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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 HIF1α 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 IFNɣ 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
Spatial Clustering of CD68+ Tumor Associated Macrophages with Tumor Cells is Associated with Worse Overall Survival in Metastatic Clear Cell Renal Cell CarcinomaChakiryan NH, Kimmel GJ, Kim Y, Hajiran A, Aydin AM, Zemp L, Katende E, Nguyen J, Lopez-Blanco N, Chahoud J, Spiess PE, Fournier M, Dhillon J, Wang L, Moran-Segura C, El-Kenawi A, Mulé J, Altrock PM, Manley BJ2021bioRxivImmuno-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
Cabozantinib for neurofibromatosis type 1–related plexiform neurofibromas: a phase 2 trialFisher MJ, Shih C-S, Rhodes SD, Armstrong AE, Wolters PL, Dombi E, Zhang C, Angus SP, Johnson GL, Packer RJ, Allen JC, Ullrich NJ, Goldman S, Gutmann DH, Plotkin SR, Rosser T, Robertson KA, Widemann BC, Smith AE, Bessler WK, He Y, Park S-J, Mund JA, Jiang L, Bijangi-Vishehsaraei K, Robinson CT, Cutter GR, Korf BR, Neurofibromatosis Clinical Trials Consortium, Blakeley JO, Clapp DW2021Nature MedicineOncologyHALO
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 Comparitive NeurologyNeuroscienceHALO
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 DermatologyImmunologyHALO
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
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 GP2021medRxivImmuno-oncologyHALO
Cx43 phosphorylation sites regulate pancreatic cancer metastasisSolan JL, Hingorani SR, Lampe PD2021OncogeneOncologyHALO
Dynamic Hydrogels for Prevention of Post‐Operative Peritoneal AdhesionsStapleton LM, Lucian HJ, Grosskopf AK, Smith AAA, Totherow KP, Woo YJ, Appel EA2021Advanced TherapeuticsBiomaterialsHALO
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
TGFβ-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
Distinct fibroblast functional states drive clinical outcomes in ovarian cancer and are regulated by TCF21Hussain A, Voisin V, Poon S, Karamboulas C, Bui NHB, Meens J, Dmtryshyn J, Ho VW, Tang KH, Paterson J, Clarke BA, Bernardini MQ, Bader GD, Neel BG,4 Ailles LE2020Journal of Experimental MedicineOncologyClassifier, Area Quantification, HALO
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
11β 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
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Multiplexed Immunohistochemistry for Molecular and Immune Profiling in Lung Cancer—Just About
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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
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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–eIF2α 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 α and β 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, Bléry 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-κB 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
TGFβ 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 α-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 α-synuclein strains in α-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 α-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 β-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 α-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 α 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
TGFβ 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 5α-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-β 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 α-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 β-hydroxybutyrate on the growth, metabolism and global histone H3 acetylation of spontaneous mouse mammary tumours: evidence of a β-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-AβPPswe 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 β-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
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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 β 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
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 HIF1α 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
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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 IFNɣ production by CD4+ T cells provides niches for murine cytomegalovirus
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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
Spatial Clustering of CD68+ Tumor Associated Macrophages with Tumor Cells is Associated with Worse Overall Survival in Metastatic Clear Cell Renal Cell CarcinomaChakiryan NH, Kimmel GJ, Kim Y, Hajiran A, Aydin AM, Zemp L, Katende E, Nguyen J, Lopez-Blanco N, Chahoud J, Spiess PE, Fournier M, Dhillon J, Wang L, Moran-Segura C, El-Kenawi A, Mulé J, Altrock PM, Manley BJ2021bioRxivImmuno-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,
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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
Cabozantinib for neurofibromatosis type 1–related plexiform neurofibromas: a phase 2 trialFisher MJ, Shih C-S, Rhodes SD, Armstrong AE, Wolters PL, Dombi E, Zhang C, Angus SP, Johnson GL, Packer RJ, Allen JC, Ullrich NJ, Goldman S, Gutmann DH, Plotkin SR, Rosser T, Robertson KA, Widemann BC, Smith AE, Bessler WK, He Y, Park S-J, Mund JA, Jiang L, Bijangi-Vishehsaraei K, Robinson CT, Cutter GR, Korf BR, Neurofibromatosis Clinical Trials Consortium, Blakeley JO, Clapp DW2021Nature MedicineOncologyHALO
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 Comparitive NeurologyNeuroscienceHALO
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 DermatologyImmunologyHALO
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
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 GP2021medRxivImmuno-oncologyHALO
Cx43 phosphorylation sites regulate pancreatic cancer metastasisSolan JL, Hingorani SR, Lampe PD2021OncogeneOncologyHALO
Dynamic Hydrogels for Prevention of Post‐Operative Peritoneal AdhesionsStapleton LM, Lucian HJ, Grosskopf AK, Smith AAA, Totherow KP, Woo YJ, Appel EA2021Advanced TherapeuticsBiomaterialsHALO
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
TGFβ-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
Distinct fibroblast functional states drive clinical outcomes in ovarian cancer and are regulated by TCF21Hussain A, Voisin V, Poon S, Karamboulas C, Bui NHB, Meens J, Dmtryshyn J, Ho VW, Tang KH, Paterson J, Clarke BA, Bernardini MQ, Bader GD, Neel BG,4 Ailles LE2020Journal of Experimental MedicineOncologyClassifier, Area Quantification, HALO
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
11β 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
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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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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
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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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Neoadjuvant PD-L1 plus CTLA-4 blockade in patients with cisplatin-ineligible operable high-risk urothelial carcinomaGao J, Navai N, Alhalabi O, Siefker-Radtke A, Campbell MT, Tidwell RS, Guo CC, Kamat AM, Matin SF, Araujo CJ, Shah AY, Msaouel P, Corn P, Wang J, Papadopoulos JN, Yadav SS, Blando JM, Duan F, Basu S, Liu W, Shen Y, Macaluso MD, Wang Y, Chen J, Zhang J, Futreal A, Dinney C, Allison JP, Goswami S, Sharma P2020Nature MedicineToxicologyHALO
Intratumoral heterogeneity of the tumor cells based on in situ cortisol excess in cortisol-producing adenomas; An association among morphometry, genotype and cellular senescenceGao X, Yamazaki Y, Tezuka Y, Pieroni J, Ishii K, Atsumi N, Ono Y, Omata K, Morimoto R, Nakamura Y, Satoh F, Sasano H2020The Journal of Steroid Biochemistry and Molecular BiologyOncologyHALO
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
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 DermatologyDermatologyHALO
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, NeuroscienceHALO
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, NeuroscienceHALO
Quantification of Viral and Host Biomarkers in the Liver of Rhesus Macaques: a Longitudinal Study of Zaire Ebolavirus strain Kikwit (EBOV/Kik)Greenberg AR, Huber BR, Liu DX, Logue JP, Hischak AMW, Hart RJ, Abbott M, Isic N, Hisada YM, Mackman N, Bennet RS, Hensley LE, Connor JH, Crossland NA2020The American Journal of PathologyHALO
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The human IL-15 superagonist N-803 promotes migration of virus-specific CD8+ T and NK cells to B cell follicles but does not reverse latency in ART-suppressed, SHIV-infected macaquesWebb GM, Molden J, Bushman-Sahay K, Abdulhaqq S, Wu HL, Weber WC, Bateman KB, Reed JS, Northrup M, Maier N,Tanaka S, Gao L, Davey B, Carpenter BL, Axthelm MK, Stanton JJ, Smedley J, Greene JM, Safrit JT, Estes JD, Skinner PJ, Sacha JB2020PLOS PathogensInfectious DiseaseCytonuclear, ISH/FISHHALO
Neonatal therapy with PF543, a sphingosine kinase 1 inhibitor, ameliorates hyperoxia-indused airway remodeling in a murine model of bronchopulmonary dysplasia Ha AW, Sudhadevi T, Ebenezeer DL, Fu P, Berdyshev EV, Ackerman SJ, Natarajan V, Harijith A2020American Journal of PhysiologyOtherHALO
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 M2020bioRxivToxicologyHALO
Temporospatial Development of Neuropathologic Findings in a Canine Model of Mucopolysaccharidosis IIIBHarm TA, Hostetter SJ, Nenninger AS, Valentine BN, Ellinwood NM, Smith JD2020Veterinary PathologyImmunology, NeuroscienceHALO
CTLA-4 and PD-1 dual blockade induces SIV reactivation without control of rebound after antiretroviral therapy interruptionHarper J, Gordon S, Chan CN, Wang H, Lindemuth E, Galardi C, Falcinelli SD, Raines SLM, Read JL, Nguyen K, McGary CS, Nekorchuk M, Busman-Sahay K, Schawalder J, King C, Pino M, Micci L, Cervasi B, Jean S, Sanderson A, Johns B, Koblansky AA, Amrine-Madsen H, Lifson J, Margolis DM, Silvestri G, Bar KJ, Favre D, Estes JD, Paiardini2020Nature MedicineImmunology, Infectious DiseaseHALO
Investigating Radiotherapy Response in a Novel Syngeneic Model of Prostate CancerHaughey CM, Mukherjee D, Steele RE, Popple A, Dura-Perez L, Pickard A, Patel M, Jain S, Mullan PB, Williams R, Oliveira P, Buckley NE, Honeychurch J, McDade SS, Illidge T, Mills IG, Eddie SL2020CancersOncologyHALO
Intratumoral interleukin-12 mRNA therapy promotes TH1 transformation of the tumor microenvironmentHewitt SL, Bailey D, Zielinski J, Apte A, Musenge F, Karp R, Burke S, Garcon F, Mishra A, Gurumurthy S, Watkins A, Arnold K, Moynihan J, Clancy-Thompson E, Mulgrew K, Adjei G, Deschler K, Potz D, Moody G, Leinster DA, Novick S, Sulikowski M, Bagnall CJ, Martin P, Lapointe J-M, Si H, Morehouse CA, Sedic M, Wilkinson RW, Herbst R, Frederick JP, Luheshi N2020Clinical Cancer ResearchImmuno-oncologyHALO
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 J2020ImmunologyHALO
PNOCARC Neurons Promote Hyperphagia and Obesity upon High-Fat-Diet FeedingJais A, Paeger L, Sotelo-Hitschfeld T, Bremser S, Prinzensteiner M, Klemm P, Mykytiuk V, Widdershooven PJM, Vesting AJ, Grzelka K, Minere M, Cremer AL, Xu J, Korotkova T, Lowell BB, Zeilhofer HU, Backes H, Fenselau H, Wunderlich FT, Kloppenburg P, Bruning JC2020NeuronNeuroscienceHALO
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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 R2020HepatologyOncologyHALO
Omental macrophages secrete chemokine ligands that promote ovarian cancer colonization of the omentum via CCR1Krishnan V, Tallapragada S, Schaar B, Kamat K, Chanana AM, Zhang Y, Patel S, Parkash V, Rinker-Schaeffer C, Folkins AK, Rankin EB, Dorigo O2020Communications BiologyOncologyHALO
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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
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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
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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
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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
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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
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 ImagingImmunologyHALO
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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–eIF2α 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 α and β 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, Bléry 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-κB 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
TGFβ 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 α-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 α-synuclein strains in α-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 α-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 β-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 α-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 α 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
TGFβ 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 5α-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-β 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 α-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 β-hydroxybutyrate on the growth, metabolism and global histone H3 acetylation of spontaneous mouse mammary tumours: evidence of a β-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-AβPPswe 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 β-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
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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
SeqStain is an efficient method for multiplexed, spatialomic profiling of human and murine tissuesRajagopalan A, Venkatesh I, Aslam R, Kirchenbuechler D, Khanna S, Cimbaluk D, Kordower JH, Gupta V2021Cell Reports MethodsHALO
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 β 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