifier, CytonuclearHALO
The neurotrophic tyrosine kinase receptor TrkA and its ligand NGF are increased in squamous cell carcinomas of the lung Gao F, Griffin N, Faulkner S, Rowe CW, Williams L, Roselli S, Thorne RF, Ferdoush A, Jobling P, Walker MM, Hondermarck H2018Scientific ReportsOncologyArea QuantificationHALO
Ovarian Tumor Microenvironment Signaling: Convergence on the Rac1 GTPaseHudson LG, Gillette JM, Kang H, Rivera MR, Wandinger-Ness A2018CancersReviewClassifier, Cytonuclear, Figure MakerHALO
A murine glaucoma model induced by rapid in vivo photopolymerization of hyaluronic acid glycidyl methacrylate Guo C, Qu X, Rangaswamy N, Leehy B, Xiang C, Rice D, Prasanna G2018PLOS OneBiomaterialsArea QuantificationHALO
Systemic messenger RNA as an etiological treatment for acute intermittent porphyria Jiang L, Berraondo P, Jericó D, Guey LT, Sampedro A, Frassetto A, Benenato KE, Burke K, Santamaría E, Alegre M, Pejenaute A, Kalariya M, Butcher W, Park JS, Zhu X, Sabnis S, Kumarasinghe ES, Salerno T, Kenney M, Lukacs CM, Ávila MA, Martini PGV, Fontanellas A2018Nature MedicineMetabolismArea QuantificationHALO
Tumor Microenvironment in Functional Adrenocortical Adenomas: Immune Cell Infiltration in Cortisol-producing Adrenocortical Adenoma Kitawaki Y, Nakamura Y, Kubota-Nakayama F, YamazakiY, Miki Y, Hata S, Ise K, Kikuchie K, MorimotoR, Satoh F, Sasano H2018Human PathologyOncology, Immuno-oncologyArea QuantificationHALO
Up-Regulation of Iba-1 and GFAP in the Acidic Saline Model of Chronic Widespread Musculoskeletal Pain: A Pilot Study Examining the Relationship Between Gliosis and HyperalgesiaLambert DM, Kumar U, Hafell UO2018Journal of Neuroscience and NeuropharmacologyNeuroscienceArea Quantification, Partitions (tiles, margins)HALO
Tough Composite Hydrogels with High Loading and Local Release of Biological Drugs Li J, Weber E, Guth?Gundel S, Schuleit M, Kuttler A, Halleux C, Accart N, Doelemeyer A, Basler A, Tigani B, Wuersch K, Fornaro M, Kneissel M, Stafford A, Freedman BR, Mooney DJ2018Advanced Healthcare MaterialsBiomaterialsArea QuantificationHALO
Blocking HIF signaling via novel inhibitors of CA9 and APE1/Ref-1 dramatically affects pancreatic cancer cell survival Logsdon DP, Fenil S, Fabrizio C, Supuran CT, Kamocka M, Jacobsen MH, Sandusky GE, Kelley MR, Fishel ML2018Scientific ReportsOncology Classifier, CytonuclearHALO
Diet-Induced Growth Is Regulated via Acquired Leptin Resistance and Engages a PomcSomatostatin-Growth Hormone Circuit Lohr H, Hess S, Pereira MMA, Reino P, Leibold S, Schenkel C, Wunderlich CM, Kloppenburg P, Bruning JC, Hammerschmidt M2018Cell ReportsNeuroscience, MetabolismCytonuclearHALO
Chronic Intermittent Hypoxia Induces Robust Astrogliosis in an Alzheimer's Disease-Relevant Mouse Model Macheda T, Roberts K, Lyons DN, Higgins E, Ritter KJ, Lin A-L, Alilain WJ, Bachstetter AD2018NeuroscienceNeuroscienceArea QuantificationHALO
Cellular milieu imparts distinct pathological ?-synuclein strains in ?-synucleinopathies Peng C, Gathagan RJ, Covell DJ, Medellin C, Stieber A, Robinson JL, Zhang B, Pitkin RM, Olufemi MF, Luk KC, Trojanowski JQ, Lee VM-Y2018NatureNeuroscienceArea QuantificationHALO
Differential ?-synuclein expression contributes to selective vulnerability of hippocampal neuron subpopulations to fibril-induced toxicity Luna E, Decker SC, Riddle DM, Caputo A, Zhang B, Cole T, Caswell C, Xie SX, Lee VMY, Luk KC2018Acta NeuopathologicaNeuroscience Area Quantification, CytonuclearHALO
Digital image analysis improves precision of PD?L1 scoring in cutaneous melanoma Koelzer VH, Gisler A, Hanhart JC, Griss J, Wagner SN, Willi N, Cathomas G, Sachs M, Kempf W, Thommen DS, Mertz KD2018HistopathologyOncology, Immuno-oncology Classifier, Multiplex IHCHALO
Lenvatinib inhibits angiogenesis and tumor fibroblast growth factor signaling pathways in human hepatocellular carcinoma models Matsuki M, Hoshi T, Yamamoto Y, Ikemori-Kawada M, Minoshima Y, Funahashi Y, Matsui J2018Cancer MedicineOncologyCytonuclearHALO
Hot Spot and Whole-Tumor Enumeration of CD8(+) Tumor-Infiltrating Lymphocytes Utilizing Digital Image Analysis Is Prognostic in Triple-Negative Breast Cancer McIntire PJ, Irshaid L, Liu Y, Chen Z, Menken F, Nowak E, Shin SJ, Ginter PS2018Clinical Breast CancerOncology, Immuno-oncologyCytonuclear, Figure MakerHALO
Altered dopaminergic regulation of the dorsal striatum is able to induce tic-like movements in juvenile rats Nespoli E, Rizzo F, Boeckers T, Schulze U, Hengerer B2018PLOS OneNeuroscienceCytonuclearHALO
Induction of hemangiosarcoma in mice after chronic treatment with S1P-modulator siponimod and its lack of relevance to rat and human Pognan F, Mahl JA, Papoutsi M, David Ledieu D, Raccuglia M, Theil D, Voytek SB, Devine PJ, Kubek?Luck K, Claudio N, Cordier A, Heier A, Kolly C, Hartmann A, Chibout S-D, Bouchard P, Trendelenburg C2018Archives of ToxicologyToxicology Classifier, CytonuclearHALO
Intermittent Hypoxia Exacerbates Increased Blood Pressure in Rats with Chronic Kidney Disease Riggs J, Pace C, Ward HH, Gonzalez Bosc L, Rios L, Barrera A, Kanagy NL2018American Jornal of Physiology-Renal PhysiologyMetabolism Classifier, CytonuclearHALO
Mild Impairment of Mitochondrial OXPHOS Promotes Fatty Acid Utilization in POMC Neurons and Improves Glucose Homeostasis in Obesity Timper K, Paeger L, Sánchez-Lasheras C, Varela L, Jais A, Nolte H, Vogt MC, Hausen AC, Heilinger C, Evers N, Pospisilik JA, Penninger JM, Taylor EB, Horvath TL, Kloppenburg P, Brüning JC2018Cell RepotsNeuroscience, MetabolismCytonuclearHALO
Biomarker Evaluation and Toxic Effects of an Acute Oral and Systemic Fumonisin Exposure of Pigs with a Special Focus on Dietary Fumonisin Esterase SupplementationSchertz H, Danicke S, Frahm J, Schatzmayr D, Dohnal I, Bichl G, Schwartz-Zimmerman HE, Colicchia S, Breves G, Teifke JP, Kluess J2018ToxinsToxicologyClassifierHALO
Mutant myocilin impacts sarcomere ultrastructure in mouse gastrocnemius muscle Lynch JM, Dolman AJ, Guo C, Dolan K, Xiang C, Reda S, Li B, Prasanna G2018PLOS OneGastroenterology, MyologyISH/FISHHALO
Breast and pancreatic cancer interrupt IRF8-dependent dendritic cell development to overcome immune surveillance Meyer MA, Baer JM, Knolhoff BL, Nywening TM, Panni RZ, Su X, Weilbaecher KN, Hawkins WG, Ma C, Fields RC, Linehan DC, Challen GA, Faccio R, Aft RL, DeNardo DG2018Nature CommunicationsOncology, Immuno-oncologyISH/FISHHALO
What is the added value of digital image analysis of HER2 immunohistochemistry in breast cancer in clinical practice? A study with multiple platforms Koopman T, Buikema HJ, Hollema H, de Bock GH, van der Vegt B2018HistopathologyOncologyMembraneHALO
Tumor Cell Subtypes Based on the Intracellular Hormonal Activity in KCNJ5-Mutated Aldosterone-Producing Adenoma Yamazaki Y, Omata K, Tezuka Y, Ono Y, Morimoto R, Adachi Y, Ise K, Nakamura Y, Gomez-Sanchez CE, Shibahara Y, Kitamoto T, Nishikawa T, Ito S, Satoh F, Sasano H2018HypertensionOncology Area Quantification, CytonuclearHALO
Disease Progression and Pharmacological Intervention in a Nutrient-Deficient Rat Model of Nonalcoholic Steatohepatitis Tølbøl KS, Stierstorfer B, Rippmann JF, Veidal SS, Rigbolt KTG, Schönberger T, Gillum MP, Hansen HH, Vrang N, Jelsing J, Feigh M, Broermann A2018Digestive Diseases and SciencesMetabolismArea QuantificationHALO
FOXM1 contributes to treatment failure in acute myeloid leukemia Khan I, Halasi M, Patel A, Schultz R, Kalakota N, Chen Y-H, Aardsma N, Liu L, Crispino JD, Mahmud N, Frankfurt O, Gartel AL2018JCI InsightOncologyMultiplex IHCHALO
A transcriptionally and functionally distinct PD-1+ CD8+ T cell pool with predictive potential in non-small-cell lung cancer treated with PD-1 blockade Thommen DS, Koelzer VH, Herzig P, Roller A, Trefny M, Dimeloe S, Kiialainen A, Hanhart J, Schil C, Hess C, Prince SS, Wiese M, Lardinois D, Ho P-C, Klein C, Karanikas V, Mertz KD, Schumacher TN, Zippelius A2018Nature MedicineOncology, Immuno-oncologyMultiplex IHCHALO
Relationship between mismatch repair immunophenotype and long-term survival in patients with resected periampullary adenocarcinoma Heby M, Lundgren S, Nodin B, Elebro J, Eberhard J, Jirström K2018Journal of Translational MedicineOncology, Immuno-oncologyObject ColocalizationHALO
Luminally-polarized mural and vascular remodeling in ileal strictures of Crohn's Disease Zhang X, Ko HM, Torres J, Panchal HJ, Cai Z, WagneR M, Sands BE, Colombel J-F, Cho J, Taouli B, Harpaz N2018Human PathologyImmunologyLayer ThicknessHALO
Age-related pathology after adenoviral overexpression of the leucine-rich repeat kinase 2 in the mouse striatum Kritzingerab A, Ferger B, Gillardon F, Stierstorfer B, Birk G, Kochanek S, Ciossek T2018Neurobiology of AgingNeuroscienceArea Quantification, Object Colocalization, MicrogliaHALO
Pharmacogenetic neuronal stimulation increases human tau pathology and trans-synaptic spread of tau to distal brain regions in mice Schultz MK, Gentzel R, Usenovic M, Gretzul C, Ware C, Parmentier-Batteur S, Schachter JB, Zariwala HA2018Neurobiology of DiseaseNeuroscienceObject ColocalizationHALO
Comparison of Biologic Effect and Particulate Embolization after Femoral Artery Treatment with Three Drug-Coated Balloons in Healthy Swine Model Torii S, Jinnouchi H, Sakamoto A, Romero ME, Kolodgie FD, Virmani R, Finn AV2018Journal of Vascular and Interventional RadiologyOtherObject ColocalizationHALO
Multidimensional, quantitative assessment of PD-1/PD-L1 expression in patients with Merkel cell carcinoma and association with response to pembrolizumab Giraldo NA, Nguyen P, Engle EL, Kaunitz GJ, Cottrell TR, Berry S, Green B, Soni A, Cuda JD, Stein JE, Sunshine JC, Succaria F, Xu H, Ogurtsova A, Danilova L, Church CD, Miller NJ, Fling S, Lundgren L, Ramchurren N, Yearley JH, Lipson EJ, Cheever M, Anders RA, Nghiem PT, Topalian SL, Taube JM2018Journal for ImmunoTherapy of CancerOncology, Immuno-oncologySpatial Analysis, Serial SectionHALO
A CD3-bispecific molecule targeting P-cadherin demonstrates T cell-mediated regression of established solid tumors in mice TS Fisher, AT Hooper, J Lucas, TH Clark, AK Rohner, B Peano, MW Elliott, K Tsaparikos, H Wang, J Golas, M Gavriil, N Haddish-Berhane, L Tchistiakova, H-P Gerber, AR Root, C May2018Cancer Immunology, ImmunotherapyOncology, Immuno-oncologyArea QuantificationHALO
Innate Sex Bias of Staphylococcus aureus Skin Infection Is Driven by a-HemolysinCastleman MJ, Pokhrel S, Triplett KD, Kusewitt DF, Elmore BO, Joyner JA, Femling JK, Sharma G, Hathaway HJ, Prossnitz ER, Hall PR2018The Journal of ImmunologyInfectious DiseaseHALO
Subclonal evolution of pulmonary adenocarcinomas delineated by spatially distributed somatic mitochondrial mutationsKazdal D, Harms A, Endris V, Penzel R, Kriegsmann M, Eichhorn F, Muley T, Stenzinger A, Pfarr N, Weichert W, and Warth A2018Lung CancerHALO
Molecular and immunologic analysis of laryngeal squamous cell carcinoma in smokers and non-smokers Malm I-J, rooper LM, Bishop JA, Ozgursoy SK, Hillel AT, Akst LM, Best SR2018American Journal of OtolaryngologyOncology, Immuno-oncologyHALO
Class 4 Semaphorins and Plexin-B receptors regulate GABAergic and glutamatergic synapse development in the mammalian hippocampus McDermott JE, Goldblatt D, Paradis S2018Molecular and Cellular NeuroscienceNeuroscienceHALO
Acquired cancer resistance to combination
immunotherapy from transcriptional loss
of class I HLA
Paulson KG, Voillet V, McAfee MS, Hunter DS, Wagener FD, Perdicchio, Valente WJ, Koelle SJ, Church CD, Vandeven N, Thomas H, Colunga AG, Iyer JG, Yee C, Kulikauskas R, Koelle DM, Pierce RH, Bielas JH, Greenberg PD, Bhatia S, Gottardo R, Nghiem P, Chapuis AG2018Nature CommunicationsImmuno-oncologyPartitions (tiles, margins), Figure MakerHALO
Digital image analysis supports a nuclear-to-cytoplasmic ratio cutoff value below 0.7 for positive for high-grade urothelial carcinoma and suspicious for high-grade urothelial carcinoma in urine cytology specimensMcIntire PJ, Snow JT, Elsoukkary SS, Soong L, Sweeney J, Robinson BD, Siddiqui MT2018Cancer CytopathologyOncologyHALO
Ossabaw Pigs With a PCSK9 Gain?of?Function Mutation Develop Accelerated Coronary Atherosclerotic Lesions: A Novel Model for Preclinical Studies Yuan F, Guo L, Park K-H, Woollard JR, Taek?Geun K, Jiang K, Melkamu T, Zang B, Smith SL, Fahrenkrug SC, Kolodgie FD, Lerman A, Virmani R, Lerman LO, Carlson DF2018Journal of the American Heart AssociationMyologyArea QuantificationHALO
Accelerated wound healing by injectable star poly(ethylene)-b-poly(propylene sulfide) scaffolds loaded with poorly water-soluble drugs Zhu X, Yin L, Theisen M, Zhuo J, Siddiqui S, Levy B, Presnyak V, Frassetto A, Milton J, Salerno T, Benenato KE, Milano J, Lynn A, Sabnis S, Burke K, Besin G, Lukacs CM, Guey LT, Finn PF, Martini PGV2018Journal of Controlled ReleaseBiomaterials, Wound HealingCytonuclearHALO
The use of automated Ki67 analysis to predict Oncotype DX risk-of-recurrence categories in early-stage breast cancerThakur SS, Li H, Chan AMY, Tudor R, Bigras G, Morris D, Enwere EK2018PLOS ONEOncologyCytonuclear, Figure Maker, Partitions (tiles, margins)HALO
Inhibiting Interleukin 36 Receptor Signaling Reduces Fibrosis in Mice with Chronic Intestinal Inflammation Scheibe K, Kersten C, Schmied A, Vieth M, Primbs T, Carlé B, Knieling F, Claussen J, Klimowicz AC, Zheng J, Baum P, Meyer S, Schürmann S, Friedrich O, Waldner MJ, Rath T, Wirtz S, Kollias G, Ekici AB, Atreya R, Raymond EL, Mbow ML, Neurath MF, Neufert C2018GastroenterologyImmunology, FibrosisHALO
Low and variable tumor reactivity of the intratumoral TCR repertoire in human cancers Scheper W, Kelderman S, Fanchi LF, Linnemann C, Bendle G, de Rooij MAJ, Hirt C, Mezzadra R, Slagter M, Dijkstra K, Kluin RJC, Snaebjornsson P, Milne K, Nelson BH, Zijlmans H, Kenter G, Voest EE, Haanen JBAG, Schumacher TN2018Nature MedicineOncology, Immuno-oncologyCytonuclearHALO
A suboptimal maternal diet combined with accelerated postnatal growth results in an altered aging profile in the thymus of male rats Tarry-Adkins JL, Aiken CE, Ashmore TJ, Fernandez-Twinn DS, Chen J-H, Ozanne SE2018The FASEB JournalNeuroscience, MetabolismClassifier, Vacuole HALO
A brain-penetrant triazolopyrimidine enhances microtubule-stability, reduces axonal dysfunction and decreases tau pathology in a mouse tauopathy model. Zhang B, Yao Y, Cornec A-S, Oukoloff K, James MJ, Koivula P, Trojanowski JQ, Smith AB III, Lee VM-Y, Ballatore C, Brunden KR2018Molecular NeurodegenerationNeuroscienceArea QuantificationHALO
GABA promotes ?-cell proliferation, but does not overcome impaired glucose homeostasis associated with diet-induced obesity Untereiner A, Abdo S, Bhattacharjee A, Gohil H, Pourasgari F, Ibeh N, Lai M, Batchuluun B, Wong A, Khuu N, Liu Y, Rijjal DA, Winegarden N, Virtanen C, Orser BA, Cabrera O, Varga G, Rocheleau J, Dai FF, Wheeler MB 2018The FASEB JournalMetabolismCytonuclearHALO
Ki67 reproducibility using digital image analysis: an inter-platform and inter-operator studyAcs B, Pelekanou V, Bai Y, Martinez-Morilla S, Toki M, Leung SCY, Nielsen TO, Rimm DL2017Laboratory InvesigationsOncologyClassifier, CytonuclearHALO
Efficacy of injectable praziquantel for elimination of trematode metacercariae in bluegills (Lepomis macrochirus) and quantification of parasite death by propidium iodide staining Bader C, Chelladurai JJ, Starling DE, Jones DE, Brewer MT2017Parasitology ResearchInfectious DiseaseArea QuantificationHALO
Both brown adipose tissue and skeletal muscle thermogenesis processes are activated during mild to severe cold adaptation in mice Bal NC, Singh S, Reis FCG, Maurya SK, Pani S, Rowland LA, Periasamy M2017Journal of Biological ChemistryMyologyArea QuantificationHALO
Sex- and Dose-Specific Effects of Maternal Bisphenol A Exposure on Pancreatic Islets of First- and Second-Generation Adult Mice Offspring Bansal A, Rashid C, Xin F, Li C, Polyak E, Duemler A, van der Meer T, Stefaniak M, Wajid S, Doliba N, Bartolomei MS, Simmons RA2017Environmental Health PerspectivesMetabolismArea QuantificationHALO
The R-enantiomer of ketorolac delays mammary tumor development in mouse mammary tumor virus-polyoma middle T antigen (MMTV-PyMT) mice AS Peretti, D Dominguez, MM Grimes, HJ Hathaway, ER Prossnitz, MR Rivera, A Wandinger-Ness, D Kusewitt, LG Hudson2017The American Journal of PathologyOncologyClassifier, Area Quantification, CytonuclearHALO
The clinical impact of tumour-infiltrating lymphocytes in colorectal cancer differs by anatomical subsite: A cohort study Berntsson J, Svensson MC, Leandersson K, Nodin B, Micke P, Larsson AH, Eberhard J, Jirstrom K2017International Journal of CancerOncology, Immuno-oncologyCytonuclearHALO
Acetate Recapturing by Nuclear Acetyl-CoA Synthetase 2 Prevents Loss of Histone Acetylation during Oxygen and Serum Limitation Bulusu V, Tumanov S, Michalopoulou E, van den Broek NJ, MacKay G, Nixon C, Dhayade S, Schug ZT, Voorde JV, Blyth K, Gottlieb E, Vazquez A, Kamphorst JJ2017Cell ReportsOncology, MetabolismCytonuclearHALO
Loss of the imprinted, non-coding Snord116 gene cluster in the interval deleted in the Prader Willi syndrome results in murine neuronal and endocrine pancreatic developmental phenotypes Burnett LC, Hubner G, LeDuc C, Morabito MV, Carli JFM, Leibel RL2017Human Moledular GeneticsMetabolismCytonuclearHALO
Identification of the SUMO E3 ligase PIAS1 as a potential survival biomarker in breast cancer Chanda A, Chan A, Deng L, Kornaga EN, Enwere EK, Morris DG, Bonni S2017PLOS OneOncologyClassifier, CytonuclearHALO
Spatial distribution of EGFR and KRAS mutation frequencies correlates with histological growth patterns of lung adenocarcinomasDietz S, Harms A, Endris V, Eichhorn, Kriegsmann M, Longuespée R, Stenzinger A, Sültmann H, Warth A, and Kazdal D2017International Journal of CancerOncologyCytonuclearHALO
Aging African green monkeys manifest transcriptional, pathological, and cognitive hallmarks of human Alzheimer's disease Cramer PE, Gentzel RC, Tanis KQ, Vardigan J, Wang Y, Connolly B, Manfre P, Lodge K, Renger JJ, Zerbinatti C, Uslaner JM2017Neurobiology of AgingNeuroscienceObject ColocalizationHALO
Retinoic-acid-orphan-receptor-C inhibition suppresses Th17 cells and induces thymic aberrations Guntermann C, Piaia A, Hamel M-L, Theil D, Rubic-Schneider T, del Rio-Espinola A, Dong L, Billich A, Kaupmann K, Dawson J, Hoegenauer K, Orain D, Hintermann S, Stringer R, Pate DD, Doelemeyer A, Deurinck M, and Schümann J2017JCI InsightOncology, Immuno-oncology Area Quantification, CytonuclearHALO
Digital image analysis agrees with visual estimates of bone marrow trephine biopsy cellularity Hagiya AS, Etman A, Siddiqi IN, Cen S, Matcuk Jr GR, Brynes RK, Salama ME2017International Journal of Laboratory HematologyOncologyCytonuclearHALO
Selective imaging of internalized proteopathic ?-synuclein seeds in primary neurons reveals mechanistic insight into transmission of synucleinopathies Karpowicz RJ, Haney CM, Mihaila TS, Sandler RM, Petersson EJ, and Lee VM-Y2017Journal of Biological ChemistryNeuroscience Area Quantification, CytonuclearHALO
Prevalence of somatic mitochondrial mutations and spatial distribution of mitochondria in non-small cell lung cancer Kazdal D, Harms A, Endris V, Penzel R, Oliveira C, Kriegsmann M, Longuespee R, Winter H, Schneider MA, Muley T, Pfarr N, Weichert W, Stenzinger A,Warth A2017British Journal of CancerOncologyCytonuclearHALO
Amino Acid Transporter Slc38a5 Controls Glucagon Receptor Inhibition-Induced Pancreatic ? Cell Hyperplasia in MiceKim J, Okamoto H, Huang ZJ, Anguiano G, Chen S, Liu Q, Cavino K, Xin Y, Na E, Hamid R, Lee J, Zambrowicz B, Unger R, Murphy AJ, Xu Y, Yancopoulos GD, Li W, Gromada J2017Cell MetabolismMetabolismCytonuclearHALO
APNG as a prognostic marker in patients with glioblastoma Fosmark S, Hellwege S, Dahlrot RH, Jensen KL, Derand H, Lohse J, Sørensen MD, Hansen S, Kristensen BW2017PLOS OneOncologyISH/FISHHALO
TGF? pathway limits dedifferentiation following WNT and MAPK pathway activation to suppress intestinal tumourigenesis Cammareri P, Vincent DF, Hodder MC, Ridgway RA, Murgia C, Nobis M, Campbell AD, Varga J, Huels DJ, Subramani C, Prescott KLH, Nixon C, Hedley A, Barry ST, Greten FR, Inman GJ, and Sansom OJ2017Cell Death and DifferentiationOncologyLayer ThicknessHALO
Digital analysis and epigenetic regulation of the signature of rejection in colorectal cancer Koelzer VH, Sokol L, Zahnd S, Christe L, Dawson H, Berger MD, Inderbitzin D, Zlobec I, Lugli A2017OncoImmunologyOncologyCytonuclearHALO
Asymmetry of post-mortem neuropathology in behavioural-variant frontotemporal dementia DJ Irwin, CT McMillan, SX Xie, K Rascovsky, VM Van Deerlin, HB Coslett, R Hamilton, G Aguirre, EB Lee, VMY Lee, JQ Trojanowski, M Grossman2017BrainNeuroscienceArea Quantification, Partitions (tiles, margins)HALO
Co-clinical Analysis of a Genetically Engineered Mouse Model and Human Prostate Cancer Reveals Significance of NKX3.1 Expression for Response to 5?-reductase Inhibition Dutta A, Panja S, Virk RK, Kim JY, Zott R, Cremers S, Golombos DM, Liu D, Mosquera JM, Mostaghel EA, Barbieri CE, Mitrofanova A, Abate-Shen C2017European UrologyOncologyArea QuantificationHALO
Amyloid-? plaques enhance Alzheimer's brain tau-seeded pathologies by facilitating neuritic plaque tau aggregationHe Z, Guo JL, McBride JD, Narasimhan S, Kim H, Changolkar L, Zhang B, Gathagan RJ, Yue C, Dengler C, Stieber A, Nitla M, Coulter DA, Abel T, Brunden KR, Trojanowski JQ, Lee V M-Y2017Nature MedicineNeuroscienceArea QuantificationHALO
An ancestral retroviral protein identified as a therapeutic target in type-1 diabetes Levet S, Medina J, Joanou J, Demolder A, Queruel N, Réant K, Normand M, Seffals M, Dimier J, Germi R, Piofczyk T, Portoukalian J, Touraine J-L, Perron H2017JCI InsightImmunology, Metabolism Classifier, CytonuclearHALO
Receptor tyrosine kinase expression and phosphorylation in canine nasal carcinoma Hocker SA, Higginbotham ML, Schermerhorn T, Henningson J2017Research in Veterinary ScienceOncologyArea Quantification, Multiplex IHCHALO
Differential roles of RET isoforms in medullary and papillary thyroid carcinomas Lian EY, Maritan SM, Cockburn JG, Kasaian K, Crupi MJF, Hurlbut D, Jones SJM, Wiseman SM, Mulligan LM2017Endocrine-Related CancerOncologyCytonuclearHALO
Ante mortem CSF tau levels correlate with post mortem tau pathology in FTLD Irwin DJ, Lleó A, Xie SX, McMillan CT, Wolk D, Lee EB, Van Deerlin VM, Shaw LM, Trojanowski JQ, Grossman M2017Annals of NeurologyNeuroscienceArea QuantificationHALO
Neutorphils dominate the immune cell composition in non-small cell lung cancer Kargl J, Busch SE, Yang GHY, Kim K-H, Hanke ML, Metz HE, Hubbard JJ, Lee SM, Madtes DK, McIntosh MW, Houghton AM2017Nature CommunicationsOncologyArea QuantificationHALO
DPP9 enzyme activity controls survival of mouse migratory tongue muscle progenitors and its absence leads to neonatal lethality due to suckling defect Kim M, Minoux M, Piaia A, Kueng B, Gapp B, Weber D, Haller C, Barbieri S, Namoto K, Lorenz T, Wirsching J, Bassilana F, Dietrich W, Rijli FM, Ksiazek I2017Developmental BiologyMyologyClassifier, Area QuantificationHALO
Connexin-43 and aquaporin-4 are markers of ageing-related tau astrogliopathy (ARTAG)-related astroglial response Kovacs GG, Yousef A, Kaindl S, Lee VM, Trojanowski JQ2017Neuropathology and Applied NeurobiologyNeuroscienceArea QuantificationHALO
Angptl4 does not control hyperglucagonemia or ?-cell hyperplasia following glucagon receptor inhibition Okamoto H, Cavino K, Na E, Krumm E, Kim SY, Stevis PE, Harp J, Murphy AJ, Yancopoulos GD, Gromada J2017Proceedings of the National Academy of SciencesMetabolismArea QuantificationHALO
Glucagon receptor inhibition normalizes blood glucose in severe insulin-resistant mice Okamoto H, Kim J, Aglione JP, Lee J, Cavino K, Na E, Rafique A, Kim JH, Harp J, Valenzuela DM, Yancopoulos GD, Murphy AJ, Gromada J2017Proceedings of the National Academy of SciencesMetabolismArea QuantificationHALO
Cysteinyl leukotriene receptor 1 facilitates tumorigenesis in a mouse model of colitis-associated colon cancerOsman J, Savari S, Chandrashekar NK, Bellamkonda K, Souglas D, Sjolander A2017OncotargetOncology, ImmunologyClassifier, Area QuantificationHALO
Plant-based vaccines for oral delivery of type 1 diabetes-related autoantigens: Evaluating oral tolerance mechanisms and disease prevention in NOD mice Posgai AL, Wasserfall CH, Kwon K-C, Daniell H, Schatz DA, Atkinson MA2017Scientific ReportsMetabolismArea QuantificationHALO
cFOS-SOX9 Axis Reprograms Bone Marrow-Derived Mesenchymal Stem Cells into Chondroblastic Osteosarcoma He Y, Zhu W, Shin MH, Gary J, Liu C, Dubois W, Hoover SB, Jiang S, Marrogi E, Mock B, Simpson RM, and Huang J2017Stem Cell ReportsOncologyClassifierHALO
Modulating the therapeutic response of tumours to dietary serine and glycine starvation Maddocks ODK, Athineos D, Cheung EC, Lee P, Zhang T, van den Broek NJF, Mackay GM, Labuschagne CF, Gay D, Kruiswijk F, Blagih J, Vincent DF, Campbell KJ, Ceteci F, Sansom OJ, Blyth K, Vousden KH2017NatureOncologyCytonuclearHALO
Expression of protein disulfide isomerase family members correlates with tumor progression and patient survival in ovarian cancer Samanta S, Tamura S, Dubeau L, Mhawech-Fauceglia P, Miyagi Y, Kato H, Lieberman R, Buckanovich RJ, Lin YG, Neamati N2017OncotargetOncologyArea QuantificationHALO
Targeting autophagy inhibits melanoma growth by enhancing NK cells infiltration in a CCL5-dependent mannerMgrditchiana T, Arakeliana T, Paggettia J, Nomana MZ, Virya E, Moussaya E, Van Moera K, Kreisb S, Guerinc C, Buartd S, Roberte C, Borgf C, Vielhg P, Chouaibd S, Berchema G, Janji B2017Proceedings of the National Academy of SciencesOncology, Immuno-oncologyCytonuclearHALO
Weight Pertubation Alters Leptin Signal Transduction in a Region-Specific Manner throughout the Brain Morabito MV, Ravussin Y, Mueller BR, Skowronski AA, Watanabe K, Foo KS, Lee SX, Lehmann A, Hjorth S, ZeltserLM, LeDuc CA, Leibel RL2017PLOS OneMetabolismCytonuclearHALO
A single dose of peripherally infused EGFRvIII-directed CAR T cells mediates antigen loss and induces adaptive resistance in patients with recurrent glioblastoma O’Rourke DM, Nasrallah MP, Desai A, Melenhorst JJ, Mansfield K, MorrissetteJJD, Martinez-Lage M, Brem S, Maloney E, Shen A, Isaacs R, Mohan S, Plesa G, Lacey SF, Navenot J-M, Zheng Z, Levine BL, Okada H, June CH, Brogdon JL, Maus MV2017Science Translational MedicineOncology, Immuno-oncology Cytonuclear, Multiplex IHCHALO
The action of ?-hydroxybutyrate on the growth, metabolism and global histone H3 acetylation of spontaneous mouse mammary tumours: evidence of a ?-hydroxybutyrate paradox Rodrigues LM, Uribe-Lewis S, Madhu B, Honess DJ, Stubbs M, Griffiths JR2017Cancer & MetabolismOncology, Metabolism Area Quantification, CytonuclearHALO
High levels of tumor-associated neutrophils are associated with improved overall survival in patients with stage II colorectal cancer RS Berry, M-J Xiong, A Greenbaum, P Mortaji, RA Nofchissey, F Schultz, C Martinez, L Luo, KT Morris, JA Hanson2017PLOS OneOncology, Immuno-oncologyCytonuclearHALO
Pathological tau strains from human brains recapitulate the diversity of tauopathies in non-transgenic mouse brain S Narasimhan, JL Guo, L Changolkar, A Stieber, JD McBride, LV Silva, Z He, B Zhang, RJ Gathagan, JQ Trojanowski, VMY Lee2017Journal of NeuroscienceNeuroscienceCytonuclearHALO
T-cell Localization, Activation, and Clonal Expansion in Human Pancreatic Ductal Adenocarcinoma Stromnes IM, Hulbert A, Pierce RH, Greenberg PD, Hingorani SR2017Cancer Immunology ResearchOncology, Immuno-oncologyHighplex FLHALO
Transcriptional mechanisms of resistance to anti-PD-1 therapy Ascierto ML, Makohon-Moore A, Lipson EJ, Taube JM, McMiller TL, Berger AE, Fan J, Kaunitz GJ, Cottrell TR, Kohutek ZA, Favorov A, Makarov V, Riaz N, Chan TA, Cope L, Hruban RH, Pardoll DM, Taylor BS, Solit DB, Iacobuzio-Donahue CA, Topalian SL2017Clinical Cancer ResearchOncology, Immuno-oncologyImmuneHALO
Comparison of branch and distally focused main renal artery denervation using two different radio-frequency systems in a porcine model Mahfoud F, Pipenhagen CA, Moon LB, Ewen S, Kulenthiran S, Fish JM, Jensen JA, Virmani R, Joner M, Yahagi K, Tsioufis C, Böhm M2017International Journal of CardiologyMyologyLayer ThicknessHALO
Treatment with the WNT5A-mimicking peptide Foxy-5 effictively reduces the metastatic spread of WNT5A-low prostate cancer cells in an orthotopic mouse model Canesin G, Evans-Axelsson S, Hellsten R, Krzyzanowska A, Prasad CP, Bjartell A, Andersson T2017PLOS OneOncologyMembraneHALO
Expression of PD-L1 and presence of CD8-positive T cells in pre-treatment specimens of locally advanced cervical cancer Enwere EK, Kornaga EN, Dean M, Koulis TA, Phan T, Kalantarian M, Köbel M, Ghatage P, Magliocco AM, Lees-Miller DP, Doll CM2017Modern PathologyOncology, Immuno-oncologyMembraneHALO
Association of HIV Status With Local Immune Response to Anal Squamous Cell Carcinoma: Implications for Immunotherapy Yanik EL, Kaunitz GJ, Cottrell TR, Succaria F, McMiller TL, Ascierto ML, Esandrio J, Xu H, Ogurtsova A, Cornish T, Lipson EJ, Topalian SL, Engels EA, Taube JM2017JAMA OncologyOncology, Immuno-oncologyCytonuclearHALO
Chronic Verubecestat Treatment Suppresses Amyloid Accumulation in Advanced Aged Tg2576-A?PPswe Mice Without Inducing Microhemorrhage Villarreal S, Zhao F, Hyde LA, Holder D, Forest T, Sondey M, Chen X, Sur C, Parker EM, Kennedy ME2017Journal of Alzheime's DiseaseNeuroscienceObject ColocalizationHALO
In vivo characterization of a new type of biodegradable starch microsphere for transarterial embolization Sommer CM, Do TD, Schlett CL, Flechsig P, Gockner TL, Kuthning A, Vollherbst DF, Pereira PL, Kauczor HU, Macher-Göppinger S2017Journal of Biomaterials ApplicationsOncologyClassifierHALO
A randomized, open-label study of the efficacy and safety of AZD4547 monotherapy versus paclitaxel for the treatment of advanced gastric adenocarcinoma with FGFR2 polysomy or gene amplification Van Cutsem E, Bang Y-J, Mansoor W, Petty RD, Chao Y, Cunningham D, Ferry DR, N. R. Smith NR, Frewer P, Ratnayake J, Stockman PK, Kilgour E, and Landers D2017Annals of OncologyOncology Classifier, ISH/FISHHALO
Persistence of Pancreatic Insulin mRNA Expression and Proinsulin Protein in Type 1 Diabetes Pancreata Wasserfall C, Nick HS, Campbell-Thompson M, Beachy D, Haataja L, Kusmartseva I, Posgai A, Beery M, Rhodes C, Bonifacio E, Arvan P, Atkinson M2017Cell MetabolismMetabolismArea QuantificationHALO
Neuron loss and degeneration in the progression of TDP-43 in frontotemporal lobar degeneration Yousef A, Robinson JL, Irwin DJ, Byrne MD, Kwong LK, Lee EB, Xu Y, Xie SX, Rennert L, Suh ER, Van Deerlin VM, Grossman M, Lee VM-Y, Trojanowski JQ2017Acta Neuropathologica Communications Area Quantification, CytonuclearHALO
Qualitative Comparison Between Carrier-based and Classical Tissue MicroarraysLisenko K, Leichsenring J, Zgorzelski C, Longuespee R, Casadonte R, Harms A, Kazdal D, Stenzinger A, Warth A, Kriegsmann M2017Applied Immunohistochemistry & Molecular MorpholgyHALO
In situ macrophage phenotypic transition is affected by altered cellular composition prior to acute sterile muscle injury Patsalos A, Pap A, Varga T, Trencsenyi G, Contreras GA, Garai I, Papp Z, Dezso B, Pintye E, Nagy L2017The Journal of PhysiologyMyologyHALO
Obstruction of BRAFV600E transcription by complementary PNA oligomers as a means to inhibit BRAF-mutant melanoma growthRothman JH, Surriga O, de Stanchina E, Vasudeva SD, Schwartz GK2017Cancer Gene TherapyOncologyHALO
The integrative clinical impact of tumor-infiltrating T lymphocytes and NK cells in relation to B lymphocyte and plasma cell density in esophageal and gastric adenocarcinomaSvensson MC, Warfvinge CF, Fristedt R, Hedner C, Borg D, Eberhard J, Micke P, Nodin B, Leandersson K, Jirstrom K2017OncotargetImmuno-oncologyObject ColocalizationHALO
Control of mitochondrial function and cell growth by the atypical cadherin Fat1 Cao LL, Riascos-Bernal DF, Chinnasamy P, Dunaway CM, Hou R, Pujato MA, O'Rourke BP, Miskolci V, Guo L, Hodgson L, Fiser A, Sibinga NES2016NatureMetabolismCytonuclearHALO
Phosphorylation of calcium/calmodulin-stimulated protein kinase II at T286 enhances invasion and migration of human breast cancer cells Chi M, Evans, Gilchrist J, Mayhew J, Hoffman A, Pearsall EA, Jankowski H, Brzozowski JS, Skelding KA2016Scientific ReportsOncologyCytonuclearHALO
Evidence of ?-Cell Dedifferentiation in Human Type 2 Diabetes Cinti F, Bouchi R, Kim-Muller JY, Ohmura Y, Sandoval PR, Masini M, Marselli L, Suleiman M, Ratner LE, Marchetti P, Accili D2016The Journal of Clinical Endocrinology & MetabolismMetabolismCytonuclearHALO
Cutaneous wound healing through paradoxical MAPK activation by BRAF inhibitors Escuin-Ordinas H, Li S, Xie MW, Sun L, Hugo W, Huang RR, Jiao J, Meira de-Faria F, Realegeno S, Krystofinski P, Azhdam A, Komenan SMD, Atefi M, Comin-Anduix B, Pellegrini M, Cochran AJ, Modlin RL, HerschmanHR, Lo RS, McBride WH, Segura T, Ribas A2016Nature CommunicationsWound HealingCytonuclearHALO
A Phase II Trial of Dovitinib in BCD-Unresponsive Urothelial Carcinoma with FGFR3 Mutations or Over-Expression: Hoosier Cancer Research Network Trial HCRN 12-157 Hahn NH, Bivalacqua TJ, Ross AE, Netto GJ, Baras AS, Park JC, Chapman C, Masterson TA, Koch MO, Bihrle R, Foster RS, Gardner TA, Cheng L, Jones DR, Kyle McElyea K, Sandusky GE, Breen T, Liu Z, Albany C, Moore ML, Loman RA, Reed A, Turner SA, de Abreu FB, Gallagher TL, Tsongalis GJ, Plimack ER, Greenberg RE, Geynisman DM2016Clinical Cancer ResearchOncology Classifier, CytonuclearHALO
Mitogen-activated Protein Kinase Kinase Activity Maintains Acinar-to-Ductal Metaplasia and Is Required for Organ Regeneration in Pancreatitis Halbrook CJ, Wen H-J, Ruggeri JM, Takuchi KK, Zhang Y, di Magliano MP, Crawford HC2016Cellular and Molecular Gastroenterology and Hepatology Immunology, GastroenterologyCytonuclearHALO
Fully automated RNAscope in situ hybridization assays for formalin?fixed paraffin?embedded cells and tissues Anderson CM, Zhang B, Miller M, Butko E, Wu X, Laver T, Kernag C, Kim J, Luo Y, Lamparski H2016Journal of Cellular BiochemistryOncology, Gastroenterology, Infectious DiseaseISH/FISHHALO
A Depot Medroxyprogesterone Acetate Dose That Modes Human Use and Its Effect on Vaginal SHIV Acquisition Risk Butler K, Ritter JM, Ellis S, Morris MR, Hanson DL, McNicholl JM, Kersh EN2016J Acquir Immune Defic SyndrInfectious DiseaseLayer ThicknessHALO
Epigenetic regulation of the thioredoxin-interacting protein (TXNIP) gene by hyperglycemia in kidney De Marinis Y, Cai M, Bompada P, Atac D, Kotova O, Johansson ME, Garcia-Vaz E, Gomez MF, Laakso M, Groop L2016Kidney InternationalMetabolismArea QuantificationHALO
ProNGF is a potential diagnostic biomarker for thyroid cancer Faulkner S, Roselli S, Demont Y, Pundavela J, Choquet G, Leissner P, Oldmeadow C, Attia J, Walker MM, Hondermarck H2016OncotargetOncologyArea QuantificationHALO
The Dynamics and Turnover of Tau Aggregates in Cultured Cells: Insights into Therapies for Tauopathies Guo JL, Buist A, Soares A, Callaerts K, Calafate S, Stevenaert F, Daniels JP, Zoll BE, Crowe A, Brunden KR, Moechars D, Lee VMY2016The Journal of Biological ChemistryNeuroscienceArea QuantificationHALO
Unique pathological tau conformers from Alzheimer's brains transmit tau pathology in nontransgenic mice Guo JL, Narasimhan S, Changolkar L, He Z, Stieber Z, Zhang B, Gathagan RJ, Iba M, McBride JD, Trojanowski JQ, Lee VMY2016Journal of Experimental MedicineNeuroscienceArea QuantificationHALO
Bimodality of intratumor Ki67 expression is an independent prognostic factor of overall survival in patients with invasive breast carcinoma Laurinavicius A, Plancoulaine B, Rasmusson A, Besusparis J, Augulis R, Meskauskas R, Herlin P, Laurinaviciene A, Muftah AAA, Miligy I, Aleskandarany M, Rakha EA, Green AR, Ellis IO2016Virchows ArchivOncology Classifier, CytonuclearHALO
Resistance to Anti-VEGF Therapy Mediated by Autocrine IL6/STAT3 Signaling and Overcome by IL6 Blockade Eichten A, Su J, Adler AP, Zhang L, Ioffe E, Parveen AA, Yancopoulos GD, Rudge J, Lowy I, Lin HC, MacDonald D, Daly C, Duan X, Thurston G2016Cancer ResearchOncology, Immuno-oncology Cytonuclear, Object ColocalizationHALO
Cerebral Protection During MitraClip Implantation: Initial Experience at 2 CentersFrerker C, Schlüter M, Sanchez OD, Reith S, Romero ME, Ladich E, Schröder J, Schmidt T, Kreidel F, Joner M2016JACC: Cardiovascular InterventionsMyologyObject ColocalizationHALO
Upregulation of Glucose-Regulated Protein 78 in Metastatic Cancer Cells Is Necessary for Lung Metastasis Progression Lizardo MM, Morrow JJ, Miller TE, Hong ES, Ren L, Mendoza A, Halsey CH, Scacheri PC, Helman LJ, Khanna C2016NeoplasiaOncologyCytonuclearHALO
Evaluation of the brain-penetrant microtubule-stabilizing agent, dictyostatin, in the PS19 tau transgenic mouse model of tauopathy Makani V, Zhang B, Han H, Yao Y, Lassalas P, Lou K, Paterson I, Lee VMY, Trojanowski JQ, Ballatore C, Smith AB, Brunden KR2016Acta Neuropatholgica CommunicationsNeuroscienceArea QuantificationHALO
CNS-accessible inhibitor of glucosylceramide synthase for substrate reduction therapy of neuronopathic Gaucher disease Marshall J, Sun Y, Bangari DS, Budman E, Park H, Nietupski JB, Allaire A, Cromwell MA, Wang B, Grabowski GA, Leonard JP, Cheng SH2016Molecular TherapyNeuroscienceArea QuantificationHALO
Leptin, BMI, and a Metabolic Gene Expression Signature Associated with Clinical Outcome to VEGF Inhibition in Colorectal Cancer Pommier AJC, Farren M, Patel B, Wappett M, Michopoulos F, Smith NR, Kendrew J, Frith J, Huby R, Eberlein C, Campbell H, Womack C, Smith PD, Robertson J, Morgan S, Critchlow SE, Barry ST2016Cell MetabolismOncology, Metabolism, GastroenterologyArea QuantificationHALO
Intrathecal Administration of AAV/GALC Vectors in 10- 11-Day-Old Twitcher Mice Improves Survival and Is Enhanced by Bone Marrow Transplant Karmuthil-Melethil S, Marshall MS, Heindel C, Jakubauskas B, Bongarzone ER, Gray SJ2016Journal of Neuroscience ResearchNeuroscienceAxonHALO
Tasquinimod modulates tumor-infiltrating myeloid cells and improves the antitumor immune response to PD-L1 blockade in bladder cancer Nakhlé J, Pierron V, Bauchet A-L, Plas P, Thiongane A, Meyer-Losic F, Schmidlin F2016OncoImmunologyOncology, Immuno-oncologyCytonuclearHALO
Primary resistance to PD-1 blockade mediated by JAK1/2 mutations Shin DS, Zaretsky JM, Escuin-Ordinas H, Garcia-Diaz A, Hu-Lieskovan S, Kalbasi A, Grasso CS, Hugo W, Sandoval S, Torrejon DY, Palaskas N, Rodriguez GA, Parisi G, Azhdam A, Chmielowski B, Cherry G, Seja E, Berent-Maoz B, Shintaku IP, Le DT, Pardol DM, Diaz LA, Tumeh PC, Graeber TG, Lo RS, Comin-Anduix B, Ribas A2016Cancer DiscoveryOncology, Immuno-oncologyCytonuclearHALO
KS-Detect-Validation of Solar Thermal PCR for the Diagnosis of Kaposi's Sarcoma Using Pseudo-Biopsy Samples Snodgrass R, Gardner A, Jiang L, Fu C, Cesarman E, Erickson D2016PLOS ONEOncologyCytonuclearHALO
Development of antibody-siRNA conjugate targeted to cardiac and skeletal muscles Sugo T, Terada M, Oikawa T, Miyata K, Nishimura S, Kenjo E, Ogasawara-Shimizu M, Makita Y, Imaichi S, Murata S, Kentaro Otaka, Kikuchi K, Teratani M, Masuda Y, Kamei T, Takagahara S, Ikeda S, Ohtaki T, Matsumoto H2016The Journal of Controlled ReleaseMyologyCytonuclear, Muscle FiberHALO
Use of the Fluidigm C1 platform for RNA sequencing of single mouse pancreatic islet cells Xin Y, Kim J, Ni M, Wei Y, Okamoto H, Lee J, Adler C, Cavino K, Murphy AJ, Yancopoulos GD, Lin HC, Gromada J2016Proceedings of the National Academy of SciencesMetabolismCytonuclearHALO
Comparison of the methods for measuring the Ki-67 labeling index in adrenocortical carcinoma: manual versus digital image analysis Yamazaki Y, Nakamura Y, Shibahara Y, Konosu-Fukaya S, Sato N, Kubota-Nakayama F, Oki Y, Baba S, Midorikawa S, Morimoto R, Satoh F, Sasano2016Human PathologyOncologyCytonuclearHALO
Variability in Platelet-Derived Growth Factor Receptor Alpha Antibody Specificity May Impact Clinical Utility of Immunohistochemistry AssaysHolzer TR, Reising LO, Credille KM, Schade AE, Oakley2016Journal of Histochemistry & CytochemistryOncologyCytonuclear, ISH/FISHHALO
Differential Cytokine Gene Expression in Granulomas from Lungs and Lymph Nodes of Cattle Experimentally Infected with Aerosolized Mycobacterium bovis Palmer MV, Thacker TC, Waters WR2016PLOS OneInfectious DiseaseISH/FISHHALO
RNA Sequencing of Single Human Islet Cells Reveals Type 2 Diabetes Genes Xin Y, Kim J, Okamoto H, Ni M, Wei Y, Adler C, Murphy AJ, Yancopoulos GD, Lin C, Gromada J2016EndocrinologyMetabolismIsletHALO
The Prognostic Impact of NK/NKT Cell Density in Periampullary Adenocarcinoma Differs by Morphological Type and Adjuvant Treatment Lundgren S, Warfvinge CF, Elebro J, Heby M, Nodin B, Krzyzanowska A, Bjartell A, Leandersson K, Eberhard J, Jirstrom K2016PLOS ONEOncology, Immuno-oncologyObject ColocalizationHALO
Solid-state NMR structure of a pathogenic fibril of full-length human [alpha]-synuclein Tuttle MD, Comellas G, Nieuwkoop AJ, Covell DJ, Berthold DA, Kloepper KD, Courtney JM, Kim JK, Barclay AM, Kendall A, Wan W, Stubbs G, Schwieters CD, Lee VMY, George JM, Rienstra CM2016Structural & Molecular BiologyNeuroscienceArea QuantificationHALO
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Human Type II Taste Cells Express ACE2 and are Infected by SARS-CoV-2Doyle M, Ashley Appleton A, Q Liu, Yao Q, Mazucanti C, Egan J2021American Journal of PathologyCytonuclearHALO
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Impact of TREM2 risk variants on brain region-specific immune activation and plaque microenvironment in Alzheimer's disease patient brain samples Prokop S, Miller KR, Labra SR, Pitkin RM, Hoxha K, Narasimhan S, Changolkar L, Rosenbloom A, Lee VM-Y, Trojanowski JQ2019Acta NeuropathologicaNeuroscienceClassifier, Area QuantificationHALO
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Artificial Intelligence-Based Quantification of Epithelial Proliferation in Mammary Glands of Rats and Oviducts of Göttingen MinipigsHvid H, Skydsgaard M, Jensen NK, Vluff BM, Jensen HE, Oleksiewicz MB, Kvist PH2020Toxicologic PathologyToxicologyArea QuantificationHALO AI
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Immunogenic Chemotherapy Enhances Recruitment of CAR-T Cells to Lung Tumors and Improves Antitumor Efficacy when Combined with Checkpoint BlockadeSrivastava S, Furlan SN, Jaeger-Ruckstuhl CA, Sarvothama M, Berger C, Smythe KS, Garrison SM, Specht JM, Lee SM, Amezquita RA, Voillet V, Muhunthan V, Yechan-Gunja S, Pillai SPS, Rader C, Houghton AM, Pierce RH, Gottardo R, Maloney DG, Riddell SR2020Cancer CellImmuno-oncologyMultiplex IHC, Highplex FLHALO
HIV-1-induced cytokines deplete homeostatic innate lymphoid cells and expand TCF7-dependent memory NK cellsWang Y, Lifschitz L, Gellatly K, Vinton CL, Busman-Sahay K, McCauley S, Vangala P, Kim K, Derr, Jaiswall S, Kucukural A, McDonel P, Hunt PW, Greenough T, Houghton J, Somsouk M, Estes JD, Brenchley JM, Garber M, Deeks SG, Luban J2020Nature ImmunologyImmunology, Infectious DiseaseArea Quantification, Cytonuclear, ISH/FISHHALO
IL6/STAT3 Signaling Hijacks Estrogen Receptor ? Enhancers to Drive Breast Cancer MetastasisSiersbæk R, Scabia V, Nagarajan S, Chernukhin I, Papachristou EK, Broome R, Johnston SJ, Joosten SEP, Green AR, Kumar S, Jones J, Omarjee S, Alvarez-Fernandez R, Glont S, Aitken SJ, Kishore K, Cheeseman D, Rakha EA, D'Santos C, Zwart W, Ruseel A, Brisken C, Carroll JS2020Cancer CellOncologyArea Quantification, Multiplex IHCHALO
Multimodal treatment combining cold atmospheric plasma and acidic fibroblast growth factor for multi?tissue regenerationTan F, Rui X, Xiang X, Yu Z, Al-Rubeai M2021The FASEB JournalOtherMultiplex IHCHALO
Promyelocytic leukemia protein promotes the phenotypic switch of smooth muscle cells in atherosclerotic plaques of human coronary arteriesKarle W, Becker S, Stenzel P, Knosalla C, Siegel G, Baum O, Zakrzewicz A, Berkholz J2021Clinical ScienceMyologyArea Quantification, Object ColocalizationHALO
The Unfolded Protein Response Mediator PERK Governs Myeloid Cell-Driven Immunosuppression in Tumors through Inhibition of STING SignalingMohamed E, Sierra RA, Trillo-Tinoco J, Cao Y, Innamarato P, Payne KK, Pulido M, Mandula J, Zhang S, Thevenot P, Biswas S, Abdalla SK, Costich TL, Hanggi K, Anadon CM, Flores ER, Haura EB, Mehrotra, Pilon-Thomas S, Ruffel B, Munn DH, Cubillos-Ruiz JR, Conejo-Garcia JR, Rodriguez PC2020ImmunityImmuno-oncologyHighplex FLHALO
Genomic analysis of Vascular Invasion in Hepatocellular Carcinoma (HCC) Reveals Molecular Drivers and Predictive BiomarkersKrishnan MS, Rajan KD A, Park J, Arjunan V, Marques FJG, Bermudez A, Girvan OA, Hoang NS, Yin J, Nguyen MH, Kothary N, Pitteri S, Felsher DW, Dhanasekaran R2020HepatologyOncologyMultiplex IHC, TMAHALO
Dynamic Hydrogels for Prevention of Post?Operative Peritoneal AdhesionsStapleton LM, Lucian HJ, Grosskopf AK, Smith AAA, Totherow KP, Woo YJ, Appel EA2021Advanced TherapeuticsBiomaterialsArea QuantificationHALO
Efficacy and safety of a 3?in?1 antiaging night facial serum containing melatonin, bakuchiol, and ascorbyl tetraisopalmitate through clinical and histological analysisGoldberg DJ, Mraz-Robinson D, Granger C2020Journal of Cosmetic DermatologyDermatologyArea Quantification, Layer ThicknessHALO
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Engineering functional microvessels in synthetic polyurethane random-pore scaffolds by harnessing perfusion flowWright MEE, Yu JK, Jain D, Maeda A, Yeh S-CA, DaCosta RS, Lin CP, Santerre JP2020BiomaterialsBiomaterialsArea QuantificationHALO
Blockade of the co-inhibitory molecule PD-1 unleashes ILC2-dependent antitumor immunity in melanomaJacquelot N, Seillet C, Wang M et al.2021Nature ImmunologyImmuno-oncologyClassifier, Highplex FLHALO
Expansion of Immature, Nucleated Red Blood Cells by Transient Low?Dose Methotrexate Immune Tolerance Induction in MiceTran JQ, Grover D, Zhang M, Stapels M, Brennan R, Bangari DS, Piepenhagen PA, Roberts E, Olivia P, Zubair F, Vela JL, Richards SM, Joseph AM2020Clinical & Experimental ImmunologyImmunologyArea quantificationHALO
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Highly efficient genome editing in primary human bronchial epithelial cells differentiated at air-liquid interfaceRapiteanu R, Karagyozova T, Zimmerman N, Singh K, Wayne G, Martufi M, Belyaev NN, Hessel EM, Michalovich D, Macarron R, Rowan WC, Cairns WJ, Roger J, Betts J, Beinke S, Maratou K2020European Respiratory JournalOtherHighplex FLHALO
IBI112, a selective anti-IL23p19 monoclonal antibody, displays high efficacy in IL-23-induced psoriasiform dermatitisLi L, Wu Z, Qiu X, Wu Y, Kuang Z, Wang L, Sun T, Liu Y, Yi S, Jing H, Zhou S, Chen B, Wu, D, Wu W, Liu J2020International ImmunopharmacologyImmunology, DermatologyClassifier, Layer ThicknessHALO
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STAT3 antisense oligonucleotide remodels the suppressive tumor microenvironment to enhance immune activation in combination with anti-PD-L1Proia T, Singh M, Woessner R, Carnevalli LS, Bommakanti G, Magiera L, Srinivasan SS, Grosskurth SE, Collins M, Womack C, Griffin M, Ye M, Cantin S, Russell DL, Xie M, Hughes AM, Deng N, Mele DA, Fawell SE, Barry ST, Reimer C, Barrett JC, McCoon P2020Clinical Cancer ResearchImmuno-oncologyMultiplex IHC, Highplex FLHALO
Imaging Tumor-Infiltrating Lymphocytes in Brain Tumors with [64Cu]Cu-NOTA-anti-CD8-Positron Emission TomographyNagle V, Henry K, Hertz C, et al.2021Clinical Cancer ResearchImmuno-oncologyMultiplex IHCHALO
Cooperative targeting of immunotherapy-resistant melanoma and lung cancer by an AXL-targeting antibody-drug conjugate and immune checkpoint blockadeBoshuizen J, Pencheva N, Krijgsman O, Altimari DD, Castro PG, de Bruijn B, Ligtenberg MA, den Heuvel EG, Vredevoogd DW, Song J-Y, Visser N, Apriamashvili G, Janmaat ML, Plantinga TS, Franken P, Houtkamp M, Lingnau A, Jure-Kunkel M, Peeper DS2021Cancer ResearchImmuno-oncologyMultiplex-IHCHALO
Over-expression of Th2-related molecules in the skin of patients with eosinophilic dermatosis of hematologic malignancyMaglie R, Ugolini F, De Logu F, Nassini R, Simi S, Nardiello P, Pasqualaini E, Baroini G, Del Bianco E, Massi D, Antiga E2021Journal of the American Academy of DermatologyOncology, Immuno-oncologyArea Quantification, Multiplex IHCHALO Link
Temporal Analysis of Amylase Expression in Control, Autoantibody Positive, and Type 1 Diabetes Pancreatic TissuesKusmartseva I, Beery M, Hiller H, Padilla M, Selman S, Posgai A, Nick HS, Campbell-Thompson M, Schatz DA, Haller MJ, Wasserfall CH, Atkinson MA2019DiabetesMetabolismCytonuclearHALO
Kras and Lkb1 mutations synergistically induce intraductal papillary mucinous neoplasm derived from pancreatic duct cellsCollet L, Ghurburrun E, Meyers N, Assi M, Pirlot B, Leclercq IA, Couvelard A, Komuta M, Cros J, Demetter P, Lemaigre FP, Borbath I, Jacquemin P2019GutOncologyArea QuantificationHALO
Prognostic features of the tumour microenvironment in oesophageal adenocarcinomaMcShane R, Arya S, Stewart A, Caie P, Bates M2021Biochimica et Biophysica Acta (BBA) - Reviews on CancerImmuno-oncology, ReviewCytonuclearHALO
Mammalian Retinal Cell QuantificationMuthuswamy A, Chen H, Hu Y, Turner OC, Aina OH2020Toxicologic PathologyOtherCytonuclearHALO
Cx43 phosphorylation sites regulate pancreatic cancer metastasisSolan JL, Hingorani SR, Lampe PD2021OncogeneOncologyClassifier, Area QuantificationHALO
MAOA-mediated reprogramming of stromal fibroblasts promotes prostate tumorigenesis and cancer stemnessLi J, Pu T, Yin L, Li Q, Liao C-P, Wu BJ2020OncogeneOncologyMultiplex IHCHALO
Multimodal In Vivo and Post-mortem Assessments of Tau in Lewy Body DisordersCoughlin DG, Phillips JS, Roll E, Peterson C, Lobrovich R, Rascovsky K, Ungrady M, Wolk DA, Das S, Weintraub D, Lee EB, Trojanowski JQ, Shaw LM, Vaishnavi S, Siderowf A, Nasrallah IM, Irwin DJ, McMillan CT2020Neurobiology of AgingNeuroscienceArea QuantificationHALO
B7-H3 immune checkpoint expression is a poor prognostic factor in colorectal carcinomaLu Z, Zhao Z-X, Cheng P, Huang F, Guan X, Zhang M-G, Chen H-P, Liu Z, Jiang Z, Zheng Z-X, Zou S-M, Wang X-S2020Modern PathologyImmuno-oncologyMultiplex-IHC, TMAHALO
Chemoradiotherapy efficacy is predicted by intra-tumour CD8+/FoxP3+ double positive T cell density in locally advanced N2 non–small-cell lung carcinomaBoulle G, Velut Y, Mansuet-Lupo A, Gibault L, Blons H, Fournel L, Boni A, Cremer I, Wislez M, Duchatelle V, Tredaniel J, Hammond SA, Herbst R, Alifano M, Giraud P, Damotte D2020European Journal of CancerOncologyHighplex FLHALO
Neonatal hydrocephalus leads to white matter neuroinflammation and injury in the corpus callosum of Ccdc39 hydrocephalic miceGoulding DS, Vogel RC, Pandya CD, Shula C, Gensel JC, Mangano FT, Goto J, Miller BA2020Journal of NeurosurgeryImmunology, NeuroscienceMultiplex IHC, Highplex FLHALO
The RAC1 target NCKAP1 plays a crucial role in progression of BRAF/PTEN -driven melanoma in miceSwaminathan K, Campbell A, Papalazarou V, Jaber-Hijazi F, Nixon C, McGhee E, Strathdee D, Sansom OJ, Machesky LM2020Journal of Investigative DermatologyOncology, DermatologyArea Quantification, Multiplex IHCHALO
Intraductal pancreatic cancer is less responsive than cancer in the stroma to neoadjuvant chemotherapyFujikura K, Hutchings D, Braxton AM, Zhu Q, Laheru DA, Hruban RH, Thompson ED, Wood LD2020Modern PathologyOncologyMultiplex IHCHALO
Phosphorylation of connexin 43 at MAPK, PKC or CK1 sites each distinctly alter the kinetics of epidermal wound repairLastwika JK, Dunn CA, Solan JL, Lampe PD2019Journal of Cell ScienceDermatologyCytonuclearHALO
T-regulatory cells predict clinical outcome in soft tissue sarcoma patients: a clinico-pathological studySmolle M, Herbsthofer L, Granegger B, Goda M, Brcic I, Bergovec M, Scheipl S, Prietl B, Pichler M, Gerger A, Rossmann C, Riedl J, Tomberger M, López-García P, El-Heliebi A, Leithner A, Liegl-Atzwanger B, Szkandera J2021British Journal of CancerOncologyHighplex FL, TMAHALO
Quantitative digital image analysis of tumor-infiltrating lymphocytes in HER2-positive breast cancer Abe N, Matsumoto H, Takamatsu R, Tamaki K, Takigami N, Uehara K, Kamada Y, Tamaki N, Motonari T, Unesoko M, Nakada N, Zaha N, Zaha H, Yoshimi N2019Vichows ArchivOncologyClassifier, CytonuclearHALO
RNA isoform screens uncover the essentiality and tumor-suppressor activity of ultraconserved poison exonsThomas JD, Polaski JT, Feng Q, De Neef EJ, Hoppe ER, McSharry MV, Pangallo J, Gabel AM, Belleville AE, Watson J, Nkinsi NT, Berger AH, Bradley RK2020Nature GeneticsOtherHighplex FLHALO
Glucagon Receptor Inhibition Reduces Hyperammonemia and Lethality in Male Mice with Urea Cycle DisorderCavino K, Sung B, Su Q, Na E, Kim J, Cheng X, Gromada J, Okamoto H2020EndocrinologyMetabolismISH/FISH, Multiplex IHCHALO
Characterization of the tumor immune microenvironment in human papillomavirus-positive and -negative head and neck squamous cell carcinomasSuccaria F, Kvistborg P, Stein JE, Engle EL, McMiller TL, Rooper LM, Thompson E, Berger AE, van den Brekel M, Zuur CL, Haanen J, Topalian SL, Taube JM2020Cancer Immunology, ImmunotherapyImmuno-oncologyImmuneHALO
Temporospatial Development of Neuropathologic Findings in a Canine Model of Mucopolysaccharidosis IIIBHarm TA, Hostetter SJ, Nenninger AS, Valentine BN, Ellinwood NM, Smith JD2020Veterinary PathologyImmunology, NeruoscienceArea Quantification, CytonuclearHALO
Development of a clinically relevant ovarian cancer model incorporating surgical cytoreduction to evaluate treatment of micro-metastatic diseaseMorse CB, Voillet V, Bates BM, Chiu EY, Garcia NM, Gottardo R, Greenberg PD, Anderson KG2020Gynecologic OncologyOncologyMultiplex IHCHALO
PIK3CA mutation and CNV status and post-chemoradiotherapy survival in patients with cervical cancerMartell K, McIntyre JB, Kornaga EN, Chan AMY, Phan T, Kobel M, Enwere EK, Dean ML, Ghatage P, Lees-Miller SP, Doll CM2020Gynecologic OncologyOncologyClassifier, Highplex FL, TMAHAO
Tumor Platinum Concentrations and Pathological Responses Following Cisplatin-Containing Chemotherapy in Gastric Cancer Patients Cao Y, Chang Q, Cabanero M, Zhang W, Hafezi-Bakhtiari S, Hedley D, Darling G, Quereshy F, Jang R, Elimova E, Knox J, Ornatsky O, Serra S, Chen E2019Journal of Gastrointestinal CancerOncologyArea Quantification, CytonuclearHALO
PLX3397 treatment inhibits constitutive CSF1R-induced oncogenic ERK signaling, reduces tumor growth, and metastatic burden in osteosarcomaSmeester BA, Slipek NJ, Pomeroy EJ, Laoharawee K, Osum SH, Larsson AT, Williams KB, Stratton N, Yamamoto K, Peterson JJ, Rathe SK, Mills LJ, Hudson WA, Crosby MR, Wang M, Rahramann EP, Moriarity SB, Largaespada DA2020BoneOncologyCytonuclear, TMAHALO
IFN-III is selectively produced by cDC1 and predicts good clinical outcome in breast cancerHubert M, Gobbini E, Couillault C, Manh T-PV, Doffin A-C, Berthet J, Rodriguez C, Ollion V, Kielbassa J, Sajous C, Treilleux I, Tredan O, Dubois B, Dalod M, Bendriss-Vermare N, Caux C, Valladeau-Guilemond J2020ImmunologyOncologyHighplex FL, Partitions (tiles, margins)HALO
Using immuno-PET imaging to monitor kinetics of T cell-mediated inflammation and treatment efficiency in a humanized mouse model for GvHD Pektor S, Schlöder J, Klasen B, Bausbacher N, Wagner D-C, Schreckenberger W, Grabbe S, Jonuleit H, Miederer M2019European Journal of Nuclear Medicine and Molecular ImagingImmunologyCytonuclearHALO
Association between CD8 and PD?L1 expression and outcomes after radical prostatectomy for localized prostate cancerVicier C, Ravi P, Kwak L, Werner L, Huang Y, Evan C, Loda M, Hamid AA, Sweeney CJ2020The ProstateImmuno-oncologyClassifier, Highplex FLHALO
?-Synuclein modulates tau spreading in mouse brainsBassil F, Meymand ES, Brown HJ, Xu H, Cox TO, Pattabhiraman S, Maghames CM, Wu Q, Zhang B, Trojanowski JQ, Lee VM-Y2020Journal of Experimental MedicineNeuroscienceArea QuantificationHALO
A locus coeruleus to dentate gyrus noradrenergic circuit modulates aversive contextual processingSeo D, Zhang E, Piantadosi S, et al2021NeuronNeuroscienceArea Quantification, Highplex FLHALO
Clinicopathological significance of nerves in esophageal cancerGriffin N, Rowe CW, Gao F, Jobling P, Wills V, Walker MM, Faulkner S, Hondermarck H2020The American Journal of PathologyOncologyArea QuantificationHALO
AST-120 Treatment Alters the Gut Microbiota Composition and Suppresses Hepatic Triglyceride Levels in Obese MiceHiraga Y, Kubota T, Katoh, M, et al. 2021Endocrine ResearchMetabolismVacuoleHALO
High CD8+ tumour infiltrating lymphocyte density associates with unfavourable prognosis in oesophageal adenocarcinoma following poor response to neo?adjuvant chemoradiotherapyKoemans WJ, van Dieren JM, van den Berg J, Meijer G, Snaebjornsson P, Chalabi M, Lecot F, Riedl R, Krijgsman O, Hofland I, Broeks A, Voncken FEM, Peppelenbosch MP, Sosef MN, van Sandick JW, Kodach LL2021HistopathologyImmuno-oncologyCytonuclearHALO
High density of cytotoxic T-lymphocytes is linked to tumoral PD-L1 expression regardless of the mismatch repair status in colorectal cancerMöller K, Blessin N, Höflmayer D, et al.2021Acta OncologicaImmuno-oncologyHighplex FLHALO
Discoidin Domain Receptor 1 (DDR1) is Necessary for Tissue Homeostasis in Pancreatic Injury and Pathogenesis of Pancreatic Ductal AdenocarcinomaRuggeri JM, Franco-Barraza J, Sohail A, Zhang Y, Long D, di Magliano MP, Cukierman E, Fridman R, Crawford HC2020The American Journal of PathologyOncology, ImmunologyCytonuclear, Multiplex IHC, Highplex FLHALO
Chronic stress differentially alters mRNA expression of opioid peptides and receptors in the dorsal hippocampus of female and male ratsJohnson MA, Contoreggi NH, Kogan JF, Bryson M, Rubin BR, Gray JD, Kreek MJ, McEwen BS, Milner TA2021The Journal of Comparative NeurologyNeruoscienceISH/FISHHALO
Monocyte and macrophage derived myofibroblasts: Is it fate? A review of the current evidenceVierhout M, Ayoub A, Naiel S, Yazdanshenas P, Revill S, Reihani A, Dvorkin-Gheva A, Shi W, Ask K2021Wound Repair and RegenerationReviewISH/FISHHALO
Necroptosis in biliary atresia of the liverHashimoto M, Fujishima F, Lomphithak T, Jitkaew S, Nio M, Sasano H2021Medical Molecular MorphologyMetabolismMultiplex IHCHALO
Intracranial administration of alpha-synuclein fibrils in A30P-synuclein transgenic mice causes robust synucleinopathy and microglial inductionGentzel R, Toolan D, Jinn S, Schachter J, Ma L, Kahle P, Smith S, Marcus J2021Neurobiology of AgingNeuroscienceArea QuantificationHALO
A comparative study of cirrhosis sub-staging using the Laennec system, Beijing classification, and morphometryZhang X, Schiano T, Doyle E, Branch A, Florman S, Fiel M.2021Modern PathologyMetabolismClassifier, Area QuantificationHALO
Alteration of Colonic Mucin Composition and Cytokine Expression in Acute Swine DysenteryLin S J-H, Arruda B, Burrough E2021Veterinary PathologyImmunologyArea Quantification, ISH/FISHHALO
Selective loss of resident macrophage-derived insulin-like growth factor-1 abolishes adaptive cardiac growth to stressZaman R, Hamidzada H, Kantores C, Wong A, Dick S, Wang Y, Momen A, Aronoff L, Lin J, Razani B, Mital S, Billia F, Lavine K, Nejat S, Epelman S2021ImmunityImmunologyHighplex FLHALO
Ki-67 Proliferation Index Assessment in Gastroenteropancreatic Neuroendocrine Tumors by Digital Image Analysis With Stringent Case and Hotspot Level Concordance RequirementsBoukhar SA, Gosse MD, Bellizzi AM, Rajan A2021American Journal of Clinical PathologyOncologyCytonuclearHALO
Establishing standardized immune phenotyping of metastatic melanoma by digital pathologySobottka B, Nowak M, Frei A, Haberecker M, Merki S, Tumor Profiler consortium, Levesque M, Dummer R, Moch H, Koelzer V2021Laboratory InvestigationImmuno-oncologyMultiplex IHC, Spatial AnalysisHALO AI
Orexin receptors 1 and 2 in serotonergic neurons differentially regulate peripheral glucose metabolism in obesityXiao X Yeghiazaryan G, Hess S, Klemm P, Sieben A, Kleinridders A, Morgan D, Wunderlich F. Rahmouni K. Kong D, Scammell T, Lowell B, Kloppenburg P, Brüning J, Hausen A.2021Nature CommunicationsMetabolismISH/FISHHALO
Multiplex Immunohistochemical Phenotyping of T Cells in Primary Prostate CancerOzbek B, Ertunc O, Erickson A, Vidal I, Alexandre C, Guner G, Hicks J, Jones T, Taube J, Sfanos K, Yegnasubramanian S, DeMarzo A2021medRxivImmuno-oncologyClassifier, Cytonuclear, Highplex FL, Serial Section, RegistrationHALO
Simultaneous targeting of TGF-b/PD-L1 synergizes with radiotherapy by reprogramming the tumor microenvironment to overcome immune evasionLan Y, Moustaga M, Knoll M, Xu C, Furkel J, Lazorchak A, Yeung T, Hasheminasab S, Jenkins M, Meister S, Yu H, Schlegel J, Marelli B, Tang Z, Qin G, Klein C, Qi J, Zhou C, Locke G, Krunic D, Derner M, Schwager C, Fontana R, Kriegsmann K, Jiang F, Rein K, Kriegsmann M, Debus J, Lo K, Abdollahi A2021Cancer CellOncologyCytonuclearHALO
SLFN11 captures cancer-immunity interactions associated with platinum sensitivity in high-grade serous ovarian cancerWinkler C, King M, Berthe J, Ferraioli D, Garuti A, Grillo F, Rodriguez-Canales J, Ferrando L, Chopin N, Ray-Coquard I, Delpuech O, Bedognetti D, Ballestrero A, Leo E, Zoppoli G2021JCI InsightOncologyClassifier, CytonuclearHALO
Three subtypes of lung cancer fibroblasts definedistinct therapeutic paradigmsHu H, Peotrowska Z, Hare P, Chen H, Mulvey H, Mayfield A, Noeen S, Kattermann K, Greenberg M, Williams A, Riley A, Wilson J, Mao Y, Huang R, Banwait M, Ho J, Crowther G, Hariri L, Sequist L, Benes C, Niederst M, Engelman J2021Cancer CellOncologyCytonuclear, ISH/FISHHALO
NR4A1 regulates expression of immediate early genes, suppressing replication stress in cancerGuo H, Golczer G, Wittner B, Langenbucher A, Zachariah M, Dubash T, Hong X, Comaills V, Burr R, Ebright R, Horwitz E, Vuille J, Hajizadeh S, Wiley D, Reeves B, Zhang J, Niederhoffer K, Lu C, Wesley B, Ho U, Nieman L, Toner M, Vasudevan S, Zou L, Mostoslavsky R, Maheswaran S, Lawrence M, Haber D2021Molecular CellOncologyHighplex FLHALO
AG-205 Upregulates Enzymes Involved in Cholesterol Biosynthesis and Steroidogenesis in Human Endometrial Cells Independently of PGRMC1 and Related MAPR ProteinsThieffry C, Van Wynendaele M, Aynaci A, Maja M, Dupuis C, Loriot A, Marbaix E, Henriet P2021BiomoleculesOtherCytonuclear, Highplex FLHALO
p53-mediated redox control promotes liver regeneration and maintains liver function in response to CCl4Humpton T, Hall H, Kiourtis C, Nixon C, Clark W, Hedley A, Shaw R, Bird T, Blyth K, Vousden K2021Cell Death & DifferentiationMetabolismCytonuclear, Multiplex IHCHALO
Single-cell RNA transcriptome landscape of hepatocytes and non-parenchymal cells in healthy and NAFLD mouse liverSu Q, Kim S, Adewale F, Zhou Y, Alder C, Ni M, Wei Y, Burcznski M, Atwal G, Sleeman M, Murphy A, Xin Y, Cheng X2021iScienceMetabolismArea QuantificationHALO
Functional heterogeneity of POMC neurons relies on mTORC1 signalingSaucisse N, Mazier W, Simon V, Binder E, Catania C, Bellocchio L, Romanov R, Leon S, Matias I, Zizzari P, Quarta C, Cannich A, Meece K, Gonzales D, Clark S, Becker J, Yeo G, Fioramonti X, Merkle F, Wardlaw S, Harkany T, Massa F, Marsicano G, Cota D2021Cell ReportsNeuroscienceISH/FISHHALO
Atypical chemokine receptor 3 (ACKR3) induces the perturbation of rRNA biogenesis in colonic cells: a novel mechanism of colorectal tumorigenesisYang J, Li Y, Pan T, Miao R, Zhang Y, Wu S, Qu X, Cui S2021Research SquareOncologyArea QuantificationHALO
IL-1-driven stromal–neutrophil interactions define a subset of patients with inflammatory bowel disease that does not respond to therapiesFriedrich M, Pohin M, Jackson M, Korsunsky I, Bullers S, Rue-Albrecht K, Christoforidou Z, Sathananthan D, Thomas T, Ravindran R, Tandon R, Peres R, Sharpe H, Wei K, Watts G, Mann E, Geremia A, Attar M, Oxford IBD Cohort Investigators, Roche Fibroblast Network Consortium, McCuaig S, Thomas L, Collantes E, Uhlig H, Sansom S, Easton A, Raychaudhuri S, Travis S, Powrie F2021Nature MedicineGastroenterologyCytonuclearHALO
Increased IL-6 expression precedes reliable viral detection in the rhesus macaque brain during acute SIV infectionGopalakrishnan R, Aid M, Mercado N, Davis C, Malik S, Geiger E, Varner V, Jones R, Bosinger S, Piedra-Mora C, Martinot A, Barouch D, Reeves R, Tan C2021JCI InsightInfectious DiseaseArea QuantificationHALO
Combined CTLA-4 and PD-L1 blockade in patients with chemotherapy-naïve metastatic castration-resistant prostate cancer is associated with increased myeloid and neutrophil immune subsets in the bone microenvironmentSubudhi S, Siddiqui B, Aparicio A, Yadav S, Basu S, Chen H, Jindal S, Tidwell R, Varma A, Logothetis C, Allison J, Corn P, Sharma P2021Journal for ImmunoTherapy of CancerImmuno-oncologyCytonuclear, Multiplex IHCHALO
Expression of SARS-CoV-2 Entry Factors in the Pancreas of Normal Organ Donors and Individuals with COVID-19Kusmartseva I, Wu W, Syed F, Van Der Heide V, Jorgensen M, Joseph P, Tang X, Candelario-Jalil E, Yang C, Nick H, Harbert J, Posgai A, Paulsen J, Lloyd R, Cechin S, Pugliese A, Campbell-Thomson M, Vander Heide R, Evans-Molina C, Homann D, Atkinson M2020Cell MetabolismInfectious DiseaseArea QuantificationHALO
Baricitinib Treatment Resolves Lower-Airway Macrophage Inflammation and Neutrophil Recruitment in Sars-Cov-2-Infected Rhesus MacaquesHoang T, Pino M, Boddapati A, Viox E, Starke C, Upadhyay A, Gumber S, Nekorchuk M, Busman-Sahay K, Strongin Z, Harper J, Tharp G, Pellegrini K, Kirejczyk S, Zandi K, Tao S, Horton T, Beagle E, Mahar E, Lee M, Cohen J, Jean S, Wood J, Connor-Stroud F, Stammen R, Delmas O, Wang S, Cooney K, Sayegh M, Wang L, Filev P, Weiskopf D, Silvestri G, Waggoner J, Piantadosi A, Kasturi S, Al-Shakhshir H, Ribeiro S, Sekaly R, Levit R, Estes J, Vanderfold T, Schinazi R, Bosinger S, Paiardine M2021CellInfectious DiseaseMultiplex IHCHALO
Diagnostic and prognostic implications of a three-antibody molecular subtyping algorithm for non-muscle invasive bladder cancerJackson C, Chen L, Hardy C, Ren K, Visram K, Bratti V, Johnstone J, Sjödahl G, Siemens D, Gooding R, Berman D2021The Journal of Pathology: Clinical ResearchOncologyCytonuclear, TMAHALO
Transcriptomic Analysis of Healthy and Atopic Dermatitis Samples Reveals the Role of IL-37 in Human SkinZhou J, Gemperline D, Turner M, Oldach J, Molignano J, Sims J, Stayrook K2021ImmunoHorizonsDermatologyArea Quantification, CytonuclearHALO
Interleukin-33 activates group 2 innate lymphoid cell expansion and modulates endometriosisMiller J, Lingegowda H, Symons L, Bougie O, Young S, Lessey B, Koti M, Tayade C2021JCI InsightOtherArea Quantification, CytonuclearHALO
Development of a novel humanized mouse model for improved evaluation of in vivo anti-cancer effects of anti-PD-1 antibodyKatano I, Hanazawa A, Otsuka I, Yamaguchi T, Mochizuki M, Kawai K, Ito R, Goto M, Kagawa T, Takahashi T2021Scientific ReportsOncologyCytonuclear, Multiplex IHCHALO
A comparability study of natural and deglycosylated PD-L1 levels in lung cancer: evidence from immunohistochemical analysisMei J, Xu J, Yang X, Gu D, Zhou W, Wang H, Liu C2021Molecular CancerOncologyCytonuclear, Multiplex IHCHALO
Automated Detection and Classification of Desmoplastic Reaction at the Colorectal Tumour Front Using Deep LearningNearchou I, Ueno H, Kajiwara Y, Lillard K, Mochizuki S, Takeuchi K, Harrison D, Caie P2021CancersOncologyHALO AI
Mitochondria exert age-divergent effects on recovery from spinal cord injuryStewart A, McFarlane K, Vekaria H, Bailey W, Slone S, Tranthem L, Zhang B, Patel S, Sullivan P, Gensel J2021Experimental NeurologyNeuroscienceObject ColocalizationHALO
Large-Section Histopathology Can Better Indicate the Immune Microenvironment and Predict the Prognosis of Pancreatic Ductal Adenocarcinoma Than Small-Section HistopathologyDing G, Guo M, Yang Y, Sun C, Wu S, Liu X, Wang J, Jiang H, Liu Y, Zheng J2021Frontiers in OncologyOncologyMultiplex IHCHALO
Androgen Receptor Signalling in Macrophages Promotes TREM-1-mediated Cancer Cell Line Migration and InvasionCioni B, Zaalberg A, van Beihnum J, Melis M, van Brugsteden J, Muraro M, Hooijberg E, Peters D, Hofland I, Lubeck Y, de Jong J, Sanders J, Vivie J, van der Poel J, Griffioen A, Zwart W, Bergman A2021Nature CommunicationsOncologyHighplex FL, Partitions (tiles, margins)HALO
Dysregulation of Innate Lymphoid Cells in Patients with Active Rheumatoid Arthritis and Mice with Collagen-Induced ArthritisYang F, Luo X, Zhu W, Li J, Zheng Z, Zhu P2021Mediators of InflammationSpatial Analysis, Highplex FLHALO
CD147 antibody specifically and effectively inhibits infection and cytokine storm of SARS-CoV-2 and its variants delta, alpha, beta, and gammaGeng J, Chen L, Yuan Y, Wang K, Wang Y, Qin C, Wu G, Chen R, Zhang Z, Wei D, Du P, Zhang J, Lin P, Zhang K, Deng Y, Xu K, Liu J, Sun X, Guo T, Yang X, Wu J, Jiang J, Li L, Zhang K, Wang Z, Zhang J, Yan Q, Zhu H, Zheng Z, Miao J, Fu X, Yang F, Chen X, Tang H, Zhang Y, Shi Y, Zhu Y, Pei Z, Huo F, Liang X, Wang Y, Wang Q, Xie W, Li Y, Shi M, Bian H, Zhu P, Chen Z2021Signal Transduction and Targeted TherapyInfectious DiseaseCytonuclear, Multiplex IHC, Highplex FLHALO
Suppression of insulin-induced gene 1 (INSIG1) function promotes hepatic lipid remodelling and restrains NASH progressionAzzu V, Vacca M, Kamzolas I, Hall Z, Leslie J, Carobbio S, Virtue S, Davies S, Lukasik A, Dale M, Bohlooly-Y M, Acharjee A, Linden D, Bidault G, Petsalaki E, Griffin J, Oakley F, Allison M, Vidal-Puig2021Molecular MetabolismMetabolismArea Quantification, Cytonuclear, Multiplex IHCHALO
An endogenous opioid circuit determines state-dependent appetitive behaviorCastro D, Oswell C, Zhang E, Pedersen C, Piantadosi S, Rossi M, Hunker A, Guglin A, Moron J, Zweifel L, Stuber G, Bruchas M2021bioRxivNeuroscienceCytonuclear, Highplex FLHALO
A faithful in vivo model of human macrophages in metastatic melanomaVoillet V, Berger T, McKenna K, Paulson K, Smythe K, Hunter D, Valente W, Weaver S, Campbell J, Kim T, Byrd D, Bielas J, Pierce R, Chapuis A, Gottardo R, Rongvaux2021bioRxivCytonuclear, Multiplex IHCHALO
Maternal platelets pass interstices of trophoblast columns and are not activated by HLA-G in early human pregnancyGuettler J, Forstner D, Cvirn G, Maninger S, Brugger B Nonn O, Kupper N, Pritz E, Wernitznig S, Dohr G, Hutter H, Juch H, Isermann B, Kohli S, Gauster M2021Journal of Reproductive ImmunologyOtherCytonuclear, Highplex FLHALO
Absolute copy number fitting from shallow whole genome sequencing dataSauer C, Eldridge M, Vias M, Hall J, Boyle S, Macintyre G, Bradley T, Markowetz F, Brenton J2021bioRxivOncologyClassifierHALO
E3 ligase-inactivation rewires CBL interactome to elicit oncogenesis by hijacking RTK–CBL–CIN85 axisAhmed S, Buetow L, Gabrielsen M, Lilla S, Sibbet G, Sumpton D, Zanivan S, Hedley A, Clark W, Huang D2021OncogeneOncologyCytonuclear, Multiplex IHCHALO
Detection of Epstein–Barr Virus in Periodontitis: A Review of Methodological ApproachesTonoyan L, Chevalier M, Vincent-Bungnas S, Marsault R, Doglio A2021MircroorganismsReviewISH/FISH, ISH-IHC/FISH-IFHALO
CYRI-A limits invasive migration through macropinosome formation and integrin uptake regulationLe A, Yelland T, Paul N, Fort L, Nikolaou S, Ismail S, Machesky L2021Journal of Cell BiologyOtherCytonuclear, Multiplex IHCHALO
Structure of the helicase core of Werner helicase, a key target in microsatellite instability cancersNewman J, Gavard A, Lieb S, Ravichandran M, Hauer K, Werni P, Geist L, Bottcher J, Engen J, Rumpel K, Samwer M, Petronczki, Gileadi O2021Life Science AllianceOncologyCytonuclear, Highplex FLHALO
In vitro amplification of pathogenic tau conserves disease-specific bioactive characteristicsXu H, O'Reilly M, Gibbons G, Changolkar L, McBride J, Riddle D, Zhang B, Stieber A, Nirschl J, Kim S, Hoxha K, Brunden K, Schellenberg G, Trojanowski J, Lee V2021Acta NeuropathologicaNeruoscienceCytonuclear, Multiplex IHCHALO
Cross-linking of T cell to B cell lymphoma by the T cell bispecific antibody CD20-TCB induces IFN?/CXCL10-dependent peripheral T cell recruitment in humanized murine modelCremasco F, Menietti E, Speziale D, Sam J, Sammicheli S, Richard M, Varol A, Klein C, Umana P, Bacac M, Colombetti S, Perro M2021PLOS ONEOncologyCytonuclear, Multiplex IHC, Highplex FLHALO
Tissue-resident FOLR2+ macrophages associate with tumor-infiltrating CD8+ T cells and with increased survival of breast cancer patientsRamos, R, Missolo-Koussou Y, Gerber-Ferder Y, Bromley C, Bugatti M, Nunez N, Tosello J, Richer W, Denizeau J, Sedlik C, Caudana P, Kotsias F, Niborski L, Viel S, Bohec M, Lameiras S, Baulande S, Lesage L, Nicolas A, Mesure D, Vincent-Salomon A, Reyal F, Dutertre C, Ginhoux F, Vimeux L, Donnadieu E, Buttard B, Galon J, Zelenay S, Vermi W, Guermonprez P, Piaggio E, Helft J2021bioRxivImmuno-oncologyCytonuclear, Highplex FL, TMAHALO
CCNE1 amplification is synthetic-lethal with PKMYT1 kinase inhibitionGallo D, Young J, Fourtounis J, Martino G, Alvarez-Quilon A, Bernier C, Duffy N, Papp R, Roulston A, Stocco R, Szychowski J, Veloso A, Alam H, Baruah P, Fortin A, Bowlan J, Chaudhary N, Desjardins J, Dietrich E, Fournier S, Fugere-Desjardins C, de Rugy T, Leclaire M, Liu B, Melo H, Nicolas O, Singhania A, Szilard R, Tkac J, Yin S, Morris S, Zinda M, Marshall C, Duocher D2021bioRxivOtherCytonuclear, Multiplex IHCHALO
MNK inhibition sensitizes KRAS-mutant colorectal cancer to mTORC1 inhibition by reducing eIF4E phosphorylation and c-MYC expressionKnight J, Alexandrou C, Skalka G, Vlahov N, Pennel K, Officer L, Teodosio A, Kanellos G, Gay D, May-Wilson S, Smith E, Najumudeen A, Gilroy K, Ridgway R, Flanagan D, Smith R, McDonald L, MacKay C, Cheasty A, McArthur K, Stanway E, Leach J, Jackstadt R, Waldron J, Campbell A, Vlachogiannis G, Valeri N, Haigis K, Sonenberg N, Proud C, Jones N, Swarbrick M, McKinnon H, Faller W, LeQuense J, Edwards J, Willis A, Bushell M, Sansom O2021Cancer DiscoveryOncologyCytonuclear, Highplex FLHALO
Computational modeling of tau pathology spread reveals patterns of regional vulnerability and the impact of a genetic risk factorCornblath E, Li H, Changolkar C, Zhang B, Brown H, Gathagan R, Olufemi M, Trojanowski J, Bassett D, Lee V, Henderson M2021Science AdvancesNeuroscienceArea QuantificationHALO
Tau-tubulin kinase 1 phosphorylates TDP-43 at disease-relevant sites and exacerbates TDP-43 pathologyTian Y, Wang Y, Jablonski A, Hu Y, Sugam J, Koglin M, Stachel S, Zhou H, Uslaner J, Parmentier-Batteur S2021Neurobiology of DiseaseNeuroscienceArea QuantificationHALO
Pilot study of Tremelimumab with and without cryoablation in patients with metastatic renal cell carcinomaCampbell M, Matin S, Tam A, Sheth R, Ahrar K, Tidwell R, Rao P, Karam J, Wood C, Tannir N, Jonasch E, Gao J, Zurita A, Shah A, Jindal S, Duan F, Basu S, Chen H, Espejo A, Allison J, Yadav S, Sharma P2021Nature CommunicationsOncologyCytonuclearHALO
Cancer immune therapy with PD-1-dependent CD137 co-stimulation provides localized tumour killing without systemic toxicityQiao Y, Qiu Y, Ding J, Luo N, Wang H, Ling X, Sun J, Wu Z, Wang Y, Liu Y, Guo F, Sun T, Shen W, Zhang M, Wu D, Chen B, Xu W, Wang X2021Nature CommunicationsImmuno-oncologyCytonuclear, Multiplex IHCHALO
Small molecule inhibitors of ?-synuclein oligomers identified by targeting early dopamine-mediated motor impairment in C. elegansChen K, Menezes K, Rodgers J, )'Hara D, Tran N, Fujisawa K, Ishikura S, Khodaei S, Chau H, Cranston A, Kapadia M, Pawar G, Ping S, Krizus A, Lacoste A, Spangler S, Visanji N, Marras C, Majbour N, El-Agnaf O, Lozano A, Culotti, Suo S, Ryu W, Kalia S, Kalia L2021Molecular NeurodegenerationNeuroscienceCytonuclearHALO
Intratumoral Heterogeneity and Immune Response Indicators to Predict Overall Survival in a Retrospective Study of HER2-Borderline (IHC 2+) Breast Cancer PatientsRadziuviene G, Rasmusson A, Augulis R, Grinevici