Indica
Backed by cutting edge technology, an uncompromising focus on ease-of-use and dedicated customer service, Indica Labs’ software and services are being used to make vital discoveries in pathology labs and research organizations around the world.

Cytonuclear IHC

Cytonuclear IHC

 

Product Overview

The Cytonuclear IHC module measures cell-by-cell IHC positivity for single or multi stain applications. Each cell is measured for cytoplasmic or nuclear positivity of every individual stain as well as the colocalization of different marker combinations. Positive cells are binned and assigned an intensity score (0, 1+, 2+, and 3+) based on stain optical density. The module also reports a variety of other metrics relating to cell/nuclear size and stain intensity. Optionally, the tool can output the complete table of cell data including individual cell sizes and optical density measurements for each stain in each cellular compartment. This module has the option to define specific cell phenotypes according to marker positivity, allowing users to define and count specific cell populations based off of defined positivity and negativity rules.

In the first example shown above, the module is configured to output an intensity markup for a single IHC marker (DAB). Cells below the positivity threshold for the DAB marker are blue and cells above the positivity threshold are scoring according to optical density thresholds set in the module, weak positive (1+) in yellow, moderate positive (2+) in orange and strong positive (3+) in red.

In the second example, the module is used to analyze a dual-stain IHC and a co-expression mark-up is generated. Cells positive for the red cytoplasmic marker only are red, cells positive for the brown cytoplasmic marker are green and dual positive cells are cyan.

The Cytonuclear IHC module integrates seamlessly into the HALO® platform which is compatible with a number of third party systems and  file formats.

Contact info@indicalab.com for product demonstration and pricing information or upload some images for a free trial.

Cytonuclear IHC

The Cytonuclear IHC module measures cell-by-cell IHC positivity for single or multi stain applications. Each cell is measured for cytoplasmic or nuclear positivity of every individual stain as well as the colocalization of different marker combinations. Positive cells are binned and assigned an intensity score (0, 1+, 2+, and 3+) based on stain optical density. The module also reports a variety of other metrics relating to cell/nuclear size and stain intensity. Optionally, the tool can output the complete table of cell data including individual cell sizes and optical density measurements for each stain in each cellular compartment. This module has the option to define specific cell phenotypes according to marker positivity, allowing users to define and count specific cell populations based off of defined positivity and negativity rules.

In the first example shown above, the module is configured to output an intensity markup for a single IHC marker (DAB). Cells below the positivity threshold for the DAB marker are blue and cells above the positivity threshold are scoring according to optical density thresholds set in the module, weak positive (1+) in yellow, moderate positive (2+) in orange and strong positive (3+) in red.

In the second example, the module is used to analyze a dual-stain IHC and a co-expression mark-up is generated. Cells positive for the red cytoplasmic marker only are red, cells positive for the brown cytoplasmic marker are green and dual positive cells are cyan.

Here are a few publications that cite use of the Cytonuclear IHC or FL modules.  Your publication not on the list?  Drop us an email to let us know about it!

 

TitleAuthorsYearJournalApplicationHALO Modules
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, Cytonuclear
Safety and clinical activity of PD-L1 blockade in patients with aggressive recurrent respiratory papillomatosis Allen CT, Lee S, Norberg SM, Kovalovsky D, Ye H, Clavijo PE, Hu-Lieskovan S, Schlegel R, Schlom J, Strauss J, Gulley JL, Trepel J, Hinrichs CS2019Journal for ImmunoTherapy of CancerOncology, Immuno-oncologyCytonuclear
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, Cytonuclear
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, Cytonuclear
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-oncologyCytonuclear
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, MetabolismCytonuclear
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 GeneticsMetabolismCytonuclear
Marked expansion of exocrine and endocrine pancreas with incretin therapy in humans with increased exocrine pancreas dysplasia and potential for glucagon-producing neuroendocrine tumors Butler AE, Campbell-Thompson M, Gurlo T, Dawson DW, Atkinson M, Butler PC2013DiabetesOncology, MetabolismCytonuclear
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 NES2016NatureMetabolismCytonuclear
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 E2020NatureImmunologyCytonuclear
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, Cytonuclear
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 ReportsOncologyCytonuclear
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, Cytonuclear
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 & MetabolismMetabolismCytonuclear
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, Cytonuclear
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, Cytonuclear
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 CancerOncologyCytonuclear
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, Cytonuclear
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, Cytonuclear
Islet-1 is essential for pancreatic β-cell functionEdiger BN, Du A, Liu J, Hunter CS, Walp ER, Schug J, Kaestner KH, Stein R, Stoffers DA, May CL2014DiabetesMetabolismCytonuclear
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-oncologyCytonuclear, Object Colocalization
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, TMA
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-oncologyCytonuclear
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 HealingCytonuclear
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-oncologyCytonuclear
Characterization of the exocrine pancreas in the male Zucker diabetic fatty rat model of type 2 diabetes mellitus following 3 months of treatment with sitagliptin Forest T, Holder D, Smith A, Cunningham C, Yao X, Dey M, Frederick C, Prahalada S2014EndocrinologyMetabolismCytonuclear
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 CancerOncologyClassifier, Cytonuclear
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 FM2021bioRxivImmunologyCytonuclear
The PDE10A inhibitor MP-10 and haloperidol produce distinct gene expression profiles in the striatum and influence cataleptic behavior in rodents Gentzel RC, Toolan D, Roberts R, Koser AJ, Kandebo M, Hershey J, Renger JJ, Uslaner J, Smith SM2015NeuropharmacologyNeuroscienceCytonuclear
Intravital imaging reveals systemic ezrin inhibition impedes cancer cell migration and lymph node metastasis in breast cancer Ghaffari A, Hoskin V, Turashvili G, Varma S, Mewburn J, Mullins G, Greer PA, Kiefer F, Day AG, Madarnas Y, SenGupta S, Elliott BE2019Breast Cancer ResearchOncologyClassifier, Cytonuclear
Modulation of Microglia by Voluntary Exercise or CSF1R Inhibition Prevents Age-Related Loss of Functional Motor UnitsGiorgetti E, Panesar M, Zhang Y, Joller S, Ronco M, Obrecht M, Lambert C, Accart N, Beckmann N, Doelemeyer A, Perrot L, Fruh I, Mueller M, Pierrel E, Summermatter S, Bidinosti M, Shimshek DR, Brachat S, Nash M2019Cell ReportsNeuroscienceClassifier, Cytonuclear
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 JJ2018OncotargetOncologyClassifier, Area Quantification, Cytonuclear
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-oncologyArea Quantification, Cytonuclear
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 HematologyOncologyCytonuclear
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 ResearchOncologyClassifier, Cytonuclear
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 HepatologyImmunology, GastroenterologyCytonuclear
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, FibrosisCytonuclear
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, Immune
Highly Fermentable Fiber Alters Fecal Microbiota and Mitigates Swine Dysentery Induced by Brachyspira hyodysenteriaeHelm ET, Gabler NK, Burrough ER2021AnimalsInfectious DiseaseCytonuclear
LLRRK2 inhibition does not impart protection from α-synuclein pathology and neuron death in non-transgenic miceHenderson MX, Sengupta M, McGeary I, Zhang B, Olufemi MF, Brown H, Trojanowski JQ, Lee VMY2019Acta Neuropathologica CommunicationsNeuroscienceArea Quantification, Cytonuclear
Attenuation of diet-induced hypotalamic inflammation following bariatric surgery in female mice Herrick MK, Favela KM, Simerly RB, Abumrad NN, Bingham NC2018Molecular MedicineImmunology, NeuroscienceCytonuclear
Tumor Characteristics Associated with Benefit from Pembrolizumab in Advanced Non-Small Cell Lung Cancer Hu-Lieskovan S, Lisberg A, Zaretsky JM, Grogan TR, Rizvi H, Wells DK, Carroll J, Cummings A, Madrigal J, Jones B, Gukasyan J, Shintaku IP, Slamon D, Dubinett S, Goldman JW, Elashoff D, Hellmann MD, Ribas A, Garon EB2019Clinical Cancer ResearchImmuno-oncologyCytonuclear
Ovarian Tumor Microenvironment Signaling: Convergence on the Rac1 GTPaseHudson LG, Gillette JM, Kang H, Rivera MR, Wandinger-Ness A2018CancersReviewClassifier, Cytonuclear, Figure Maker
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, Cytonuclear
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 DiseaseCytonuclear
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 ChemistryNeuroscienceArea Quantification, Cytonuclear
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 ReportsOncologyCytonuclear
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 CancerOncologyCytonuclear
Vascular endothelial ERp72 is involved in the inflammatory response in a rat model of skeletal muscle injuryKhalaf NB, Al-Mehatab D, Fathallah DM2021Medicine ReportsImmunologyCytonuclear
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 MetabolismMetabolismCytonuclear
Alterations of the MEK/ERK, BMP, and Wnt/β-catenin pathways detected in the blood of individuals with lymphatic malformations Kim T, Tafoya E, Chelliah MP, Lekwuttikarn R, Li J, Sarin KY, Teng J2019PLOS OneOtherCytonuclear
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 SciencesMetabolismCytonuclear
Phenotyping of tumor-associated macrophages in colorectal cancer: impact on single cell invasion (tumor budding) and clinicopathological outcome Koelzer VH, Canonica K, Dawson H, Sokol L, Karamitopoulou-Diamantis E, Lugli A, Zlobec I2015OncoImmunologyOncology, Immuno-oncology, GastroenterologyCytonuclear
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 A2017OncoImmunologyOncologyCytonuclear
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 TreatmentOncologyClassifier, Cytonuclear
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, Cytonuclear
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, Cytonuclear
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 ArchivOncologyClassifier, Cytonuclear
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, MetabolismClassifier, Cytonuclear
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 CancerOncologyCytonuclear
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, Cytonuclear
Alzheimer Disease Pathology-Associated Polymorphism in a Complex Variable Number of Tandem Repeat Region Within the MUC6 Gene, Near the AP2A2 GeneKatsumata Y, Fardo DW, Bachstetter AD, Artiushin SC, Wang W-X, Wei A, Brzezinski LJ, Nelson BG, Huang Q, Abner EL, Anderson S, Patel I, Shaw BC, Price DA, Niedowicz DM, Wilcock DW, Jicha GA, Neltner JH, Van Eldik LJ, Estus S, Nelson PT2019Journal of Neuropathology & Experimental NeurologyNeuroscienceArea Quantification, Cytonuclear
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 C2016NeoplasiaOncologyCytonuclear
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 ReportsOncologyClassifier, Cytonuclear
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, MetabolismCytonuclear
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 NeuopathologicaNeuroscienceArea Quantification, Cytonuclear
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 KH2017NatureOncologyCytonuclear
Ex vivo tissue slice culture system to measure drug-response rates of hepatic metastatic colorectal cancerMartin SZ, Wagner DC, Hörner N, Horst D, Lang H, Tagscherer KE, Roth W2019BMC CancerOncologyClassifier, Cytonuclear
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, Cytonuclear
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 MedicineOncologyCytonuclear
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-oncologyCytonuclear
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 OneMetabolismCytonuclear
A Dual Blocker of Endothelin A/B Receptors Mitigates Hypertension but not Renal Dysfunction in a Rat Model of Chronic Kidney Disease and Sleep Apnea Morales-Loredo H, Jones DT, Barrera A, Mendiola P, Garcia J, Pace CE, Murphy M, Kanagy NL, Gonzalez Bosc LV2019Renal PathologyMetabolismClassifier, Cytonuclear, Figure Maker
Tasquinimod modulates tumor-infiltrating myeloid cells and improves the antitumor immune response to PD-L1 blockade in bladder cancer Nakhlé J, Pierron V, Bauchet A-L, Plas P, Thiongane A, Meyer-Losic F, Schmidlin F2016OncoImmunologyOncology, Immuno-oncologyCytonuclear
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 OneNeuroscienceCytonuclear
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-oncologyCytonuclear, Multiplex IHC
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Upper tract urothelial carcinoma has a luminal-papillary T-cell depleted contexture and activated FGFR3 signaling Robinson BD, Vlachostergios PJ, Bhinder B, Liu W, Li K, Moss TJ, Bareja R, Park K, Tavassoli P, Cyrta J, Tagawa ST, Nanus DM, Beltran H, Molina AM, Khani F, Miguel Mosquera J, Xylinas E, Shariat SF, Scherr DS, Rubin MA, Lerner SP, Matin SF, Elemento O, Faltas BM2019Nature CommunicationsOncology, Immuno-oncologyCytonuclear
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, Cytonuclear
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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 NeuroscienceNeuroscienceCytonuclear
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IL‐36 receptor antagonistic antibodies inhibit inflammatory responses in preclinical models of psoriasiform dermatitis Su Z, Paulsboe S, Wetter J, Salte K, Kannan A, Mathew S, Horowitz A, Gerstein C, Namovic M, Todorović V, Seagal J, Edelmayer RM, Viner M, Rinaldi L, Zhou L, Leys L, Huang S, Wang L, Sadhukhan R, Honore P, McGaraughty S, Scott VE2019Experimental DermatologyDermatologyArea Quantification, Cytonuclear
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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, MetabolismCytonuclear
PD-1 blockade induces responses by inhibiting adaptive immune resistance Tumeh PC, Harview CL, Yearley JH, Shintaku IP, Taylor EJM, Robert L, Chmielowski B, Spasic M, Henry G, Ciobanu V, West AN, Carmona M, Kivork C, Seja E, Cherry G, Gutierrez A, Grogan TR, Mateus C, Tomasic G, Glaspy JA, Emerson RO, Robins H, Pierce RH, Elas2014NatureOncology, Immuno-oncologyCytonuclear
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IL‐1α cleavage by inflammatory caspases of the noncanonical inflammasome controls the senescence‐associated secretory phenotype Wiggins KA, Parry AJ, Cassidy LD, Humphry M, Webster SJ, Goodall JC, Narita M, Clarke MCH2019Aging CellImmunologyCytonuclear
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Rabbit monoclonal E‐cadherin antibody: A cost‐effective alternative to mouse monoclonal antibody in distinguishing ductal carcinoma in situ from lobular carcinoma in situ Baum JE, Croyle JA, Brodsky VB, Liu Y, Shin SJ2019The Breast JournalOncologyCytonuclear
MAPKAPK2 (MK2) inhibition mediates radiation-induced inflammatory cytokine production and tumor growth in head and neck squamous cell carcinomaBerggren KL, Cruz SR, Hixon MD, Cowan AT, Keysar SB, Craig S, James J, Barry M, Ozbun MA, Jimeno A, McCance DJ, Beswick EJ, Gan GN2019OncogeneOncologyCytonuclear
Genetic mutations underlying phenotypic plasticity in basosquamous carcinoma Chiang A, Tan CZ, Kuonen F, Hodgkinson LM, Chiang F, Cho RJ, South AP, Tang Jean Y, Chang ALS, Rieger KE, Oro AE, Sarin KY2019Journal of Investigative DermatologyOncologyCytonuclear
The crosstalk between aldosterone and calcium metabolism in primary aldosteronism: A possible calcium metabolism-associated aberrant “neoplastic” steroidogenesis in adrenals Gao X, Yamazaki Y, Tezuka Y, Onodera Y, Ogata H, Omata K, Morimoto R, Nakamura Y, Satoh F, Sasano H2019The Journal of Steroid Biochemistry and Molecular BiologyOncology, MetabolismCytonuclear
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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 CommunicationsArea Quantification, Cytonuclear
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Development of resistance to FAK inhibition in pancreatic cancer is linked to stromal depletion Jiang H, Liu X, Knolhoff BL, Hegde S, Lee KB, Jiang H, Fields RC, Pachter JA, Lim K-H, DeNardo DG2019GutOncologyCytonuclear, ISH/FISH
The diagnostic and prognostic value of UBE2T in intrahepatic cholangiocarcinomaYu H, Wang H, Dong W, Cao Z-Y, Li R, Yang C, Cong W-M, Dong H, Jin G-Z2020Peer JOncologyCytonuclear
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 Maker
Hotspot enumeration of CD8+ tumor infiltrating lymphocyte using digital image analysis in triple negative breast Cancer yields consistent resultsMcIntire PJ, Zhong E, Patel A, Khani F, D'Alfonso T, Chen Z, Shin SJ, Ginter PS2019Human PathologyOncologyCytonuclear
Female-biased embryonic death from inflammation induced by genomic instability McNairn AJ, Chuang C-H, Bloom JC, Wallace MD, Schimenti JC2019NatureImmunologyCytonuclear
Mutations Associated with Acquired Resistance to PD-1 Blockade in Melanoma Zaretsky JM, Garcia-Diaz A, Shin DS, Escuin-Ordinas H, Hugo W, Hu-Lieskovan S, Torrejon DY, Abril-Rodriguez G, Sandoval S, Barthly L, Saco J, Homet Moreno BH, Mezzadra R, Chmielowski B, Ruchalski K, Shintaku IP, Sanchez PJ, Puig-Saus C, Cherry G, Seja E, Kong X, Pang J, Berent-Maoz B, Comin-Anduix B, Graeber TG, Tumeh PC, Schumacher TNM, Lo RS, Ribas A2016The New England Journal of MedicineOncology, Immuno-oncologyCytonuclear
Imaging CAR T cell therapy with PSMA-targeted positron emission tomography Minn I, Huss DJ, Ahn H-H, Chinn TM, Park A, Jones J, Brummet M, Rowe SP, Sysa-Shah P, Du Y, Levitsky HI, Pomper MG2019Science AdvancesOncologyCytonuclear
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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-oncologyCytonuclear
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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 MB2018The FASEB JournalMetabolismCytonuclear
Monomeric/dimeric forms of Fgf15/FGF19 show differential activity in hepatocyte proliferation and metabolic functionWilliams CM, Calderon JH, Hock E, Jimenez Y, Barringer K, Carbonaro M, Molina-Portela MP, Thurston G, Li Z, Daly C2021The FASEB JournalMetabolismCytonuclear
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In vivo endothelialization and neointimal hyperplasia assessment after rabbit carotid endarterectomy with bovine pericardiumChen Y, Feng Y, Wang T, Zhang X, Zhang M, Bai X, Li L, Yang K, Ma Y, Zhang Z, Jiao L2021Annals of Translational MedicineMyologyCytonuclear
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Repeated porphyrin lipoprotein-based photodynamic therapy controls distant disease in mouse mesothelioma via the abscopal effectLou J, Aragaki M, Bernards N, Kinoshita T, Mo J Motooka Y, Ishiwata T, Gregor A, Chee T, Chen Z, Chen J, Kaga K, Wakasa S, Zheng G, Yasufuku K2021NanophotonicsOncologyCytonuclear
Mobilization of CD8+ T cells via CXCR4 blockade facilitates PD-1 checkpoint therapy in human pancreatic cancerSeo YD, Jiang X, Sullivan KM, Jalikis FG, Smythe KS, Abbasi A, Vignali M, Park JO, Daniel SK, Pollack SM, Kim TS, Yeung R, Crispe IN, Pierce RH, Robins H, Pillarisetty VG2019Clinical Cancer ResearchImmuno-oncologyCytonuclear
Temporal Analysis of Amylase Expression in Control, Autoantibody Positive, and Type 1 Diabetes Pancreatic TissuesKusmartseva I, Beery M, Hiller H, Padilla M, Selman S, Posgai A, Nick HS, Campbell-Thompson M, Schatz DA, Haller MJ, Wasserfall CH, Atkinson MA2019DiabetesMetabolismCytonuclear
Prognostic features of the tumour microenvironment in oesophageal adenocarcinomaMcShane R, Arya S, Stewart A, Caie P, Bates M2021Biochimica et Biophysica Acta (BBA) - Reviews on CancerImmuno-oncology, ReviewCytonuclear
Mammalian Retinal Cell QuantificationMuthuswamy A, Chen H, Hu Y, Turner OC, Aina OH2020Toxicologic PathologyOtherCytonuclear
Phosphorylation of connexin 43 at MAPK, PKC or CK1 sites each distinctly alter the kinetics of epidermal wound repairLastwika JK, Dunn CA, Solan JL, Lampe PD2019Journal of Cell ScienceDermatologyCytonuclear
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 ImagingImmunologyCytonuclear
High CD8+ tumour infiltrating lymphocyte density associates with unfavourable prognosis in oesophageal adenocarcinoma following poor response to neo?adjuvant chemoradiotherapyKoemans WJ, van Dieren JM, van den Berg J, Meijer G, Snaebjornsson P, Chalabi M, Lecot F, Riedl R, Krijgsman O, Hofland I, Broeks A, Voncken FEM, Peppelenbosch MP, Sosef MN, van Sandick JW, Kodach LL2021HistopathologyImmuno-oncologyCytonuclear
Ki-67 Proliferation Index Assessment in Gastroenteropancreatic Neuroendocrine Tumors by Digital Image Analysis With Stringent Case and Hotspot Level Concordance RequirementsBoukhar SA, Gosse MD, Bellizzi AM, Rajan A2021American Journal of Clinical PathologyOncologyCytonuclear
Simultaneous targeting of TGF-b/PD-L1 synergizes with radiotherapy by reprogramming the tumor microenvironment to overcome immune evasionLan Y, Moustaga M, Knoll M, Xu C, Furkel J, Lazorchak A, Yeung T, Hasheminasab S, Jenkins M, Meister S, Yu H, Schlegel J, Marelli B, Tang Z, Qin G, Klein C, Qi J, Zhou C, Locke G, Krunic D, Derner M, Schwager C, Fontana R, Kriegsmann K, Jiang F, Rein K, Kriegsmann M, Debus J, Lo K, Abdollahi A2021Cancer CellOncologyCytonuclear
IL-1-driven stromal–neutrophil interactions define a subset of patients with inflammatory bowel disease that does not respond to therapiesFriedrich M, Pohin M, Jackson M, Korsunsky I, Bullers S, Rue-Albrecht K, Christoforidou Z, Sathananthan D, Thomas T, Ravindran R, Tandon R, Peres R, Sharpe H, Wei K, Watts G, Mann E, Geremia A, Attar M, Oxford IBD Cohort Investigators, Roche Fibroblast Network Consortium, McCuaig S, Thomas L, Collantes E, Uhlig H, Sansom S, Easton A, Raychaudhuri S, Travis S, Powrie F2021Nature MedicineGastroenterologyCytonuclear
Pilot study of Tremelimumab with and without cryoablation in patients with metastatic renal cell carcinomaCampbell M, Matin S, Tam A, Sheth R, Ahrar K, Tidwell R, Rao P, Karam J, Wood C, Tannir N, Jonasch E, Gao J, Zurita A, Shah A, Jindal S, Duan F, Basu S, Chen H, Espejo A, Allison J, Yadav S, Sharma P2021Nature CommunicationsOncologyCytonuclear
Small molecule inhibitors of ?-synuclein oligomers identified by targeting early dopamine-mediated motor impairment in C. elegansChen K, Menezes K, Rodgers J, )'Hara D, Tran N, Fujisawa K, Ishikura S, Khodaei S, Chau H, Cranston A, Kapadia M, Pawar G, Ping S, Krizus A, Lacoste A, Spangler S, Visanji N, Marras C, Majbour N, El-Agnaf O, Lozano A, Culotti, Suo S, Ryu W, Kalia S, Kalia L2021Molecular NeurodegenerationNeuroscienceCytonuclear
Deleting DNMT3A in CAR T cells prevents exhaustion and enhances antitumor activityPrinzing B, Zebley C, Petersen C, Fan Y, Anido A, Yi Z, Nguyen P, Houke H, Bell M, Haydar D, Brown C, Boi S, Alli S, Crawford J, Riberdy J, Park J, Zhou S, Velasquez M, DeRenzo C, Lazzarotto C, Tsai S, Vogel P, Pruett-Miller S, Langfitt D, Gottschalk S, Youngblood B, Krenciute G2021Science Translational MedicineImmuno-oncologyCytonuclear
A single cell atlas reveals distinct immune landscapes in transplant and primary tumors that determine response or resistance to immunotherapyWisdom AJ, Mowery YM, Hong CS, Qin X, Zhang D, Himes JE, Chen L, Fradin H, Muise ES, Xu ES, Carpenter DJ, Kent CL, Smythe KS, Williams N, Luo L, Ma Y, Owzar K, Bradley T, Kirsch DG2020Nature CommunicationsOncology, Immuno-oncologyCytonuclear
Integrated human pseudoislet system and microfluidic platform demonstrate differences in GPCR signaling in islet cellsWalker JT, Haliyur R, Nelson HA, Ishahak M, Poffenberger G, Aramandla R, Reihsmann C, Luchsinger JR, Saunders DC, Wang P, Garcia-Ocana A, Bottino R, Agarwal A, Powers AC, Brissove M2019bioRxivGastroenterologyCytonuclear
Temporospatial Development of Neuropathologic Findings in a Canine Model of Mucopolysaccharidosis IIIBHarm TA, Hostetter SJ, Nenninger AS, Valentine BN, Ellinwood NM, Smith JD2020Veterinary PathologyImmunology, NeruoscienceArea Quantification, Cytonuclear
Tumor Platinum Concentrations and Pathological Responses Following Cisplatin-Containing Chemotherapy in Gastric Cancer Patients Cao Y, Chang Q, Cabanero M, Zhang W, Hafezi-Bakhtiari S, Hedley D, Darling G, Quereshy F, Jang R, Elimova E, Knox J, Ornatsky O, Serra S, Chen E2019Journal of Gastrointestinal CancerOncologyArea Quantification, Cytonuclear
Transcriptomic Analysis of Healthy and Atopic Dermatitis Samples Reveals the Role of IL-37 in Human SkinZhou J, Gemperline D, Turner M, Oldach J, Molignano J, Sims J, Stayrook K2021ImmunoHorizonsDermatologyArea Quantification, Cytonuclear
Interleukin-33 activates group 2 innate lymphoid cell expansion and modulates endometriosisMiller J, Lingegowda H, Symons L, Bougie O, Young S, Lessey B, Koti M, Tayade C2021JCI InsightOtherArea Quantification, Cytonuclear
FK506-binding protein 13 expression is upregulated in interstitial lung disease and correlated with clinical severity: a potentially protective roleTat V, Ayaub EA, Ayoub A, Vierhout M, Naiel S, Padwal MK, Abed S, Mekhael O, Tandon K, Revill SD, Yousof T, Bellaye PS, Kolb PS, Dvorkin-Gheva A, Naqvi A, Cutz JC , Hambly N, Kato J, Vaughan M, Moss J, Kolb MRJ, Ask K2019American Journal of Respiratory Cell and Molecular BiologyImmunology, FibrosisArea Quantification, Cytonuclear
A minimal standardized human bone marrow microphysiological system to assess resident cell behavior during normal and pathological processesVoeltzel T, Fossard G, Degaud M, Geistlich K, Gadot N, Jeanpierre S, Mikaelian I, Brevet M, Anginot A, Le Bousse-Kerdiles M, Trichet V, Lefort S, Maguer-Satta V2021Biomaterials ScienceBiomaterialsArea Quantification, Cytonuclear
HIV-1-induced cytokines deplete homeostatic innate lymphoid cells and expand TCF7-dependent memory NK cellsWang Y, Lifschitz L, Gellatly K, Vinton CL, Busman-Sahay K, McCauley S, Vangala P, Kim K, Derr, Jaiswall S, Kucukural A, McDonel P, Hunt PW, Greenough T, Houghton J, Somsouk M, Estes JD, Brenchley JM, Garber M, Deeks SG, Luban J
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Suppression of insulin-induced gene 1 (INSIG1) function promotes hepatic lipid remodelling and restrains NASH progressionAzzu V, Vacca M, Kamzolas I, Hall Z, Leslie J, Carobbio S, Virtue S, Davies S, Lukasik A, Dale M, Bohlooly-Y M, Acharjee A, Linden D, Bidault G, Petsalaki E, Griffin J, Oakley F, Allison M, Vidal-Puig2021Molecular MetabolismMetabolismArea Quantification, Cytonuclear, Multiplex IHC
Inter-organ transmission of hepatocellular senescence induces multi-organ dysfunction through the TGF? signalling pathwayKiourtis C, Terradas-Terradas M, Gee L, Hsieh Y, Nixon C, Clark W, Shaw R, Hanson P, Sumpton D, Mackay G, May S, Muller M, Najumudeen A, Campbell A, Barry S, Morris C, LeBeau F, Sansom O, Kirschner K, Oakley F, Bird T2021Research SquareOtherArea Quantification, Cytonuclear, Multiplex IHC
Naproxen chemoprevention promotes immune activation in Lynch syndrome colorectal mucosaReyes-Uribe L, Wu Wenhui, Gelincik O, Bommi P, Francisco-Cruz A, Solis L, Lynch P, Lim R, Stoffel E, Kanth P, Samadder N, Mork M, Taggart M, Milne G, Marnett L, Vornik L, Liu D, Revuelta M, Chang K, You Y, Kipelovich L, Wistuba I, Lee J, Sei S, Shoemaker R, Szabo E, Richmond E, Umar A, Perloff M, Brown P, Lipkin S, Vilar E2020The BMJOncology, GastroenterologyClassifier, Cytonuclear
Quantitative digital image analysis of tumor-infiltrating lymphocytes in HER2-positive breast cancer Abe N, Matsumoto H, Takamatsu R, Tamaki K, Takigami N, Uehara K, Kamada Y, Tamaki N, Motonari T, Unesoko M, Nakada N, Zaha N, Zaha H, Yoshimi N2019Vichows ArchivOncologyClassifier, Cytonuclear
SLFN11 captures cancer-immunity interactions associated with platinum sensitivity in high-grade serous ovarian cancerWinkler C, King M, Berthe J, Ferraioli D, Garuti A, Grillo F, Rodriguez-Canales J, Ferrando L, Chopin N, Ray-Coquard I, Delpuech O, Bedognetti D, Ballestrero A, Leo E, Zoppoli G2021JCI InsightOncologyClassifier, Cytonuclear
AG-205 Upregulates Enzymes Involved in Cholesterol Biosynthesis and Steroidogenesis in Human Endometrial Cells Independently of PGRMC1 and Related MAPR ProteinsThieffry C, Van Wynendaele M, Aynaci A, Maja M, Dupuis C, Loriot A, Marbaix E, Henriet P2021BiomoleculesOtherCytonuclear, Highplex FL
An endogenous opioid circuit determines state-dependent appetitive behaviorCastro D, Oswell C, Zhang E, Pedersen C, Piantadosi S, Rossi M, Hunker A, Guglin A, Moron J, Zweifel L, Stuber G, Bruchas M2021bioRxivNeuroscienceCytonuclear, Highplex FL
Maternal platelets pass interstices of trophoblast columns and are not activated by HLA-G in early human pregnancyGuettler J, Forstner D, Cvirn G, Maninger S, Brugger B Nonn O, Kupper N, Pritz E, Wernitznig S, Dohr G, Hutter H, Juch H, Isermann B, Kohli S, Gauster M2021Journal of Reproductive ImmunologyOtherCytonuclear, Highplex FL
Structure of the helicase core of Werner helicase, a key target in microsatellite instability cancersNewman J, Gavard A, Lieb S, Ravichandran M, Hauer K, Werni P, Geist L, Bottcher J, Engen J, Rumpel K, Samwer M, Petronczki, Gileadi O2021Life Science AllianceOncologyCytonuclear, Highplex FL
MNK inhibition sensitizes KRAS-mutant colorectal cancer to mTORC1 inhibition by reducing eIF4E phosphorylation and c-MYC expressionKnight J, Alexandrou C, Skalka G, Vlahov N, Pennel K, Officer L, Teodosio A, Kanellos G, Gay D, May-Wilson S, Smith E, Najumudeen A, Gilroy K, Ridgway R, Flanagan D, Smith R, McDonald L, MacKay C, Cheasty A, McArthur K, Stanway E, Leach J, Jackstadt R, Waldron J, Campbell A, Vlachogiannis G, Valeri N, Haigis K, Sonenberg N, Proud C, Jones N, Swarbrick M, McKinnon H, Faller W, LeQuense J, Edwards J, Willis A, Bushell M, Sansom O2021Cancer DiscoveryOncologyCytonuclear, Highplex FL
CD98-induced CD147 signaling stabilizes the Foxp3 protein to maintain tissue homeostasisGeng J, Chen R, Yang F, Lin P, Zhu Y, Fu X, Wang K, Feng Z, Wu J, Zhang H, Li Q, Chen Z, Zhu P2021Cellular and Molecular ImmunologyImmuno-oncologyCytonuclear, Highplex FL
EHF is essential for epidermal and colonic epithelial homeostasis and suppresses Apc-initiated colonic tumorigenesisReehorst C, Nightingale R, Luk I, Jenkins L, Koentgen F, Williams D, Darido C, Tan F, Anderton H, Chopin M, Schoffer K, Eissmann M, Buchert M, Mouradov D, Sieber O, Ernst M, Dhillon A, Maridason J2021DevelopmentOncologyCytonuclear, Highplex FL
Antiretroviral therapy timing impacts latent tuberculosis infection reactivation in a tuberculosis/simian immunodeficiency virus coinfection modelSharan R, Ganatra S, Bucsan A, Cole J, Singh D, Alvarez X, Gough M, Alvarez C, Blakley A, Ferdin J, Thippeshappa R, Singh B, Escobedo R, Shivanna V, Dick E, Hall-Ursone S, Khader S, Mehra S, Rengarajan J, Kaushal D2021The Journal of Clinical InvestigationInfectious DiseaseCytonuclear, Highplex FL
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 DiseaseCytonuclear, ISH/FISH
Three subtypes of lung cancer fibroblasts definedistinct therapeutic paradigmsHu H, Peotrowska Z, Hare P, Chen H, Mulvey H, Mayfield A, Noeen S, Kattermann K, Greenberg M, Williams A, Riley A, Wilson J, Mao Y, Huang R, Banwait M, Ho J, Crowther G, Hariri L, Sequist L, Benes C, Niederst M, Engelman J2021Cancer CellOncologyCytonuclear, ISH/FISH
p53-mediated redox control promotes liver regeneration and maintains liver function in response to CCl4Humpton T, Hall H, Kiourtis C, Nixon C, Clark W, Hedley A, Shaw R, Bird T, Blyth K, Vousden K2021Cell Death & DifferentiationMetabolismCytonuclear, Multiplex IHC
Combined CTLA-4 and PD-L1 blockade in patients with chemotherapy-naïve metastatic castration-resistant prostate cancer is associated with increased myeloid and neutrophil immune subsets in the bone microenvironmentSubudhi S, Siddiqui B, Aparicio A, Yadav S, Basu S, Chen H, Jindal S, Tidwell R, Varma A, Logothetis C, Allison J, Corn P, Sharma P2021Journal for ImmunoTherapy of CancerImmuno-oncologyCytonuclear, Multiplex IHC
Development of a novel humanized mouse model for improved evaluation of in vivo anti-cancer effects of anti-PD-1 antibodyKatano I, Hanazawa A, Otsuka I, Yamaguchi T, Mochizuki M, Kawai K, Ito R, Goto M, Kagawa T, Takahashi T2021Scientific ReportsOncologyCytonuclear, Multiplex IHC
A comparability study of natural and deglycosylated PD-L1 levels in lung cancer: evidence from immunohistochemical analysisMei J, Xu J, Yang X, Gu D, Zhou W, Wang H, Liu C2021Molecular CancerOncologyCytonuclear, Multiplex IHC
A faithful in vivo model of human macrophages in metastatic melanomaVoillet V, Berger T, McKenna K, Paulson K, Smythe K, Hunter D, Valente W, Weaver S, Campbell J, Kim T, Byrd D, Bielas J, Pierce R, Chapuis A, Gottardo R, Rongvaux2021bioRxivCytonuclear, Multiplex IHC
E3 ligase-inactivation rewires CBL interactome to elicit oncogenesis by hijacking RTK–CBL–CIN85 axisAhmed S, Buetow L, Gabrielsen M, Lilla S, Sibbet G, Sumpton D, Zanivan S, Hedley A, Clark W, Huang D2021OncogeneOncologyCytonuclear, Multiplex IHC
CYRI-A limits invasive migration through macropinosome formation and integrin uptake regulationLe A, Yelland T, Paul N, Fort L, Nikolaou S, Ismail S, Machesky L2021Journal of Cell BiologyOtherCytonuclear, Multiplex IHC
In vitro amplification of pathogenic tau conserves disease-specific bioactive characteristicsXu H, O'Reilly M, Gibbons G, Changolkar L, McBride J, Riddle D, Zhang B, Stieber A, Nirschl J, Kim S, Hoxha K, Brunden K, Schellenberg G, Trojanowski J, Lee V2021Acta NeuropathologicaNeruoscienceCytonuclear, Multiplex IHC
CCNE1 amplification is synthetic-lethal with PKMYT1 kinase inhibitionGallo D, Young J, Fourtounis J, Martino G, Alvarez-Quilon A, Bernier C, Duffy N, Papp R, Roulston A, Stocco R, Szychowski J, Veloso A, Alam H, Baruah P, Fortin A, Bowlan J, Chaudhary N, Desjardins J, Dietrich E, Fournier S, Fugere-Desjardins C, de Rugy T, Leclaire M, Liu B, Melo H, Nicolas O, Singhania A, Szilard R, Tkac J, Yin S, Morris S, Zinda M, Marshall C, Duocher D2021bioRxivOtherCytonuclear, Multiplex IHC
Cancer immune therapy with PD-1-dependent CD137 co-stimulation provides localized tumour killing without systemic toxicityQiao Y, Qiu Y, Ding J, Luo N, Wang H, Ling X, Sun J, Wu Z, Wang Y, Liu Y, Guo F, Sun T, Shen W, Zhang M, Wu D, Chen B, Xu W, Wang X2021Nature CommunicationsImmuno-oncologyCytonuclear, Multiplex IHC
Pixelwise H-score: a novel digital image analysis-based metric to quantify membrane biomarker expression from immunohistochemistry imagesRam S, Vizcarra P, Whalen P, Deng S, Painter C, Jackson-Fisher A, Pirie-Shepherd S, Xia X, Powell E2021PLOS OneOtherCytonuclear, Multiplex IHC
LRPPRC regulates redox homeostasis via the circANKHD1/FOXM1 axis to enhance bladder urothelial carcinoma tumorigenesisWei W, Wang N, Deng M, Dong P, Liu J, Xiang Z, Li X, Li Z, Liu Z, Peng Y, Li Z, Jiang L, Yao K, Ye Y, Lu W, Zhang Z, Zhou F, Liu Z, Xie D, Yu C2021Redox BiologyMetabolismCytonuclear, Multiplex IHC
Hedgehog-signalling in papillary fibroblasts is essential for hair follicle regeneration during wound healingFrech S, Forsthuber A, Korosec A, Lipp K, Kozumov V, Lichtenberger B2021Journal of Investigative DermatologyDermatologyCytonuclear, Multiplex IHC
Evaluation of Early Markers of Ischemia-reperfusion Injury and Preservation Solutions in a Modified Hindlimb Model of Vascularized Composite AllotransplantationRostami S, Xu M, Datta S, Haykal S2022Transplantation DirectCytonuclear, Multiplex IHC
B7-1 and programmed cell death-ligand 1 in primary and lymph node metastasis lesions of non-small cell lung carcinomaYamada T, Miki Y, Suzuki M, Kondoh O, Saito-Koyama R, Ono K, Okada Y, Sasano H2021Cancer MedicineOncologyCytonuclear, Multiplex IHC
Discoidin Domain Receptor 1 (DDR1) is Necessary for Tissue Homeostasis in Pancreatic Injury and Pathogenesis of Pancreatic Ductal AdenocarcinomaRuggeri JM, Franco-Barraza J, Sohail A, Zhang Y, Long D, di Magliano MP, Cukierman E, Fridman R, Crawford HC2020The American Journal of PathologyOncology, ImmunologyCytonuclear, Multiplex IHC, Highplex FL
CD147 antibody specifically and effectively inhibits infection and cytokine storm of SARS-CoV-2 and its variants delta, alpha, beta, and gammaGeng J, Chen L, Yuan Y, Wang K, Wang Y, Qin C, Wu G, Chen R, Zhang Z, Wei D, Du P, Zhang J, Lin P, Zhang K, Deng Y, Xu K, Liu J, Sun X, Guo T, Yang X, Wu J, Jiang J, Li L, Zhang K, Wang Z, Zhang J, Yan Q, Zhu H, Zheng Z, Miao J, Fu X, Yang F, Chen X, Tang H, Zhang Y, Shi Y, Zhu Y, Pei Z, Huo F, Liang X, Wang Y, Wang Q, Xie W, Li Y, Shi M, Bian H, Zhu P, Chen Z2021Signal Transduction and Targeted TherapyInfectious DiseaseCytonuclear, Multiplex IHC, Highplex FL
Cross-linking of T cell to B cell lymphoma by the T cell bispecific antibody CD20-TCB induces IFN?/CXCL10-dependent peripheral T cell recruitment in humanized murine modelCremasco F, Menietti E, Speziale D, Sam J, Sammicheli S, Richard M, Varol A, Klein C, Umana P, Bacac M, Colombetti S, Perro M2021PLOS ONEOncologyCytonuclear, Multiplex IHC, Highplex FL
Epigenetic modifications precede molecular alterations and drive human hepatocarcinogenesisCzauderna C, Poplawski A, O'Roourke C, Castven D, Pérez-Aguilar B, Becker D, Heilmann-Heimbach S, Odenthal M, Amer W, Schmiel M, Drebber U, Binder H, Ridder D, Schindeldecker M, Straub B, Galle P, Andersen J, Thorgeirsson S, Park Y, Marquardt J2021JCI InsightOncologyCytonuclear, TMA
PLX3397 treatment inhibits constitutive CSF1R-induced oncogenic ERK signaling, reduces tumor growth, and metastatic burden in osteosarcomaSmeester BA, Slipek NJ, Pomeroy EJ, Laoharawee K, Osum SH, Larsson AT, Williams KB, Stratton N, Yamamoto K, Peterson JJ, Rathe SK, Mills LJ, Hudson WA, Crosby MR, Wang M, Rahramann EP, Moriarity SB, Largaespada DA2020BoneOncologyCytonuclear, TMA
Diagnostic and prognostic implications of a three-antibody molecular subtyping algorithm for non-muscle invasive bladder cancerJackson C, Chen L, Hardy C, Ren K, Visram K, Bratti V, Johnstone J, Sjödahl G, Siemens D, Gooding R, Berman D2021The Journal of Pathology: Clinical ResearchOncologyCytonuclear, TMA
Comprehensive clinicopathologic study of alpha fetoprotein-expression in a large cohort of patients with hepatocellular carcinomaRidder D, Weinmann A, Schindeldecker M, Urbansky L, Berndt K, Gerber T, Lang H, Lotz J, Lackner K, Roth W, Straub B2021International Journal of CancerOncologyCytonuclear, TMA
STING regulates peripheral nerve regeneration and colony stimulating factor 1 receptor (CSF1R) processing in microgliaMorozzi G, Rothen J, Toussaint G, De Lange K, Westritschnig K, Doelemeyer A, Ueberschlag V, Kahle P, Lambert C, Obrecht M, Beckmann N, Ritter V, Panesar M, Stauffer D, Garnier I, Mueller M, Guerini D, Keller C, Knehr J, Roma G, Bidinosti M, Brachat S, Morvan F, Forano M2021iScienceNeuroscienceCytonuclear, HALO AI
Tissue-resident FOLR2+ macrophages associate with tumor-infiltrating CD8+ T cells and with increased survival of breast cancer patientsRamos, R, Missolo-Koussou Y, Gerber-Ferder Y, Bromley C, Bugatti M, Nunez N, Tosello J, Richer W, Denizeau J, Sedlik C, Caudana P, Kotsias F, Niborski L, Viel S, Bohec M, Lameiras S, Baulande S, Lesage L, Nicolas A, Mesure D, Vincent-Salomon A, Reyal F, Dutertre C, Ginhoux F, Vimeux L, Donnadieu E, Buttard B, Galon J, Zelenay S, Vermi W, Guermonprez P, Piaggio E, Helft J2021bioRxivImmuno-oncologyCytonuclear, Highplex FL, TMA
The microglial P2Y6 receptor mediates neuronal loss and memory deficits in neurodegenerationPuigdellivol M, Milde S, Vilalta A, Cockram T, Allendorf D, Lee J, Dundee J, Pampuscenko K, Borutaite V, Nuthall H, Brelstaff J, Spillantini G, Brown G2021Cell ReportsNeuroscienceArea Quantification, Cytonuclear, Multiplex IHC
Cannabinoid control of gingival immune activation in chronically SIV-infected rhesus macaques involves modulation of the indoleamine-2,3-dioxygenase-1 pathway and salivary microbiomeMcDew-White M, Lee E, Alvarez X, Sestak K, Ling B, Byrareddy S, Okeoma C, Mohan M2022EBioMedicineInfectious DiseaseArea Quantification, Cytonuclear, Highplex FL
Tumor cell-derived exosomes deliver TIE2 protein to macrophages to promote angiogenesis in cervical cancerDu S, Qian J, Tan S, Li W, Liu P, Zhao J, Zeng Y, Xu L, Wang Z, Cai J2022Cancer LettersOncologyArea Quantification, Cytonuclear, Spatial Analysis, Highplex FL
e The Association of Cholesterol Uptake and Synthesis with Histology and Genotype in Cortisol-Producing Adenoma (CPA)Motomura N, Yamazaki Y, Koga D, Harashima S, Gao X, Tezuka Y, Omata K, Ono Y, Morimoto R, Satoh F, Nakamura Y, Kwon G, Choi M, Ito A, Sasano H2022International Journal of Molecular SciencesArea Quantification, Cytonuclear, Membrane
spatialTIME and iTIME: R package and Shiny application for visualization and analysis of immunofluorescence dataCreed J, Wilson C, Soupir A, Colin-Leitzinger C, Kimmel G, Ospina O, Chakiryan N, Markowitz J, Peres L, Coghill A, Fridley B2021BioinformaticsOtherClassifier, Cytonuclear, Highplex FL
Understanding the impact of chemotherapy on the immune landscape of high-grade serous ovarian cancerVanguri R, Benhamida J, Young J, Li Y, Zivanovic O, Chi D, Snyder A, Hollmann T, Mager K2022Gynecologic Oncology ReportsOncologyClassifier, Cytonuclear, Highplex FL
IgA-dominated humoral immune responses govern patients' outcome in endometrial cancerMandal G, Biswas S, Anadon C, Yu X, Gatenbee C, Prabhakaran S, Payne K, Chaurio R, Martin A, Innamarato P, Moran C, Powers J, Harro C, Mine J, Sprenger K, Rigolizzo K, Wang X, Curiel T, Rodriguez P, Anderson A, Saglam O, Conejo-Garcia J2021Cancer ResearchImmuno-oncologyClassifier, Cytonuclear, Highplex FL
A selective and orally bioavailable VHL-recruiting PROTAC achieves SMARCA2 degradation in vivoKofink C, Trainor N, Mair B, Wrhrle S, Wurm M, Mischerikow N, Bader G, Rumpel K, Gerstberger T, Cui Y, Greb P, Garavel G, Scharnweber M, Fuchs J, Gremel G, Chette P, Hopf S, Budano N, Rinnenthal J, Gmaschitz G, Diers E, McLennan R, Roy M, Whitworth C, Vetma V, Mayer M, Koegl M, Ciulli A, Weinstabl H, Farnaby W2022Biological and Medicinal ChemistryClassifier, Cytonuclear, Multiplex IHC
Pancreas resident macrophage-induced fibrosis has divergent roles in pancreas inflammatory injury and PDACBaer J, Zuo C, Kang L, Alarcon de la Lastra A, Bocherding N, Knolhoff B, Bogner S, Zhu Y, Lewis M, Zhang N, Kim K, Fields R, Mills J, Ding L, Randolph G, DeNardo D2022bioRxivFibrosisClassifier, Area Quantification, Cytonuclear, Multiplex IHC, Highplex FL, Figure Maker
Anti-CAIX BB? CAR4/8 T Cells Exhibit Superior Efficacy in a Clear Cell Renal Cell Carcinoma (ccRCC) Mouse ModelWang Y, Buck A, Grimaud M, Culhane A, Kodangattil S, Razimbaud C, Bonal D, Nguyen Q, Zhu Z, Wei K, O'Donnell M, Huang Y, Signoretti S, Choueiri T, Freeman G, Zhu Q, Marasco2021Molecular Therapy: OncolyticsOncologyCytonuclear, Multiplex IHC
Progranulin mediates immune evasion of pancreatic ductal adenocarcinoma through regulation of MHCI expressionCheung P, Yang J, Fang R, Borgers A, Krengel K, Stoffel A, Althoff K, Yip C, Siu E, Ng L, Lang K, Cham L, Engel D, Soun C, Cima I, Scheffler B, Striefler J, Sinn M, Bahra M, Pelzer U, Oettle H, Markus P, Smeets E, Aarntzen E, Savvatakis K, Liffers S, Lueong S, Neander C, Bazarna A, Zhang X, Paschen A, Crawford H, Chan A, Cheung S, Siveke J2022Nature CommunicationsOncologyCytonuclear, Spatial Analysis, Highplex FL
Landscape of cancer-associated fibroblasts identifies the secreted biglycan as a protumor and immunosuppressive factor in triple-negative breast cancerZheng S, Zou Y, Tang Y, Yang A, Liang J, Wu L, Tian W, Xiao W, Xie X, Yang L, Xie J, Wei W, Xie X2022OncoImmunologyImmuno-oncologyCytonuclear, Multiplex IHC
The Tumor Immune Landscape and Architecture of Tertiary Lymphoid Structures in Urothelial Cancervan Dijk N, Gil-Himenez A, Silina K, van Montfoort M, Einerhand S, Jonkman L, Voskuilen C, Peters D, Sanders J, Lubeck Y, Broeks A, Hooijberg E, Vis D, van den Broek M, Wessels L, van Rhijn B, van der Heijden M2021Frontiers in ImmunologyImmuno-oncologyCytonuclear, Spatial Analysis, Highplex FL
Collaborative workflow between pathologists and deep learning for evaluation of tumor cellularity in lung adenocarcinomaSakamoto T, Furukawa T, Pham H, Kuroda K, Tabata K, Kshima Y, Okoshi E, Morimoti S, Bychkov A, Fukuoka J2022bioRxivOncologyCytonuclear, Multiplex IHC
New Fully Automated Preparation of High Apparent Molar Activity 68Ga-FAPI-46 on a Trasis AiO PlatformDa Pieve C, Braga M, Turton D, Valla F, Cakmak P, Plate K, Kramer-Marek G2022MoleculesOtherCytonuclear, Highplex FL
Retrospective analysis of the efficacy of adjuvant cytokine-induced killer cell immunotherapy combined with chemotherapy in colorectal cancer patients after surgeryLi X, Zhou H, Huang W, Wang X, Meng M, Hou Z, Liao L, Tang W, Xie Y, Wang R, Yu H, Wang L, Zhu H, Wang W, Tan J, Li R2022Clinical & Translational ImmunologyOncologyCytonuclear, Highplex FL
Intratumoural spatial distribution of S100B?+?folliculostellate cells is associated with proliferation and expression of FSH and ER? in gonadotroph tumoursIlie M, Vasiljevic A, Chanal M, Gadot N, Chinezu L, Jouanneau E, Hennino A, Raverot G, Bertolino P2022Acta Neuropathologica CommunicationsOncologyCytonuclear, Spatial Analysis
Glioblastoma exosomes influence glial cell hyaluronic acid deposition to promote invasiveness<Koessinger D, Novo D, Koessinger A, Zerbst D, Moore M, Mitchell L, Neilson M, Stevenson K, Chalmers A, Birch J, Norman J2022bioRxivCytonuclear
Pathogenesis of follicular thymic hyperplasia associated with rheumatoid arthritisOhe R, Yang S, Yamashita D, Ichikawa C, Saito A, Kabasawa T, Utsunomiya A, Aung N, Urano Y, Kitaoka T, Suzuki K, Takahara D, Sasaki A, Takakubo Y, Takagi M, Yamakawa M, Futakuchi M2022Pathology InternationalOtherCytonuclear, Multiplex IHC
Nuclear expression of pSTAT3Tyr705 and pSTAT3Ser727 in the stromal compartment of localized hormone-naïve prostate cancerMarginean F, Hellsten R, Krzyanowska A, Bjartell A2022Pathology - Research and PracticeOncologyCytonuclear, Multiplex IHC, TMA
Tertiary lymphoid structures critical for prognosis in endometrial cancer patients - a TransPORTEC studyHoreweg N, Workel, H, Loiero D, Church D, Vermij L, Léon-Castillo A, Krog R, de Boer S, Nout R, Powel M, Mileshkin L, MacKay H, Leary A, Singh N, Jürgenliemk-Schulz I, Creutzberg C, Koelzer V, Nijman H, Bosse T, Bruyn M2022Nature CommunicationsOncologyCytonuclear, Multiplex IHC, TMA
Genomic and single-cell landscape reveals novel drivers and therapeutic vulnerabilities of transformed cutaneous T-cell lymphomaSong X, Chang S, Seminario-Vidal L, de Mingo Pulido A, Tordesillas L, Song X, Reed R, Harkins A, Whiddon S, Nguyen J, Segura C, Zhang C, Yoder S, Sayegh Z, Zhao Y, Messina J, Harro C, Zhang X, Conejo-Garcia J, Berglund A, Sokol L, Zhang J, Rodriguez P, Mule J, Futreal A, Tsai K, Chen P2022Cancer DiscoveryOncologyCytonuclear, Highplex FL, TMA
Tumor immune cell clustering and its association with survival in African American women with ovarian cancerWilson C, Soupir A, Thapa R, Creed J, Nguyen J, Segura C, Gerke T, Schildkraut J, Peres L, Fridley B2022PLOS Computational BiologyCytonuclear, Highplex FL
Immunologic Gene Signature Analysis Correlates Myeloid Cells and M2 Macrophages with Time to Trabectedin Failure in Sarcoma PatientsSchroder B, Zhang Y, Smythe K, Desai P, Thomas A, Viveiros P, Alexiev B, Obeidin F, Chen E, Cranmer L, Wagner M, Jones R, Campbell J, Pierce R, He Q, Pollack S2022CancersOncologyCytonuclear, Highplex FL
ZEB1 transcription factor promotes immune escape in melanomaPlaschka M, Benboubker V, Grimont M, Berthet J, Tonon L, Lopez J, Le-Bouar M, Balme B, Tondeau G, de la Fouchardiere A, Larue L, Puisieux A, Grinberg-Bleyer Y, Bendriss-Vermare N, Dubois B, Caux C, Dalle S, Caramel J2022Journal for ImmunoTherapy of CancerImmuno-oncologyCytonuclear, Multiplex IHC, Highplex FL
Malfunction of airway basal stem cells plays a crucial role in pathophysiology of tracheobronchopathia osteoplasticaHong Y, Shan S, Gu Y, Huang H, Zhang Q, Han Y, Dong Y, Liu Z, Huang M, Ren T2022Nature CommunicationsOtherCytonuclear, Multiplex IHC
Acetyl-CoA-carboxylase 1 (ACC1) plays a critical role in glucagon secretionVeprik A, Denwood G, Liu D, Bakar R, Morfin V, McHugh K, Tebeka N, Vetterli L, Yonova-Doing E, Gribble F, Reimann F, Hoehn K, Hemsley P, Ahnfelt-Ronne J, Rorsman P, Zhang Q, Wet H, Cantley J2022Communications BiologyMetabolismCytonuclear, Highplex FL
Construction of immune related prognostic model for pancreatic ductal adenocarcinoma based on single cell RNA-seq analysisChen K, Wang Q, Liu X, Wang F, Ma Y, Zhang S, Shao Z, Yang Y, Tian X2022Research SquareOncologyCytonuclear, Highplex FL
Extracellular matrix proteins regulate NK cell function in peripheral tissuesBunting M, Vyas M, Requesens M, Langenbucher A, Schiferle E, Manguso R, Lawrence M, Demehri S2022Science AdvancesDermatologyCytonuclear, Highplex FL
Adrenal tropism of SARS-CoV-2 and adrenal findings in a post-mortem case series of patients with severe fatal COVID-19Paul T, Ledderose S, Bartsch H, Sun N, Soliman S, Markl B, Ruf V, Herms J, Stern M, Keppler O, Delbridge C, Muller S, Piontek G, Kimoto Y, Schreiber F, Williams T, Neumann J, Knosel T, Schulz H, Spallek R, Graw M, Kirchner T, Walch A, Rudelius M2022Nature CommunicationsInfectious DiseaseCytonuclear, Highplex FL
Hyperpolarized 13C-Pyruvate Metabolism as a Surrogate for Tumor Grade and Poor Outcome in Renal Cell Carcinoma—A Proof of Principle StudyUrsprung S, Woitek R, McLean M, Priest A, Crispin-Ortuzar M, Brodie C, Gill A, Gehrung M, Beer L, Riddick A, Field-Rayner J, Grist J, Deen S, Riemer F, Kaggie J, Zaccagna F, Duarte J, Locke M, Frary A, Aho T, Armitage J, Casey R, Mendichovszky I, Welsh S, Barrett T, Graves M, Eisen T, Mitchell T, Warren A, Brindle K, Sala E, Stewart G, Gallagher F2022CancersOncologyArea Quantification, Cytonuclear, Multiplex IHC
Loss of ubiquitin-specific peptidase 18 destabilizes 14-3-3ζ protein and represses lung cancer metastasisChen Z, Zheng L, Chen Y, Liu X, Kawakami M, Mustachi L, Roszik J, Ferry-Galow K, Parchment R, Liu X, Andresson T, Duncan G, Kurie J, Rodriguez-Canales J, Liu X, Dmitrovsky E2022Cancer Biology & TherapyOncologyClassifier, Cytonuclear
Therapeutic impact of BET inhibitor BI 894999 treatment: backtranslation from the clinicTontsch-Grunt U, Traexler P, Baum A, Musa H, Marzin K, Wang S, Trapani F, Engelhardt H, Solca F2022British Journal of CancerOncologyClassifier, Cytonuclear, Multiplex IHC
Improved cognitive impairments by silencing DMP1 via enhancing the proliferation of neural progenitor cell in Alzheimer-like miceZhao H, Wei J, Du Y, Chen P, Liu X, Liu H2022Aging CellNeuroscienceCytonuclear, Highplex FL
Peritumoral TIGIT+CD20+ B cell infiltration indicates poor prognosis but favorable adjuvant chemotherapeutic response in gastric cancerLiu H, Wu J, Xu X, Wang H, Zhang C, Yin S, He Y2022International ImmunopharmacologyOncologyCytonuclear, Spatial Analysis, Highplex FL
Subpopulations of cancer-associated fibroblasts link the prognosis and metabolic features of pancreatic ductal adenocarcinomaHu B, Wu C, Mao H, Gu H, Dong H, Yan J, Qi Z, Yuan L, Dong Q, Long J2022Annals of Translational MedicineOncologyCytonuclear, Highplex FL
Organelle resolved proteomics reveals new chordoma cell surface markers required for proliferation and association with outcomeKhan S, Zuccato J, Ignatchenko V, Singh O, Govindarajan M, Waas M, Gao A, Zadeh G, Kislinger T2022Research SquareOncologyCytonuclear, Multiplex IHC
Immune cell subsets in interface cutaneous immune-related adverse events (cirAEs) associated with anti-PD-1 therapy resemble accute graft vs host disease more than licen planusCruz G, Kaunitz G, Stein J, Sander I, Hollmann T, Cottrell T, Taube J, Sunshine J2022Journal of Cutaneous PathologyImmunologyCytonuclear, Multiplex IHC
SPOP promotes cervical cancer progress by inducing PD-1 move away from PD-L1 in spatial localizationWu J, Wu Y, Guo Q, Chen S, Wang S, Zhu J, Wu X, Ju X2022Research SquareOncologyCytonuclear, Spatial Analysis, Highplex FL, TMA
C57BL/6J Mice Are Not Suitable for Modeling Severe SARS-CoV-2 Beta and Gamma Variant InfectionCurrey J, Rabito F, Maness N, Blair R, Rappaport J, Qin X, Kolls J, Srivastava A2022VirusesInfectious DiseaseCytonuclear, Multiplex IHC
Dietary Pharmacological Zinc and Copper Enhances Voluntary Feed Intake of Nursery PigsDeMille C, Burrough E, Kerr B, Schweer W, Gabler N2022Frontiers in Animal ScienceOtherCytonuclear, Multiplex IHC
Spatial transcriptome of a germinal center plasmablastic burst hints at MYD88/CD79B mutants-enriched diffuse large B-cell lymphomasL'Imperio V, Morello G, Vegliante M, Cancila V, Bertolazzi G, Mazzara S, Belmonte B, Mangogna A, Balzarini P, Corral L, Lopez G, Di Napoli A, Facchetti F, Pagni F, Tripodo C2022European Journal of ImmunologyOncologyCytonuclear, Multiplex IHC
Multi-scale integrative analyses identify THBS2+ cancer-associated fibroblasts as a key orchestrator promoting aggressiveness in early-stage lung adenocarcinomaYang H, Sun B, Fan L, Ma W, Xu K, Hall S, Wang Z, Schmid R, Peng R, Marti T, Gao W, Xu J, Yang W, Yao F2022TheranosticsOncologyCytonuclear, Multiplex IHC
Pilot Trial of Arginine Deprivation Plus Nivolumab and Ipilimumab in Patients with Metastatic Uveal MelanomaKraehenbuehl L, Holland A, Armstrong E, O'Shea S, Mangarin L, Chekalil S, Johnston A, Bomalaski J, Erinjeri J, Barker C, Francis J, Wolchok J, Merghoub T, Shoushtari A2022CancersOncologyCytonuclear, Highplex FL
Preclinical evaluation of FAP?2286 for fbroblast activation protein targeted radionuclide imaging and therapyZboralski D, Hoehne A, Bredenbeck A, Schumann A, Nguyen M, Schneider E, Ungewiss J, Paschke M, Haase C, von Hacht J, Kwan T, Lin K, Lenore J, Harding T, Xiao J, Simmons A, Mohan A, Beindorff N, Reineke U, Smerling C, Osterkamp F2022European Journal of Nuclear Medicine and Molecular ImagingOncologyCytonuclear, Multiplex IHC
Prognostic Integrated Image-Based Immune and Molecular Profiling in Early-Stage Endometrial CancerHoreweg N, de Bruyn M, Nout R, Stelloo E, Kedzierska K, Leon-Castillo A, Plat A, Mertz K, Osse M, Jurgenliemk-Schulz I, Lutgens L, Jobsen J, van der Steen-Banasik E, Smit V, Creutzberg C, Bosse T, Nijman H, Koelzer V, Church D2020Cancer Immunology ResearchOncologyCytonuclear, Multiplex IHC, TMA
Comparing Deep Learning and Immunohistochemistry in Determining the Site of Origin for Well-Differentiated Neuroendocrine TumorsRedemann J, Schultz F, Martinez C, Harrell M, Clark D, Martin D, Hanson J2020Journal of Pathology InformaticsOncologyCytonuclear, TMA
Randomized Controlled Trial of the Gastrin/CCK2 Receptor Antagonist Netazepide in Patients with Barrett's EsophagusAbrams J, Del Portillo A, Hills C, Compres G, Friedman R, Cheng B, Poneros J, Lightdale C, Del La Rue R, di Pietro M, Fitzgerald R, Sepulveda A, Wang T2021Cancer Prevention ResearchCytonuclear, Multiplex IHC
3’UTR-directed, kinase proximal mRNA decay inhibits C/EBP? phosphorylation/activation to suppress senescence in tumor cellsSalotti J, Karim B, Misra S, Hu L, Basu S, Martin N, Luke B, Saylor K, Andresson T, Scheiblin D, Lockett S, Tessarollo L, Johnson P2022bioRxivOncologyClassifier, Cytonuclear
Integrated Analysis Of Immunotherapy Treated Clear Cell Renal Cell Carcinomas: An Exploratory StudySobottka B, Nienhold R, Nowak M, Hench J, Haeuptle P, Frank A, Sachs M, Kahraman A, Moch H, Koelzer V, Mertz K2022Journal of ImmunotherapyImmuno-oncologyCytonuclear, Multiplex IHC, Figure Maker
Restoring Pro-healing/remodeling- associated M2a/c Macrophages using ON101 Accelerates Diabetic Wound HealingLin C, Chen C, Huang W, Chen Y, Chen S, Chou H, Hung C, Chen W, Lu C, Nian S, Chen S, Chang H, Chang V, Liu L, Kuo M, Chang S2022JID InnovationsOtherArea Quantification, Cytonuclear
CD4+ T helper 2 cells suppress breast cancer by inducing terminal differentiationBoieri M, Malishkevich A, Guennoun R, Marchese E, Kroon S, Trerice K, Awad M, Park J, Iyer S, Kreuzer J, Haas W, Rivera M, Demehri S2022Journal of Experimental MedicineImmuno-oncolgyCytonuclear, Highplex FL
Prognostic image-based quantification of CD8CD103 T cell subsets in high-grade serous ovarian cancer patientsPaijens S, Vledder A, Loiero D, Duiker E, Bart J, Hendriks A, Jalving M, Workel H, Hollema H, Werner N, Plat A, Wisman G, Yigit R, Arts H, Kruse A, de Lange N, Koelzer V, Bruyn M, Nijman H2021OncoImmunologyImmuno-oncologyCytonuclear, Multiplex IHC, TMA
Higher proportions of CD39+ tumorresident cytotoxic T cells predict recurrence-free survival in patients with stage III melanoma treated with adjuvant immunotherapyAttrill G, Owen C, Ahmed T, Vergara I, Colebatch A, Conway J, Nahar K, Thompson J, da Silva I, Carlino M, Menzies A, Lo S, Palendira U, Scolyer R, Long G, Wilmott J2022Journal of Immuno Therapy of CancerImmuno-oncologyCytonuclear, Spatial Analysis, Highplex FL
Baseline and post-treatment biomarkers of resistance to anti-PD-1 therapy in acral and mucosal melanoma: an observational studyShui I, Liu X, Zhao Q, Kim S, Sun Y, Yearley J, Choudhury T, Webber A, Krepler C, Cristescu R, Lee J2022Journal for ImmunoTherapy of CancerImmuno-oncologyCytonuclear, Highplex FL
Spatial meta-transcriptomics reveal associations of intratumor bacteria burden with lung cancer cells showing a distinct oncogenic signatureWong-Rolle A, Dong Q, Zhu Y, Divakar P, Hor J, Kedei N, Wong M, Tillo D, Conner E, Rajan A, Schrump D, Jim C, Germain R, Zhao C2022Journal for ImmunoTherapy of CancerImmuno-oncologyCytonuclear, Multiplex IHC
SOX9+ malignant cells define a poor prognosis subtype of Glioma with tumor-associated macrophage recruitmentYu S, Ma C, Wang H, Yu B, Luan Y, Xia Z2022Research SquareImmuno-oncologyCytonuclear, Multiplex IHC
Combined Blockade of GARP:TGF-β1 and PD-1 Increases Infiltration of T Cells and Density of Pericyte-Covered GARP+ Blood Vessels in Mouse MC38 TumorsBertrand C, Van Meerbeeck P, de Streel G, Vaherto-Bleeckx N, Benhaddi F, Rouaud L, Noel A, Coulie P, van Baren N, Lucas S2022Frontiers of ImmunologyImmuno-oncologyCytonuclear, Object Colocalization
Multiplexed immunofluorescence analysis of CAFmarkers, EZH2 and FOXM1 in Gastric Tissue: Associations with Clinicopathological Parameters and Clinical OutcomesSun H, Wang X, Wang X, Tan C, Weng W, Zhang M, Ni S, Wang L, Huang D, Sheng W, Xu M2022Research SquareOncologyCytonuclear, Highplex FL
Cancer-associated fibroblasts require proline synthesis by PYCR1 for the deposition of pro-tumorigenic extracellular matrixKay E, Paterson K, Riero-Domingo C, Sumpton D, Dabritz J, Tardito S, Boldrini C, Hernandez-Fernaud J, Athineos D, Dhayade S, Stepanova E, Gjerga E, Neilson L, Lilla S, Hedley A, Koulouras G, McGregor G, Jamieson C, Johnson R, Park M, Kirschner K, Miller C, Kamphorst J, Loayza-Puch F, Saez-Rodriguez J, Mazzone M, Blyth K, Zagnoni M, Zanivan S2022Nature MetabolismOncology, MetabolismCytonuclear, Multiplex IHC, Highplex FL
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, Cytonuclear
Prostate cancer androgen receptor activity dictates efficacy of Bipolar Androgen TherapySena L, Kumar R, Sanin D, Thompson E, Rosen D, Dalrymple S, Antony L, Yang Y, Comes-Alexandre C, Hicks J, Jones T, Bowers K, Eskra J, Meyers J, Gupta A, Skaist A, Yegnasubramanian S, Luo J, Brennen W, Kachhap S, Antonarakis E, De Marzo A, Isaacs J, Markowski M, Denmeade S2022medRxivOncologyClassifier, Cytonuclear, Multiplex IHC, Registration
A survey on artificial intelligence in histopathology image analysisAbdelsamea M, Zidan U, Senousy Z, Gaber M, Rakha E, Ilyas M2022WIREs Data Mining and Knowledge DiscoveryReviewClassifier, Cytonuclear, Figure Maker, TMA
Supraphysiologic Testosterone Induces Ferroptosis and Activates Immune Pathways through Nucleophagy in Prostate CancerKumar R, Mendonca J, Owoyemi O, Boyapati K, Thomas N, Kanacharoen S, Coffey M, Topiwala D, Homes C, Ozbek B, Jones T, Rosen M, Dong L, Wiens S, Brennen W, Isaacs J, Marzo A, Markowski M, Antonarakis E, Qian D, Pienta K, Pardoll D, Carducci M, Denmeade S, Kachhap S2021Cancer ResearchOncologyCytonuclear

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