Leverage the random forest machine learning algorithm behind the Tissue Classifier Add-on for HALO® to quickly and automatically identify tissue types based on color, texture, and contextual features. This add-on features an intuitive “learn-by-example” approach and can categorize tissues within seconds after the user highlights a few distinct tissue types. The Tissue Classifier Add-on is embedded in the HALO platform and can be used in conjunction with any cell-based analysis module for brightfield or fluorescence analysis.
Try it out! Click here to initiate your free proof-of-concept HALO image analysis.
File formats supported by the HALO image analysis platform:
- Non-proprietary (JPG, TIF, OME.TIFF)
- Nikon (ND2)
- 3D Histech (MRXS)
- Akoya (QPTIFF, component TIFF)
- Olympus / Evident (VSI)
- Hamamatsu (NDPI, NDPIS)
- Aperio (SVS, AFI)
- Zeiss (CZI)
- Leica (SCN, LIF)
- Ventana (BIF)
- Philips (iSyntax, i2Syntax)
- KFBIO (KFB, KFBF)
- DICOM (DCM*)
*whole-slide images
Fusion of Spectrally Unmixed Image Tiles into Whole Slide TIFs using HALO Image Analysis
In this application note, we describe how HALO can convert spectrally unmixed image tiles into whole slide images for analysis of the tumor microenvironment.
HALO® High Impact Publications
Learn how HALO image analysis is leveraged in fields from immuno-oncology to neuroscience and infectious disease in this selection of high-impact publications.
HALO AI High Impact Publications
Review this selection of high-impact publications for examples of HALO AI applications in fields ranging from metabolism to immuno-oncology and myology.
HALO AI Whitepaper
Check out this white paper for an in-depth introduction to the deep learning-based add-on to HALO, including available networks, common functions, and the “train – validate – test” Validation workflow.
Quantitative RNAscope™ Image Analysis Guide
From experimental design considerations to optimized setup of HALO image analysis parameters, our guide will help take your quantitative RNAscope™ image analysis to the next level.
A role for HALO® in characterizing cell heterogeneity across organ systems: from the liver to the brain
12 October 2023 | Please join us for this 1-hour webinar to learn about characterizing cell heterogeneity with HALO to gain new biological insights.
Dissecting Prostate Cancer Metabolic Compartmentalization Using Digital Pathology and Hyperpolarized MRI
6 April 2023 | Learn how HALO® image analysis coupled with hyperpolarized MRI is advancing prostate cancer research.
Maximizing use of HALO® and HALO AI for a comprehensive image analysis for HUMAN Brain FFPE Tissue samples in Alzheimer’s Disease
25 May 2022 | In this 60-min webinar, Learn how HALO and HALO AI are advancing neuropathology research at the UW Medicine Biorepository and Integrated
Optimizing quantitative analysis of highly multiplexed CODEX images in HALO
31 March 2022 | In this webinar, Dr. Noemi Kedei, a staff scientist at the Collaborative Protein Technology Resource core of the Center for Cancer
Publication Spotlight
The table below includes publications that cite the Tissue Classifier Add-on.
Your publication not on the list? Drop us an email to let us know about it!
| Title | Authors | Year | Journal | Topics | HALO Modules | Products |
|---|---|---|---|---|---|---|
| Hypoxia promotes tumor immune evasion by suppressing MHC-I expression and antigen presentation | Estephan H, Tailor A, Parker R, Kreamer M, Papandreou I, Campo L, Easton A, Moon EJ, Denko NC, Ternette N, Hammond EM, Giaccia AJ | 2025 | The EMBO Journal | Immuno-oncology | Classifier, Area Quantification, Spatial Analysis, Highplex FL | HALO |
| Efficacy and tolerability of neoadjuvant therapy with Talimogene laherparepvec in cutaneous basal cell carcinoma: a phase II trial (NeoBCC trial) | Ressler J M, Plaschka M, Silmbrod R, Bachmayr V, Shaw L E, Silly T, Zila N, Stepan A, Kusienicka A, Tschandl P, Tittes J, Roka F, Haslik W, Petzelbauer P, Koenig F, Kunstfeld R, Farlik M, Halbritter F, Weninger W, Hoeller C | 2025 | Nature Cancer | Oncology | Classifier, Spatial Analysis, Highplex FL | HALO |
| A multistage drug delivery approach for colorectal primary tumors and lymph node metastases | Yuan Y, Lin Q, Feng HY, Zhang Y, Lai X, Zhu MH, Wang J, Shi J, Huang Y, Zhang L, Lu Q, Yuan Z, Lovell JF, Chen HZ, Sun P, Fang C | 2025 | Nature Communications | Oncology | Classifier, Area Quantification, Spatial Analysis | HALO |
| Endothelial cell pY397-FAK expression predicts risk of breast cancer recurrences after radiotherapy in SweBCG91-RT cohort | Drake R J, Landén A H, Holmberg E, Stenmark Tullberg A, Killander F, Niméus E, Jordan A, McGuinness J, Karlsson P, Hodivala-Dilke K | 2025 | Clinical Cancer Research | Oncology | Classifier, Area Quantification | HALO |
| Distinct immune cell infiltration patterns in pancreatic ductal adenocarcinoma (PDAC) exhibit divergent immune cell selection and immunosuppressive mechanisms | Sivakumar S, Jainarayanan A, Arbe-Barnes E, Sharma P K, Leathlobhair M N, Amin S, Reiss D J, Heij L, Hegde S, Magen A, Tucci F, Sun B, Wu S, Anand N M, Slawinski H, Revale S, Nassiri I, Webber J, Hoeltzel G D, Frampton A E, Wiltberger G, Neumann U, Charlton P, Spiers L, Elliott T, Wang M, Couto S, Lila T, Sivakumar P V, Ratushny A V, Middleton M R, Peppa D, Fairfax B, Merad M, Dustin M L, Abu-Shah E, Bashford-Rogers R | 2025 | Nature Communications | Immuno-oncology | Classifier, Multiplex IHC, Registration | HALO |
| Dietary Oxidized Lipids in Redox Biology: Oxidized Olive Oil Disrupts Lipid Metabolism and Induces Intestinal and Hepatic Inflammation in C57BL/6J Mice | Bao Y, Osowiecka M, Ott C, Tziraki V, Meusburger L, Blaßnig C, Krivda D, Pjevac P, Silva J, Strauss M, Steffen C, Heck V, Aygün S, Duszka K, Doppelmayer K, Grune T, Pignitter M | 2025 | Redox Biology | Metabolism | Classifier, Area Quantification | HALO |
| Neo-adjuvant pembrolizumab in stage IV high-grade serous ovarian cancer: the phase II Neo-Pembro trial | Aronson S L, Thijssen B, Lopez-Yurda M, Koole S N, van der Leest P, León-Castillo A, Harkes R, Seignette I M, Sanders J, Alkemade M, Kemper I, Holtkamp M J, Mandjes I A M, Broeks A, Lahaye M J, Rijlaarsdam M A, van den Broek D, Wessels L F A, Horlings H M, van Driel W J, Sonke G S | 2025 | Nature Communications | Immuno-oncology | Classifier, Highplex FL | HALO |
| Phase 2 trial of perioperative chemo-immunotherapy for gastro-esophageal adenocarcinoma: The role of M2 macrophage landscape in predicting response | Alcindor T, Tankel J, Fiset P-O, Pal S, Opu T, Strasser M, Dehghani M, Bertos N, Zuo D, Mueller C, Cools-Lartigue J, Hickeson M, Marcus V, Camilleri-Broet S, Spatz A, Evaristo G, Farag M, Artho G, Elkrief A, Saleh R, Bailey S, Park M, Huang S, Sangwan V, Ferri L | 2025 | Cell Reports Medicine | Immuno-oncology | Classifier, Spatial Analysis, Highplex FL | HALO |
| Stromal lipid species dictate melanoma metastasis and tropism | Gurung S, Budden T, Mallela K, Jenkins B, von Kriegsheim A, Manrique E, Millán-Esteban D, Romero-Camarero I, Amaral F, Craig S, Durao P, Pozniak J, Stennett L, Smith D, Ashton G, Baker A, Zeng K, Fruhwirth G, Sanz-Moreno V, Marques J, Koulman A, Marine J-C, Somervaille T C P, Motta L, Gaudy-Marqueste C, Nagore E, Virós A | 2025 | Cancer Cell | Oncology | Classifier | HALO |
| Profiling triple-negative breast cancer-specific super-enhancers identifies high-risk mesenchymal development subtype and BETi-Targetable vulnerabilities | Chen Q, Cai R, Wang Y, Liang G, Zhang K, Yang X, Yang D, Zhao D, Zhu X, Deng R, Tang J | 2025 | Molecular Cancer | Oncology | Classifier, Cytonuclear, Highplex FL | HALO |
| TGFβ-dependent signaling drives tumor growth and aberrant extracellular matrix dynamics in NF1-associated plexiform neurofibroma | Abu-Sultanah M, Zhou Z, Jiang C, Mitchell D K, Bessler W K, Jiang L, Li X, Qian S, Smith A E, Mang H E, White E E, Ciesielski M D, Hickey B E, Brewster K M, Sandusky G E, Masters A, Angus S P, Clapp D W, Le L Q, Rhodes S D | 2025 | Science Advances | Neuroscience | Classifier, Area Quantification | HALO |
| Hepatic zonation determines tumorigenic potential of mutant β-catenin | Raven A, Gilroy K, Jin H, Waldron J, Leslie H, Munro J, Hall H, Ridgway R, Ford C, Gulhan D, Vlahov N, Mills M, Hartley A, Anderson E, Bryson S, Sphyris N, Müller M, May S, Cadden B, Nixon C, Waddell S, Guest R, Boulter L, Barker N, Clevers H, Zhu H, Ivaska J, Strathdee D, Miller C, Jamieson N, Bushell M, Park P, Bird T, Sansom O | 2025 | Nature | Oncology | Classifier, Area Quantification, Highplex FL | HALO |
| HIF‐1 Targeting Intervention Renders Protection From Alzheimer’s‐Like Pathology in a Humanized Mice Model of HIV Infection | Ray S, Kumar M, Chemparathy DT, Dash PK, Sil S | 2025 | Journal of Extracellular Vesicles | Neuroscience | Classifier | HALO |
| Single-cell multi-omics analysis revealed the expansion of age-associated B cells in the pancreas of type 1 autoimmune pancreatitis patients | Wang J, Liu C, Zhang X, Che T, Zhao Y, Yang Q, Qin X, Chen Y, Ao X, Shen X, He X, Gong T, Zhang L, Zhang M, Wang D, Du Y, Wen L, Ye Y, Zhang Y, Zhou C, Zou D | 2025 | Genome Medicine | Immunology | Classifier, Spatial Analysis, Highplex FL | HALO |
| The swine IsoLoop model of the gut host-microbiota interface enables intra-animal treatment comparisons to advance 3R principles | Bayne J, Charavaryamath C, Hu Y, Yousefi F, Murphy M, Law A, Michael A, Muyyarikkandy M, Nibbering B, Smits W, Kuijper E, Opriessnig T, Sauer M, Scaria J, Sponseller B, Ramirez A, Mooyottu S | 2025 | Gut Microbes | Infectious Disease | Classifier | HALO |
| SFPQ-TFE3 reciprocally regulates mTORC1 and induces lineage plasticity in a mouse model of renal tumorigenesis | Kaushal Asrani, Adrianna Amaral, Juhyung Woo, Sanaz Nourmohammadi Abadchi, Thiago Vidotto, Eddie Imada, Alyza Skaist, Kewen Feng, Hans B. Liu, Mithila Kasbe, Yorifumi Satou, Masaya Baba, Yuichi Oike, Patricia Outeda, Terry Watnick, Avi Z. Rosenberg, Laura S. Schmidt, W. Marston Linehan, Pedram Argani & Tamara L. Lotan | 2025 | Nature Communications | Oncology | Classifier, Cytonuclear | HALO |
| Mutant p53 gains oncogenic functions through a chromosomal instability-induced cytosolic DNA response | Zhao M, Wang T, Gleber-Netto F O, Chen Z, McGrail D J, Gomez J A, Ju W, Gadhikar M A, Ma W, Shen L, Wang Q, Tang X, Pathak S, Raso M G, Burks J K, Lin S-Y, Wang J, Multani A S, Pickering C R, Chen J, Myers J N, Zhou G | 2024 | Nature Communications | Oncology | Classifier | HALO |
| Early immune remodeling steers clinical response to frontline chemoimmunotherapy in advanced gastric cancer | An M, Mehta A, Min BH, Geo YJ, Wright SJ, Parikh M, Bi L, Lee H, Kim TJ, Lee SY, Moon J, Park RJ, Strickland MR, Park WY, Kang WK, Kim KM, Kim ST, Lempner SJ, Lee J | 2024 | Cancer Discovery | Immuno-oncology | Classifier, Highplex FL | HALO |
| Nanoparticle mediated photodynamic therapy as a method to ablate oral cavity squamous cell carcinoma in preclinical models | Sahovaler A, Valic M, Townson J, Chan H, Zheng M, Tzelnick S, Mondello T, Pener-Tessler A, Eu D, El-Sayes A, Ding L, Chen J, Douglas C, Weersink R, Muhanna N, Zheng G, Irish J | 2024 | Cancer Research | Oncology | Classifier, Multiplex IHC | HALO |
| Translational and Therapeutic Evaluation of RAS-GTP Inhibition by RMC-6236 in RAS-Driven Cancers | Jiang J, Jiang L, Maldonato B J, Wang Y, Holderfield M, Aronchik I, Winters I P, Salman Z, Blaj C, Menard M, Brodbeck J, Chen Z, Wei X, Rosen M J, Gindin Y, Lee B J, Evans J W, Chang S, Wang Z, Seamon K J, Parsons D, Cregg J, Marquez A, Tomlinson A C A, Yano J K, Knox J E, Quintana E, Aguirre A J, Arbour K C, Reed A, Gustafson W C, Gill A L, Koltun E S, Wildes D, Smith J A M, Wang Z, Singh M | 2024 | Cancer Discovery | Oncology | Classifier, Area Quantification, Cytonuclear | HALO |
| Tertiary lymphoid structures and B cells determine clinically relevant T cell phenotypes in ovarian cancer | Kasikova L, Rakova J, Hensler M, Lanickova T, Tomankova J, Pasulka J, Drozenova J, Mojzisova K, Fialova A, Vosahlikova S, Laco J, Ryska A, Dundr P, Kocian R, Brtnicky T, Skapa P, Capkova L, Kovar M, Prochazka J, Praznovec I, Koblizek V, Taskova A, Tanaka H, Lischke R, Mendez F C, Jr J V, Heinzelmann-Schwarz V, Jacob F, McNeish I A, Halaska M J, Rob L, Cibula D, Orsulic S, Galluzzi L, Spisek R, Fucikova J | 2024 | Nature Communications | Oncology | Classifier, Highplex FL, Registration | HALO |
| Obesogenic High-Fat Diet and MYC Cooperate to Promote Lactate Accumulation and Tumor Microenvironment Remodeling in Prostate Cancer | Boufaied N, Chetta P, Hallal T, Cacciatore S, Lalli D, Luthold C, Homsy K, Imada E, Syamala S, Photopoulos C, Di Matteo A, de Polo A, Storaci A, Huang Y, Giunchi F, Sheridan P, Michelotti G, Nguyen Q, Zhao X, Liu Y, Davicioni E, Spratt D, Sabbioneda S, Maga G, Mucci L, Ghigna C, Marchionni L, Butler L, Ellis L, Bordeleau F, Loda M, Vaira V, Labbé D, Zadra G | 2024 | Cancer Research | Oncology | Classifier, Multiplex IHC | HALO |
| Adjuvant COX inhibition augments STING signaling and cytolytic T cell infiltration in irradiated 4T1 tumors | Ridnour L, Cheng R, Kedei N, Somasundaram V, Bhattacharyya D, Basudhar D, Wink A, Walke A, Kim C, Heinz W, Edmondson E, Butcher D, Warner A, Dorsey T, Pore M, Kinders R, Lipkowitz S, Bryant R, Rittscher J, Wong S, Hewitt S, Chang J, Shalaby A, Callagy G, Glynn S, Ambs S, Anderson S, McVicar D, Lockett S, Wink D | 2024 | JCI Insight | Immuno-oncology | Classifier, FISH, Spatial Analysis, Highplex FL | HALO |
| Development of human pancreatic cancer avatars as a model for dynamic immune landscape profiling and personalized therapy | Hughes D, Evans A, Go S, Eyres M, Pan L, Mukherjee S, Soonawalla Z, Willenbrock F, O’Neill E | 2024 | Science Advances | Immuno-oncology | Classifier, Spatial Analysis, Highplex FL | HALO |
| Combined inhibition of KRASG12C and mTORC1 kinase is synergistic in non-small cell lung cancer | Kitai H, Choi P H, Yang Y C, Boyer J A, Whaley A, Pancholi P, Thant C, Reiter J, Chen K, Markov V, Taniguchi H, Yamaguchi R, Ebi H, Evans J, Jiang J J, Lee B, Wildes D, Stanchina E, Smith J A M, Singh M, Rosen N | 2024 | Nature Communications | Oncology | Classifier, Area Quantification, Multiplex IHC | HALO |
| PD‐L1+ macrophage and tumor cell abundance and proximity to T cells in the pretreatment large B‐cell lymphoma microenvironment impact CD19 CAR‐T cell immunotherapy efficacy | Hirayama A V, Wright J H, Smythe K S, Fiorenza S, Shaw A N, Gauthier J, Maloney D G, Naresh K N, Yeung C C S, Turtle C J | 2024 | Hemasphere | Immuno-oncology | Classifier, Spatial Analysis, Highplex FL | HALO, HALO Link |
| Indoleamine-2,3-dioxygenase inhibition improves immunity and is safe for concurrent use with cART during Mtb/SIV coinfection | Singh B, Sharan R, Ravichandran G, Escobedo R, Shivanna V, Dick E J, Hall-Ursone S, Arora G, Alvarez X, Singh D K, Kaushal D, Mehra S | 2024 | JCI Insight | Infectious Disease | Classifier, Highplex FL | HALO |
| Metabolic imaging across scales reveals distinct prostate cancer phenotypes | Sushentsev N, Hamm G, Flint L, Birtles D, Zakirov A, Richings J, Ling S, Tan J Y, McLean M A, Ayyappan V, Menih I H, Brodie C, Miller J L, Mills I G, Gnanapragasam V J, Warren A Y, Barry S T, Goodwin R J A, Barrett T, Gallagher F A | 2024 | Nature Communications | Oncology | Classifier, Area Quantification, FISH, Membrane, Multiplex IHC | HALO, HALO AI |
| Chemotherapy drives tertiary lymphoid structures that correlate with ICI-responsive TCF1+CD8+ T cells in metastatic ovarian cancer | Lanickova T, Hensler M, Kasikova L, Vosahlikova S, Angelidou A, Pasulka J, Griebler H, Drozenova J, Mojzisova K, Vankerckhoven A, Laco J, Ryška A, Dundr P, Kocian R, Cibula D, Brtnicky T, Skapa P, Jacob F, Kovar M, Praznovec I, McNeish I A, Halaska M J, Rob L, Coosemans A, Orsulic S, Galluzzi L, Spisek R, Fucikova J | 2024 | Clinical Cancer Research | Immuno-oncology | Classifier, Highplex FL, Registration | HALO |
| Diversity of the immune microenvironment and response to checkpoint inhibitor immunotherapy in mucosal melanoma | Vos J L, Traets J J H, Qiao X, Seignette I M, Peters D, Wouters M W J M, Hooijberg E, Broeks A, van der Wal J E, Karakullukcu M B, Klop W M C, Navran A, van Beurden M, Brouwer O R, Morris L G T, van Poelgeest M I E, Kapiteijn E, Haanen J B A G, Blank C U, Zuur C L | 2024 | JCI Insight | Immuno-oncology | Classifier, Spatial Analysis, Highplex FL | HALO |
| Lurbinectedin sensitizes PD-L1 blockade therapy by activating STING-IFN signaling in small-cell lung cancer | Chakraborty S, Sen U, Ventura K, Jethalia V, Coleman C, Sridhar S, Banerjee A, Ozakinci H, Mahendravarman Y, Snioch K, Stanchina E, Shields M D, Tomalin L E, Demircioglu D, Boyle T A, Tocheva A, Hasson D, Sen T | 2024 | Cell Reports Medicine | Immuno-oncology | Classifier, Highplex FL | HALO |
| HER2-Selective and Reversible Tyrosine Kinase Inhibitor Tucatinib Potentiates the Activity of T-DM1 in Preclinical Models of HER2-positive Breast Cancer | Olson D, Taylor J, Willis K, Hensley K, Allred S, Zaval M, Farr L, Thurman R, Jain N, Hein R, Ulrich M, Peterson S, Kulukian A | 2023 | Cancer Research Communications | Oncology | Classifier, Multiplex IHC | HALO |
| Cellular mechanisms of heterogeneity in NF2-mutant schwannoma | Chiasson-MacKenzie C, Vitte J, Liu C, Wright E, Flynn E, Stott S, Giovannini M, McClatchey A | 2023 | Nature Communications | Oncology | Classifier, Multiplex IHC, Spatial Analysis, FISH-IF | HALO |
| Innate immune receptor C5aR1 regulates cancer cell fate and can be targeted to improve radiotherapy in tumours with immunosuppressive microenvironments | Beach C, MacLean D, Majorova D, Melemenidis S, Nambiar D, Kim R, Valbuena G, Guglietta S, Krieg C, Darvish D, Suwa T, Eason A, Domingo E, Moon E, Jiang D, Jiang Y, Koong A, Woodruff T, Graves E, Maughan T, Buczacki S, Stucki M, Le Q-T, Leedham S, Giaccia A, Olcina M | 2023 | bioRxiv | Immuno-oncology | Classifier, Area Quantification, Highplex FL | HALO |
| NADK-mediated de novo NADP(H) synthesis is a metabolic adaptation essential for breast cancer metastasis | Ilter D, Drapela S, Schild T, Ward N, Adhikari E, Low V, Asara J, Oskarsson T, Lau E, DeNicola G, McReynolds M, Gomes A | 2023 | Redox Biology | Oncology, Metabolism | Classifier, Highplex FL, TMA | HALO |
| MYC-driven increases in mitochondrial DNA copy number occur early and persist throughout prostatic cancer progression | Chen J, Zheng Q, Hicks J, Trabzonlu L, Ozbek B, Jones T, Vaghasia A, Larman T, Wang R, Markowski M, Denmeade S, Pienta K, Hruban R, Antonaraskis E, Gupta A, Dang C, Yegnasubramanian S, De Marzo A | 2023 | bioRxiv | Oncology | Classifier, Area Quantification, Serial Section | HALO |
| PD-1+CD8+ T Cells Proximal to PD-L1+CD68+ Macrophages Are Associated with Poor Prognosis in Pancreatic Ductal Adenocarcinoma Patients | Yang X, Wang G, Song Y, Zhuang T, Li Y, Xie Y, Fei X, Zhao Y, Xu D, Hu Y | 2023 | Cancers | Oncology, Immuno-oncology | Classifier, Spatial Analysis, Highplex FL, Registration | HALO |
| Myeloid-specific deletion of activating transcription factor 6 alpha increases CD11b+ macrophage subpopulations and aggravates lung fibrosis | Mekhael O, Revill S, Hayat A, Cass S, MacDonald K, Vierhout M, Ayoub A, Reihani A, Padwal M, Imani J, Ayaub E, Yousof T, Dvorkin-Gheva A, Rullo A, Hirota J, Richards C, Bridgewater D, Stämpfli M, Hambly N, Naqvi A, Kolb M, Ask K | 2023 | Immunology and Cell Biology | Immunology, Fibrosis | Classifier, Area Quantification, FISH, Multiplex IHC | HALO |
| YBX1 integration of oncogenic PI3K/mTOR signalling regulates the fitness of malignant epithelial cells | Bai Y, Gotz C, Chincarini G, Zhao Z, Slaney C, Boath J, Furic L, Angel C, Jane S, Phillips W, Stacker S, Farah C, Darido C | 2023 | Nature Communications | Oncology | Classifier, Multiplex IHC | HALO |
| Prognostic value of tumor immune microenvironment factors in patients with stage I lung adenocarcinoma | Xue Q, Wang Y, Zheng Q, Chen L, Lin Y, Jin Y, Shen X, Li Y | 2023 | American Journal of Cancer Research | Oncology | Classifier, Multiplex IHC, Highplex FL | HALO |
| Associations of breast cancer etiologic factors with stromal microenvironment of primary invasive breast cancers in the Ghana Breast Health Study | Abubaker M, Aheam T, Duggan M, Lawrence S, Adjei E, Clegg-Lamptey J, Yamey J, Wiafe-Addai B, Awuah B, Wiafe S, Nyarko K, Aitpillah F, Ansong D, Hewitt S, Brinton L, Figueroa J, Garcia-Closas M, Edusei L, Titiloye N | 2023 | Research Square | Oncology | Classifier, Multiplex IHC | HALO |
| Phenotypic plasticity and reduced tissue retention of exhausted tumor-infiltrating T cells following neoadjuvant immunotherapy in head and neck cancer | Sievers C, Craveiro M, Friedman J, Robbins Y, Yang X, Bai K, Nguyen A, Redman J, Chari R, Soon-Shiong P, Schlom J, Gulley J, Allen C. | 2023 | Cancer Cell | Immuno-oncology | Classifier, Highplex FL | HALO, HALO AI |
| Long-Term Fate and Efficacy of a Biomimetic (Sr)-Apatite-Coated Carbon Patch Used for Bone Reconstruction | Olivier F, Drouet C, Marsan O, Sarou-Kanian V, Rekima S, Gautier N, Fayon F, Bonnamy S, Rochet N | 2023 | Journal of Functional Biomaterials | Biomaterials | Classifier | HALO |
| Host, reproductive, and lifestyle factors in relation to quantitative histologic metrics of the normal breast | Abubakar M, Klein A, Fan S, Lawrence S, Mutreja K, Henry J, Pfeiffer R, Duggan M, Gierach G | 2023 | Research Square | Oncology | Classifier | HALO, HALO Link |
| Outdoor air pollution and histologic composition of normal breast tissue | Ish J, Abubakar M, Fan S, Jones R, Niehoff N, Henry J, Gierach G, White A | 2023 | Environment International | Oncology | Classifier | HALO |
| Sequential pembrolizumab cooperates with platinum/5FU to remodel the tumor immune microenvironment in advanced gastric cancer: A phase II chemoimmunotherapy trial | Klempner S, Lee J, Mehta A, An M, Min B, Heo Y, Parikh M, Bi L, Cristescu R, Lee H, Kim T, Lee S, Moon J, Park R, Strickland M, Park W, Kang W, Kim K, Kim S | 2023 | Research Square | Immuno-oncology | Classifier, Highplex FL | HALO |
| Epitope Lability of Phosphorylated Biomarkers of the DNA Damage Response Pathway Results in Increased Vulnerability to Effects of Delayed or Incomplete Formalin Fixation | Wiseman E, Moss J, Atkinson J, Baakza H, Hayes E, Willis S, Waring P, Canales J, Jones G | 2023 | Journal of Histochemistry & Cytochemistry | Other | Classifier, Cytonuclear, Spatial Analysis | HALO |
| Defective extracellular matrix remodeling in brown adipose tissue is associated with fibro-inflammation and reduced diet-induced thermogenesis | Pellegrinelli V, Figueroa-Juárez E, Samuelson I, U-Din M, Rodriguez-Fdez S, Virtue S, Leggat J, Çubuk C, Peirce V, Niemi T, Campbell M, Rodriguez-Cuenca S, Dopazo Blázquez J, Carobbio S, Virtanen K, Vidal-Puig A | 2023 | Cell Reports | Metabolism | Classifier, Area Quantification, Vacuole | HALO |
| Modifying antibody-FcRn interactions to increase the transport of antibodies through the blood-brain barrier | Tien J, Leonoudakis D, Petrova R, Trinh V, Taura T, Sengupta D, Jo L, Sho A, Yun Y, Doan E, Jamin A, Hallak H, Wilson D, Stratton J | 2023 | mAbs | Neuroscience | Classifier, Area Quantification, Object Colocalization | HALO |
| Poor outcome in postpartum breast cancer patients is associated with distinct molecular and immunological features | Lefrère H, Moore K, Floris G, Sanders J, Seignette I, Bismeijer T, Peters D, Broeks A, Hooijberg E, Van Calsteren K, Neven P, Warner E, Peccatori F, Loibl S, Maggen C, Han S, Jerzak K, Annibali D, Lambrechts D, de Visser K, Wessels L, Lenaerts L, Amant F | 2023 | Clinical Cancer Research | Oncology | Classifier, Highplex FL | HALO, HALO AI |
| Differential expression of CD8 defines phenotypically distinct cytotoxic T cells in cancer and multiple sclerosis | Burkard T, Herrero San Juan M, Dreis C, Kiprina A, Namgaladze D, Siebenbrodt K, Luger S, Foerch C, Pfeilschifter J, Weigert A, Radeke H | 2023 | Clinical and Translational Medicine | Oncology, Immunology | Classifier, Spatial Analysis, Highplex FL, TMA | HALO |
| Low molecular weight heparin synergistically enhances the efficacy of adoptive and anti-PD-1-based immunotherapy by increasing lymphocyte infiltration in colorectal cancer | Quan Y, He J, Zou Q, Zhang L, Sun Q, Huang H, Li W, Xie K, Wie F | 2023 | Journal for ImmunoTherapy of Cancer | Immuno-oncology | Classifier, Multiplex IHC, Highplex FL | HALO |
| Investigating the Effects of Stereotactic Body Radiation Therapy on Pancreatic Tumor Hypoxia and Microvasculature in an Orthotopic Mouse Model using Intravital Fluorescence Microscopy | Samuel T, Rapic S, Lindsay P, DaCosta RS | 2023 | Research Square | Oncology | Classifier, Area Quantification | HALO |
| Tumor-associated macrophages trigger MAIT cell dysfunction at the HCC invasive margin | Ruf B, Bruhns M, Babaei S, Kedei N, Ma L, Revsine M, Benmebarek MR, Ma C, Heinrich B, Subramanyam V, Qi J, Wabitsch S, Green BL, Bauer KC, Myojin Y, Greten LT, McCallen JD, Huang P, Trehan R, Wang X, Nur A, Soika DQM, Pouzolles M, Evans CN, Chari R, Kleiner DE, Telford W, Dadkhah K, Ruchinskas A, Stovroff MK, Kang J, Oza K, Ruchirawat M, Kroemer A, Wang XW, Claassen M, Korangy F, Greten TF | 2023 | Cell | Immuno-oncology | Classifier, Spatial Analysis, Highplex FL, Figure Maker | HALO |
| Tumor cell HLA class I expression and pathologic response following neoadjuvant immunotherapy for newly diagnosed head and neck cancer | Robbins Y, Friedman J, Redman J, Sievers C, Lassoued W, Gulley J, Allen C | 2023 | Oral Oncology | Immuno-oncology | Classifier, Spatial Analysis, Highplex FL | HALO |
| Establishment of reference intervals of endometrial immune cells during the mid-luteal phase | Yu S, Huang C, Lian R, Diao L, Zhang X, Cai S, Wei H, Chen C, Li Y, Zeng Y | 2023 | Journal of Reproductive Immunology | Immunology | Classifier, Multiplex IHC | HALO |
| Anticoagulants Enhance Molecular and Cellular Immunotherapy of Cancer by Improving Tumor Microcirculation Structure and Function and Redistributing Tumor Infiltrates | Wei F, Su Y, Quan Y, Li X, Zou Q, Zhang L, Li S, Jiang M, Lin G, Liang P, He J, Xie K | 2023 | Clinical Cancer Research | Immuno-oncology | Classifier, Multiplex IHC, Spatial Analysis, Highplex FL | HALO |
| Apolipoprotein E induces pathogenic senescent-like myeloid cells in prostate cancer | Bancaro N, Cali B, Troiani M, Elia A, Arzola R, Attanasio G, Lai P, Crespo M, Gurel B, Pereira R, Guo C, Mosole S, Brina D, D’Ambrosio M, Pasquini E, Spataro C, Zagato E, Rinaldi A, Pedotti M, Lascio S, Meani F, Montopoli M, Ferrari M, Gallina A, Varani L, Mestre R, Bolis M, Sommer S, de Bono J, Calcinotto A, Alimonti A | 2023 | Cancer Cell | Oncology | Classifier, Highplex FL | HALO |
| Lineage tracing reveals clonal progenitors and long-term persistence of tumor-specific T cells during immune checkpoint blockade | Pai J, Hellmann M, Sauter J, Mattar M, Rizvi H, Woo H, Shah N, Nguyen E, Uddin F, Quintanal-Villalonga A, Chan J, Manoj P, Allaj V, Baine M, Bhanot U, Jain M, Linkov I, Meng F, Brown D, Chaft J, Plodkowski A, Gigoux M, Won H, Sen T, Wells D, Donoghue M, Stanchina E, Wolchok J, Loomis B, Merghoub T, Rudin C, Chow A, Satpathy A | 2023 | Cancer Cell | Immuno-oncology | Classifier | HALO |
| Immune profiling and RNA-seq uncover the cause of partial unexplained recurrent implantation failure | Fan X, Zhao Q, Li Y, Chen Z, Liao J, Chen H, Meng F, Lu G, Lin G, Gong F | 2023 | International Immunopharmacology | Immunology | Classifier, Multiplex IHC | HALO |
| Targeting the ATF6-mediated ER stress response and autophagy blocks integrin-driven prostate cancer progression | Macke A, Pachikov A, Divita T, Morris M, LaGrange C, Holzapfel M, Kubyshkin A, Zyablitskaya E, Makalish T, Eremenko S, Qiu H, Riethoven J, Hemstreet G, Petrosyan A | 2023 | Molecular Cancer Research | Oncology | Classifier, Area Quantification, Multiplex IHC, TMA | HALO |
| Comparing the peri-implantation endometrial T-bet/GATA3 ratio between control fertile women and patients with recurrent miscarriage: establishment and application of a reference range Get access Arrow | Yu S, Diao L, Lian R, Chen C, Huang C, Li X, Li Y, Zeng Y | 2023 | Human Reproduction | Other | Classifier, Multiplex IHC | HALO |
| Molecular determinants of clinical outcomes of pembrolizumab in recurrent ovarian cancer: Exploratory analysis of KEYNOTE-100 | Ledermann JA, Shapira-Frommer R, Santin AD, Lisyanskaya AS, Pignata S, Vergote I, Raspagliesi F, Sonke GS, Birrer M, Provencher DM, Sehouli J, Colombo N, González-Martín A, Oaknin A, Ottevanger PB, Rudaitis V, Kobie J, Nebozhyn M, Edmondson M, Sun Y, Cristescu R, Jelinic P, Keefe SM, Matulonis UA | 2023 | Gynecologic Oncology | Immuno-oncology | Classifier, Highplex FL | HALO |
| Classification of the tumor immune microenvironment and associations with outcomes in patients with metastatic melanoma treated with immunotherapies | Adegoke N, Gide T, Mao Y, Quek C, Patrick E, Carlino M, Lo S, Menzies A, da Silva P, Vergara I, Long G, Scolyer R, Wilmott J | 2023 | Journal for ImmunoTherapy of Cancer | Immuno-oncology | Classifier, Highplex FL | HALO |
| Empowering Renal Cancer Management with AI and Digital Pathology: Pathology, Diagnostics and Prognosis | Ivanova E, Fayzullin A, Grinin V, Ermilov D, Arutyunyan A, Timashev P, Shekhter A | 2023 | Biomedicines | Review | Classifier, Area Quantification, Cytonuclear, Object Colocalization | HALO, HALO AI |
| Deep radiomics-based fusion model for prediction of bevacizumab treatment response and outcome in patients with colorectal cancer liver metastases: a multicentre cohort study | Zhou S, Sun D, Mao W, Liu Y, Cen W, Ye L, Liang F, Xu J, Shi H, Ji Y, Wang L, Chang W | 2023 | eClinicalMedicine | Oncology | Classifier, Multiplex IHC | HALO |
| Unaltered hepatic wound healing response in male rats with ancestral liver injury | Beil J, Perner J, Pfaller L, Gérard M, Piaia A, Doelemeyer A, Wasserkrug Naor A, Martin L, Piequet A, Dubost V, Chibout S, Moggs J, Terranova R | 2023 | Nature Communications | Other | Classifier, Area Quantification | HALO, HALO AI |
| Disease pathology signatures in a mouse model of Mucopolysaccharidosis type IIIB | Petrova R, Patil AR, Trinh V, McElroy KE, Bhakta M, Tien J, Wilson DS, Warren L, Stratton JR | 2023 | Scientific Reports | Neuroscience, Metabolism | Classifier, Area Quantification, Object Colocalization | HALO |
| SRF617 Is a Potent Inhibitor of CD39 with Immunomodulatory and Antitumor Properties | Warren M, Matissek S, Rausch M, Panduro M, Hall R, Dulak A, Brennan D, Das Yekkirala S, Koseoglu S, Masia R, Yang Y, Reddy N, Prenovitz R, Strand J, Zaidi T, Devereaux E, Jacoberger Foissac C, Stagg J, Lee B, Holland P, Palombella V, Lake A | 2023 | ImmunoHorizons | Immuno-oncology | Classifier, Area Quantification, Multiplex IHC | HALO |
| In vitro and In vivo evidence demonstrating chronic absence of Ref-1 Cysteine 65 impacts Ref-1 folding configuration, redox signaling, proliferation and metastasis in pancreatic cancer | Mijit M, Kpenu E, Chowdhury N, Gampala S, Wireman R, Liu S, Babb O, Georgiadis M, Wan J, Fishel M, Kelley M | 2023 | Redox Biology | Oncology | Classifier | HALO |
| Components of the tumor immune microenvironment based on m-IHC correlate with prognosis and subtype of triple-negative breast cancer | Lin L, Li H, Wang X, Wang Z, Su G, Zhou J, Sun S, Ma X, Chen Y, You C, Gu Y | 2023 | Cancer Medicine | Immuno-oncology | Classifier, Spatial Analysis, Highplex FL | HALO |
| CD44 expression in renal tubular epithelial cells in the kidneys of rats with cyclosporine-induced chronic kidney disease | Matsushita K, Toyoda T, Akane H, Morikawa T, Ogawa K | 2023 | Journal of Toxicologic Pathology | Toxicology | Classifier | HALO |
| Integrated multi-omics profiling to dissect the spatiotemporal evolution of metastatic hepatocellular carcinoma | Sun Y, Wu P, Zhang Z, Wang Z, Zhou K, Song M, Ji Y, Zang F, Lou L, Rao K, Wang P, Gu Y, Gu J, Lu B, Chen L, Pan X, Zhao X, Peng L, Liu D, Chen X, Wu K, Lin P, Wu L, Su Y, Du M, Hou Y, Yang X, Qiu S, Shi Y, Sun H, Zhou J, Huang X, Peng D, Zhang L, Fan J | 2023 | Cancer Cell | Oncology | Classifier, Multiplex IHC, Spatial Analysis, Highplex FL | HALO |
| Tumor-associated fibrosis impairs immune surveillance and response to immune checkpoint blockade in non–small cell lung cancer | Herzog B, Baer J, Borcherding N, Kingston N, Belle J, Knolhoff B, Hogg G, Ahmad F, Kang L, Petrone J, Lin C, Govindan R, Denardo D | 2023 | Science Translational Medicine | Oncology | Classifier, Multiplex IHC | HALO |
| Analysis of several common APOBEC-type mutations in bladder tumors suggests links to viral infection | Rao N, Starrett G, Piaskowski M, Butler K, Golubeva Y, Yan W, Lawrence S, Dean M, Garcia-Closas M, Baris D, Johnson A, Schwenn M, Malats N, Real F, Kogevinas M, Rothman N, Silverman D, Dyrskjøt L, Buck C, Koutros S, Prokunina-Olsson L | 2023 | Cancer Prevention Research | Oncology | Classifier, Immune | HALO |
| Complex Urban Atmospheres alters Alveolar Stem Cells Niche Properties and drives Lung Fibrosis | Belgacemi R, Baptista BR, Justeau G, Toigo M, Frauenpreis A, Yilmaz R, Der Vartanian A, Cazaunau M, Pangui E, Bergé A, Gratien A, Macias Rodriguez JC, Bellusci S, Derumeaux G, Boczkowski J, Al Alam D, Coll P, Lanone S, Boyer L | 2023 | American Journal of Physiology – Lung Cellular and Molecular Physiology | Fibrosis | Classifier, Area Quantification, Highplex FL | HALO |
| The tumor microenvironment state associates with response to HPV therapeutic vaccination in patients with respiratory papillomatosis | NORBERG S, BAI K, SIEVERS C, ROBBINS Y, FRIEDMAN J, YANG X, KENYON M, WARD E, SCHLOM J, GULLEY J, LANKFORD A, SEMNANI R, SABZEVARI H, BROUGH D, ALLEN C | 2023 | Science Translational Medicine | Oncology | Classifier, Highplex FL | HALO |
| Role of CD44 expressed in renal tubules during maladaptive repair in renal fibrogenesis in an allopurinol-induced rat model of chronic kidney disease | Matsushita K, Toyoda T, Akane H, Morikawa T, Ogawa K | 2023 | Journal of Applied Toxicology | Toxicology | Classifier | HALO |
| Exocrine pancreas in type 1 and type 2 diabetes: different patterns of fibrosis, metaplasia, angiopathy, and adiposity | Wright J, Eskaros A, Windon A, Bottino R, Jenkins R, Bradley A, Aramandla R, Philips S, Kang H, Saunders D, Brissova M, Powers A | 2023 | Diabetes | Gastroenterology | Classifier, Highplex FL | HALO |
| A modified mouse model of Friedreich’s ataxia with conditional Fxn allele homozygosity delays onset of cardiomyopathy | Perfitt TL, Huichalaf C, Gooch R, Kuperman A, Ahn Y, Chen X, Ullas S, Hirenallur-Shanthappa D, Zhan Y, Otis D, Whiteley LO, Bulawa C, Martelli A | 2023 | American Journal of Physiology-Heart and Circulatory Physiology | Other | Classifier, Area Quantification | HALO |
| Understanding the impact of chemotherapy on the immune landscape of high-grade serous ovarian cancer | Vanguri R, Benhamida J, Young J, Li Y, Zivanovic O, Chi D, Snyder A, Hollmann T, Mager K | 2022 | Gynecologic Oncology Reports | Oncology | Classifier | HALO |
| Fasting improves therapeutic response in hepatocellular carcinoma through p53-dependent metabolic synergism | Krstic J, Reinisch I, Schindlmaier K, Galhuber M, Riahi Z, Berger N, Kupper N, Moyschewitz E, Auer M, Michenthaler H, Nossing C, Repaoli M, Ramadani-Muja J, Usluer S, Stryeck S, Pichler M, Rinner B, Deutsch A, Reinisch A, Madl T, Chiozzi R, Heck A, Huch M, Malli R, Prokesch | 2022 | Science Advances | Oncology | Classifier | HALO |
| Therapeutic treatment with the anti-inflammatory drug candidate MW151 may partially reduce memory impairment and normalizes hippocampal metabolic markers in a mouse model of comorbid amyloid and vascular pathology | Braun D, Powell D, McLouth C, Roy S, Watterson D, Van Eldik | 2022 | PLOS One | Neuroscience | Classifier, Area Quantification | HALO |
| A selective and orally bioavailable VHL-recruiting PROTAC achieves SMARCA2 degradation in vivo | Kofink 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 W | 2022 | Nature Communications | Oncology | Classifier | HALO |
| Fatal Neurodissemination and SARS-CoV-2 Tropism in K18-hACE2 Mice Is Only Partially Dependent on hACE2 Expression | Carossino M, Kenney D, O’Connell A, Montarnaro P, Tseng A, Gertje H, Grosz K, Ericsson M, Huber B, Kurnick S, Subramaniam S, Kirkland T, Walker J, Francis K, Klose A, Paragas N, Bosmann M, Saeed M, Balasuriya U, Douam F, Crossland N | 2022 | Viruses | Infectious Disease | Classifier, Area Quantification, Highplex FL | HALO |
| Multiplex Immunohistochemical Phenotyping of T Cells in Primary Prostate Cancer | Ozbek B, Ertunc O, Erickson A, Vidal I, Gomes-Alexandre C, Guner G, Hicks J, Jones T, Taube J, Sfanos K, Yegnasubramanian S, DeMarzo A | 2022 | The Prostate | Immuno-oncology | Classifier, Serial Section, Registration, Figure Maker | HALO |
| Loss of ubiquitin-specific peptidase 18 destabilizes 14-3-3ζ protein and represses lung cancer metastasis | Chen 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 E | 2022 | Cancer Biology & Therapy | Oncology | Classifier, Cytonuclear | HALO |
| Therapeutic impact of BET inhibitor BI 894999 treatment: backtranslation from the clinic | Tontsch-Grunt U, Traexler P, Baum A, Musa H, Marzin K, Wang S, Trapani F, Engelhardt H, Solca F | 2022 | British Journal of Cancer | Oncology | Classifier | HALO |
| 3’UTR-directed, kinase proximal mRNA decay inhibits C/EBPβ phosphorylation/activation to suppress senescence in tumor cells | Salotti J, Karim B, Misra S, Hu L, Basu S, Martin N, Luke B, Saylor K, Andresson T, Scheiblin D, Lockett S, Tessarollo L, Johnson P | 2022 | bioRxiv | Oncology | Classifier, Cytonuclear | HALO, HALO AI |
| Orchestrating the Dermal/Epidermal Tissue Ratio during Wound Healing by Controlling the Moisture Content | Tuca A, de Mattos I, Funk M, Winter R, Palackic A, Groeber-Becker F, Kruse D, Kukla F, Lemarchand T, Kamolz L | 2022 | Biomedicines | Other | Classifier | HALO |
| Effects of Extracorporeal Shockwave Therapy on Functional Recovery and Circulating miR-375 and miR-382-5p after Subacute and Chronic Spinal Cord Contusion Injury in Rats | Ashmwe M, Posa K, Ruhrnossl A, Heinzel J, Heimel P, Mock M, Schadl B, Keibl C, Couillard-Despres S, Redl H, Mittermayr R, Hercher D | 2022 | Biomedicines | Neuroscience, Other | Classifier, Multiplex IHC | HALO |
| The combination of gene hyperamplification and PD-L1 expression as a biomarker for the clinical benefit of tislelizumab in gastric/gastroesophageal junction adenocarcinoma | Lu Z, Yang S, Luo X, Shi Y, Lee J, Deva S, Liu T, Chao Y, Zhang Y, Huang R, Xu Y, Shen Z, Shen L | 2022 | Gastric Cancer | Immuno-oncology | Classifier, Multiplex IHC | HALO |
| Prostate cancer androgen receptor activity dictates efficacy of Bipolar Androgen Therapy | Sena 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 S | 2022 | medrxiv | Oncology | Classifier, Cytonuclear, Multiplex IHC, Registration | HALO |
| Senescence-Associated Molecules and Tumor-Immune-Interactions as Prognostic Biomarkers in Colorectal Cancer | Kellers F, Fernandez A, Konykiewitz B, Schindeldecker M, Tagscherer K, Heintz A, Jesinghaus M, Roth W, Foersch S | 2022 | Frontiers in Medicine | Oncology | Classifier | HALO |
| Chronic rhinosinusitis patients display an aberrant immune cell localisation with enhanced S. aureus biofilm metabolic activity and biomass | Shaghayegh G, Cooksley C, Bouras G, Panchatcharam B, Idrizi R, Jana M, Ellis S, Psaltis A, Wormald P, Vreugde S | 2022 | Journal of Allergy and Clinical Immunology | Immunology, Infectious Disease | Classifier, Spatial Analysis, Highplex FL | HALO |
| A survey on artificial intelligence in histopathology image analysis | Abdelsamea M, Zidan U, Senousy Z, Gaber M, Rakha E, Ilyas M | 2022 | WIREs Data Mining and Knowledge Discovery | Review | Classifier, Cytonuclear | HALO |
| MYC sensitises cells to apoptosis by driving energetic demand. | Edwards-Hicks J, Su H, Mangolini M, Yoneten K, Wills J, Rodriguez-Blanco G, Young C, Cho K, Barker H, Muir M, Guerrieri A, Li X, White R, Manasterski P, Mandrou E, Wills K, Chen J, Abraham E, Sateri K, Qian B, Bankhead P, Arends M, Gammoh N, von Kriegsheim A, Patti G, Sims A, Acosta J, Brunton V, Kranc K, Christophorou M, Pearce E, Ringshausen I, Finch A | 2022 | Nature Communications | Oncology, Metabolism | Classifier | HALO |
| Glycosphingolipids are mediators of cancer plasticity through independent signaling pathways | Cumin C, Huang Y, Rossdam C, Ruoff F, Cespedes S, Liang C, Lombardo F, Coelho R, Rimmer N, Konantz M, Lopez M, Alam S, Schmidt A, Calabrese D, Fedier A, Vlajnic T, Itzstein M, Templin M, Buettner F, Everest-Dass A, Heinzelmann-Schwarz V, Jacob F | 2022 | Cell Reports | Oncology | Classifier | HALO |
| Proliferative tumor infiltrating lymphocytes abundance within microenvironment impact clinical outcome in cutaneous B-cell lymphomas | Menguy S, Prochazkova-Carolotti M, Azzi-Martin L, Ferte T, Bresson-Bepoldin L, Rey C, Vergier B, Merlio J, Beylot-Barry M, Pham-Ledard A | 2022 | Journal of Investigative Dermatology | Immuno-oncology | Classifier, Highplex FL | HALO |
| Integrated pathological analysis to develop a Gal-9 based immune survival stratification to predict the outcome of lung large cell neuroendocrine carcinoma and its usefulness in immunotherapy | Che Y, Luo Z, Cao Y, Wang J, Xue Q, Sun N, He J | 2022 | International Journal of Biological Sciences | Oncology | Classifier, Multiplex IHC | HALO |
| PD-L1 predicts chemotherapy resistance in large-cell neuroendocrine carcinoma | Che Y, Luo Z, Cao Y, Sun N, Xue Q, He J | 2022 | British Journal of Surgery | Oncology | Classifier, Multiplex IHC | HALO |
| Systemic Nos2 Depletion and Cox inhibition limits TNBC disease progression and alters lymphoid cell spatial orientation and density | Somasundaram V, Ridnour L, Cheng R, Walke A, Kedei N, Bhattacharyya D, Wink A, Edmondson E, Butcher D, Warner A, Dorsey T, Scheiblin D, Heinz W, Bryant R, Kinders R, Lipkowitz S, Wong S, Pore M, Hewitt S, McVicar D, Anderson S, Chang J, Glynn S, Ambs S, Lockett S, Wink D | 2022 | Redox Biology | Oncology | Classifier, Registration | HALO |
| Method To Visualize the Intratumor Distribution and Impact of Gemcitabine in Pancreatic Ductal Adenocarcinoma by Multimodal Imaging | Strittmatter N, Richards F, Race A, Ling S, Sutton D, Nilsson A, Wallez Y, Barnes J, Maglennon G, Gopinathan A, Brais R, Wong E, Serra M, Atkinson J, Smith A, Wilson J, Hamm G, Johnson T, Dunlop C, Kaistha B, Bunch J, Sansom O, Takats Z, Andren P, Lau A, Barry S, Goodwin R, Jodrell D | 2022 | Analytical Chemistry | Oncology | Classifier, Highplex FL | HALO, HALO AI |
| Bone quality and composition are influenced by egg production, layer line, and estradiol-17ß in laying hens | Eusemann B, Ulrich R, Sacnhez-Rodriquez E, Benavides-Reyes C, Dominguez-Gasca, Rodriguez-Navarro A, Petow S | 2022 | Avian Pathology | Other | Classifier | HALO |
| Inflammatory Monocytes Promote Granuloma-Mediated Control of Persistent Salmonella Infection | Bettke J, Tam J, Montoya V, Butler B, vander Velden A | 2022 | Infection and Immunity | Infectious Disease | Classifier, Area Quantification | HALO |
| NKG2A and HLA-E define an alternative immune checkpoint axis in bladder cancer | Salome B, Sfakianos J, Ranti D, Daza J, Bieber C, Charap A, Hammer C, Banchereau R, Farkas A, Ruan D, Izadmehr S, Geanon D, Kelly G, Real R, Lee B, Beaumont K, Shroff S, Wang Y, Wang Y, Thin T, Garcia-Barros M, Hegewisch-Solloa E, Mace E, Wang L, O’Donnell T, Chowell D, Fernandez-Rodriguez R, Skobe M, Taylor N, Kim-Schulze S, Sebra R, Palmer D, Clancy-Thompson E, Hammond S, Kamphorst A, Malmberg K, Marcenaro E, Romero P, Brody R, Viard M, Yuki Y, Martin M, Carrington M, Mehrazin R, Wilund P, Mellman I, Mariathasan S, Zhu J, Galsky M, Bhardwaj N, Horowitz A | 2022 | Cancer Cell | Oncology, Immuno-oncology | Classifier, Multiplex IHC | HALO, HALO AI |
| Reduced SARS-CoV-2 disease outcomes in Syrian hamsters receiving immune sera: Quantitative image analysis in pathologic assessments | Pieda-Mora C, Robinson S, Tostanoski L, Dayao D, Chandrashekar A, Bauer K, Wrijil L, Ducat S, Hayes T, Yu J, Bondzie E, McMahan K, Sellers D, Giffin V, Hope D, Nampanya F, Mercado N, Kar S, Andersen H, Tzipori S, Barouch D, Martinot A | 2022 | Veterinary Pathology | Infectious Disease, Other | Classifier, Multiplex IHC | HALO |
| Circulating C-Peptide Levels in Living Children and Young People and Pancreatic Beta Cell Loss in Pancreas Donors Across Type 1 Diabetes Disease Duration | Carr A, Inshaw J, Flaxman C, Leete P, Wyatt R, Russell L, Palmer M, Prasolov D, Worthington T, Hull B, Wicker L, Dunber D, Oram R, Morgan N, Toss J, Richardson S, Besser | 2022 | Diabetes | Metabolism | Classifier | HALO, HALO AI |
| Unveiling the tumor immune microenvironment of organ-specific melanoma metastatic sites | Conway J, Rawson R, Lo S, Ahmed T, Veregara I, Gide T, Attrill G, Carlino M, Saw R, Thompson J, Spillane A, Shannon K, Shivalingam B, Menzies A, Wilmott J, Long G, Scolyer R, da Silva I | 2022 | Journal for ImmunoTherapy of Cancer | Oncology | Classifier, Spatial Analysis | HALO |
| Quantitative Dual-Energy Computed Tomography Image Guidance for Thermochemical Ablation: in vivo Results in the Rabbit VX2 Model | Thompson E, Fowlkes N, Jacobsen M, Layman R, Cressman E | 2022 | Journal of Vascular and Interventional Radiology | Oncology | Classifier | HALO |
| Modulation of the Human Pancreatic Ductal Adenocarcinoma Immune Microenvironment by Stereotactic Body Radiotherapy | Mills B, Qiu H, Drage M, Chen C, Mathew J, Garrett-Larsen J, Ye J, Uccello T, Murphy J, Belt B, Lord E, Katz A, Linehan D, Gerber S | 2022 | Clinical Cancer Research | Oncology | Classifier, Spatial Analysis, Highplex FL | HALO |
| Industrialized, Artificial Intelligence-guided Laser Microdissection for Microscaled Proteomic Analysis of the Tumor Microenvironment | Mitchell D, Hunt A, Conrads K, Hood B, Makohon-Moore S, Rojas C, Maxwell G, Bateman N, Conrads T | 2022 | JOVE | Other | Classifier | HALO |
| A Novel Artificial Intelligence–Powered Method for Prediction of Early Recurrence of Prostate Cancer After Prostatectomy and Cancer Drivers | Huang W, Randhawa R, Jain P, Hubbard S, Eickhoff J, Kummar S, Wilding G, Basu H, Roy R | 2022 | JCO Clinical Cancer Informatics | Oncology | Classifier, Multiplex IHC, Spatial Analysis | HALO |
| Non-coding variants disrupting a tissue-specific regulatory element in HK1 cause congenital hyperinsulinism | Wakeling M, Owens N, Hopkinson J, Johnson M, Houghton J, Dastamani A, Flaxman C, Wyatt R, Hewat T, Hopkins J, Laver T, Van Heugten R, Weedon M, De Franco E, Patel K, Ellard S, Morgan N, Cheesman E, Banerjee I, Hattersley A, Dunne M, International Congenital Hyperinsulinism Consortium, Richardson S, Flanagan S | 2022 | Nature Genetics | Metabolism | Classifier, Highplex FL | HALO, HALO AI |
| Metastatic recurrence in colorectal cancer arises from residual EMP1+ cells | Canellas-Socias A, Cortina C, Hernando-Momblona X, Palomo-Ponce S, Mulholland E, Turon G, Mateo L, Conti S, Roman O, Sevillano M, Slebe F, Stork D, Caballe-Mestres A, Berenguer-Llergo A, Alvarez-Varela A, Fenderico N, Novellasdemunt L, Jimenez-Gracia L, Sipka T, Bardia L, Lorden P, Colombelli J, Heyn H, Trepat X, Tejpar S, Sancho E, Tauriello D, Leedham S, Attolini C, Batlle E | 2022 | Nature | Oncology | Classifier, Highplex FL, Registration | HALO |
| The efficacy of a machine learning algorithm for assessing tumour components as a prognostic marker of surgically resected stage IA lung adenocarcinoma | Terada Y, Isaka M, Kawata T, Mizuno K, Muramatsu K, Katsumata S, Konno H, Nagata T, Muzuno T, Serizawa M, Ono A, Sugino T, Shimizu K, Ohde Y | 2022 | Japanese Journal of Clinical Oncology | Oncology | Classifier | HALO |
| The mechanistic and structural role of von Willebrand factor in endotoxemia-enhanced deep vein thrombosis in mice | Choi S, Dwyer C, Rapkin L, Cormier M, Hindmarch C, Nesbitt K, Michels A, Hopman W, Swystun L, Lillicrap D | 2022 | Journal of Thrombosis and Haemostasis | Other | Classifier | HALO |
| 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 A | 2021 | bioRxiv | Infectious Disease | Classifier, Spatial Analysis, Highplex FL | HALO |
| Fasting reverses drug-resistance in hepatocellular carcinoma through p53-dependent metabolic synergism | Krstic 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 A | 2021 | bioRxiv | Oncology | Classifier, Cytonuclear | HALO |
| A distinct repertoire of cancer-associated fibroblasts is enriched in cribriform prostate cancer | Hesterberg AB, Rios BL, Wolf EM, Tubbs C, Wong HY, Schaffer KR, Lotan TL, Giannico GA, Gordetsky JB, Hurley PJ | 2021 | Journal of Pathology:Clinical Research | Oncology | Classifier, ISH/FISH | HALO |
| CD38 in Advanced Prostate Cancers | Guo C, Crespo M, Gurel B, Dolling D, Rekowski J, Sharp A, Petremolo A, Sumanasuriya S, Rodrigues DN, Ferreira A, Pereira R, Figueiredo I, Mehra N, Lambros MBK, Neeb A, Gil V, Seed G, Terstappen L, Alimonti A, Drake CG, Yuan W, de Bono JS | 2021 | European Urology | Oncology | Classifier, Highplex FL | HALO |
| Immune-regulated IDO1-dependent tryptophan metabolism is source of one-carbon units for pancreatic cancer and stellate cells | Newman AC, Falcone M, Uribe AH, Zhang T, Athineos D, Pietzke M, Vazquez A, Blyth K, Maddocks ODK | 2021 | Molecular Cell | Immuno-oncology | Classifier, ISH/FISH | HALO |
| Activated Regulatory T-Cells, Dysfunctional and SenescentT-Cells Hinder the Immunity in Pancreatic Cancer | Sivakumar S, Abu-Shah E, Ahern DJ, Arbe-Barnes EH, Jainarayanan AK, Mangal N, Reddy S, Rendek A, Easton A, Kurz E, Silva M, Soonawalla Z, Heij LR, Bashford-Rogers R, Middleton MR, DUstin ML | 2021 | cancers | Immuno-oncology | Classifier, Multiplex IHC, Spatial Analysis, Highplex FL | HALO |
| Conventional and semi-automatic histopathological analysis of tumor cell content for multigene sequencing of lung adenocarcinoma | Kazdal D, Rempel E, Oliveira C, Allgäuer M, Harms A, Singer K, Kohlwes E, Ormanns S, Fink L, Kriegsmann J, Leichsenring M, Kriegsmann K, Stögbauer F, Tavernar L, Leichsenring J, Volckmar A-L, Longuespée R, Winter H, Eichhorn M, Heußel CP, Herth F, Christopoulos P, Reck M, Muley T, Weichert W, Budczies J, Thomas M, Peters S, Warth A, Schirmacher P, Stenzinger A, Kriegsmann M | 2021 | Translational Lung Cancer Research | Oncology | Classifier, Cytonuclear | HALO |
| TNFα secreted by glioma associated macrophages promotes endothelial activation and resistance against anti-angiogenic therapy | Wei Z, Singh O, Ekinci C, Gill J, Li M, Mamatjan Y, Karimi S, Bunda S, Mansouri S, Aldape K, Zadeh G | 2021 | Acta Neuropathologica Communications | Immunology, Neuroscience | Classifier, Multiplex IHC | HALO |
| Quantification of Human Epidermal Growth Factor Receptor 2 by Immunopeptide Enrichment and Targeted Mass Spectrometry in Formalin-Fixed Paraffin-Embedded and Frozen Breast Cancer Tissues | Kennedy J, Whiteaker J, Kennedy L, Bosch D, Lerch M, Schoenherr R, Zhao L, Lin C, Chowdhury S, Kilgore M, Allison K, Wang P, Hoofnagle A, Baird G, Paulovich A | 2021 | Clinical Chemistry | Oncology | Classifier | HALO |
| Hepatic stellate cells suppress NK cell-sustained breast cancer dormancy | Correia A Guimaraes J, Auf der Maur P, et al. | 2021 | Nature | Immuno-oncology | Classifier | HALO |
| Blockade of the co-inhibitory molecule PD-1 unleashes ILC2-dependent antitumor immunity in melanoma | Jacquelot N, Seillet C, Wang M et al. | 2021 | Nature Immunology | Immuno-oncology | Classifier, Highplex FL | HALO |
| Cx43 phosphorylation sites regulate pancreatic cancer metastasis | Solan JL, Hingorani SR, Lampe PD | 2021 | Oncogene | Oncology | Classifier, Area Quantification | HALO |
| A comparative study of cirrhosis sub-staging using the Laennec system, Beijing classification, and morphometry | Zhang X, Schiano T, Doyle E, Branch A, Florman S, Fiel M. | 2021 | Modern Pathology | Metabolism | Classifier, Area Quantification | HALO |
| SLFN11 captures cancer-immunity interactions associated with platinum sensitivity in high-grade serous ovarian cancer | Winkler 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 G | 2021 | JCI Insight | Oncology | Classifier, Cytonuclear | HALO |
| Absolute copy number fitting from shallow whole genome sequencing data | Sauer C, Eldridge M, Vias M, Hall J, Boyle S, Macintyre G, Bradley T, Markowetz F, Brenton J | 2021 | bioRxiv | Oncology | Classifier | HALO |
| Soluble guanylate cyclase signalling mediates etoposide resistance in progressing small cell lung cancer | Schenk M, Humprey S, Hossain A, Revill M, Pearsall S, Lallo A, Brown S, Bratt S, Galvin M, Descamps T, Zhou C, Pearce S, Priest L, Greenhalgh M, Chaturvedi A, Kerr A, Blackhall F, Dive C, Frese K | 2021 | Nature Communications | Oncology | Classifier, Area Quantification | HALO |
| Heterocellular OSM-OSMR signalling reprograms fibroblasts to promote pancreatic cancer growth and metastasis | Lee B, Hogg E, Below C, Kononov A, Blanco-Gomez A, Heider F, Xu J, Hutton C, Zhang X, Scheidt T, Beattie K, Lamarca A, McNamara M, Valle J, Jorgensen C | 2021 | Nature Communications | Oncology | Classifier | HALO |
| Investigation of Breast Cancer Microstructure and Microvasculature from Time-Dependent DWI and CEST in Correlation with Histological Biomarkers | Someya Y, Iima M, Imai H, Yoshizawa A, Kataoka M, Isoda H, Le Bihan D, Nakamoto Y | 2021 | Research Square | Oncology | Classifier, Multiplex IHC | HALO |
| An ex vivo tumor fragment platform to dissect response to PD-1 blockade in cancer | Voabil P, de Bruijn M, Roelofsen L, Hendriks S, Brokamp S, van den Braber M, Broeks A, Sanders J, Herzig P, Zippelius A, Blank C, Hartemink K, Monkhorst K, Haanen J, Schumacher T, Thommen D | 2021 | Nature Medicine | Immuno-oncology | Classifier, Multiplex IHC | HALO |
| spatialTIME and iTIME: R package and Shiny application for visualization and analysis of immunofluorescence data | Creed J, Wilson C, Soupir A, Colin-Leitzinger C, Kimmel G, Ospina O, Chakiryan N, Markowitz J, Peres L, Coghill A, Fridley B | 2021 | Bioinformatics | Other | Classifier | HALO |
| Neoadjuvant immunotherapy with nivolumab and ipilimumab induces major pathological responses in patients with head and neck squamous cell carcinoma | Vos J, Elbers J, Krijgsman O, Traets J, Qiao X, van der Leun A, Lubeck Y, Seignette I, Smit L, Willems S, van den Brekel M, Dirven R, Karakullukcu B, Karssemakers L, Klop W, Lohuis P, Schreuder W, Smeele L, van der Velden L, Tan I, Onderwater S, Jasperse B, Vogel W, Al-Mamgani A, Keijser A, van der Noort V, Broeks A, Hooijberg E, Peeper D, Schumacher T, Blank C, de Boer J, Haanen J, Zuur C | 2021 | Nature Communications | Oncology | Classifier, Highplex FL | HALO |
| Multiplex Immunohistochemical Phenotyping of T Cells in Primary Prostate Cancer | Ozbek B, Ertunc O, Erickson A, Vidal I, Alexandre C, Guner G, Hicks J, Jones T, Taube J, Sfanos K, Yegnasubramanian S, DeMarzo A | 2021 | medRxiv | Immuno-oncology | Classifier, Cytonuclear, Highplex FL, Serial Section, Registration | HALO |
| Mastocytosis-derived extracellular vesicles deliver miR-23a and miR-30a into pre-osteoblasts and prevent osteoblastogenesis and bone formation | Kim D-K, Bandara G, Cho Y-E, Komarow HD, Donahue DR, Karim B, Baek M-C, Kim HM, Metcalfe DD, Olivera A | 2021 | Nature Communications | Other | Classifier | HALO |
| Intraoperative fluorescence imaging with aminolevulinic acid detects grossly occult breast cancer: a phase II randomized controlled trial | Ottolino-Perry K, Shahid A, DeLuca S, Son V, Sukhram M, Meng F, Liu Z, Rapic S, Anantha N, Wang S, Chamma E, Gibson C, Medeiros P, Majeed S, Chu A, Wignall O, Pizzolato A, Rosen C, Teene L, Starr-Dunham D, Kulbatski I, Panzarella T, Done S, Easson A, Leong W, DaCosta R | 2021 | Breast Cancer Research | Oncology | Classifier, Area Quantification | HALO |
| Use of high-rate ventilation results in enhanced recellularization of bio-engineered lung scaffolds | Ahmadipour M, Taniguchi D, Duchesneau P, Aoki F, Phillips G, Sinderby C, Waddell T, Karoubi G | 2021 | Tissue Engineering Part C: Methods | Biomaterials | Classifier, Multiplex IHC | HALO |
| Advanced glycation end-products (AGEs) are lower in prostate tumor tissue and inversely related to proportion of West African ancestry | Zenner M, Helou Y, Deaton R, Sverdlov M, Wang H, Kajdacsy-Balla A, Macias V, Voisine C, Murray M, Abdulkardir S, Murphy A, Nonn L | 2021 | The Prostate | Oncology | Classifier, Area Quantification | HALO |
| Prognostic and Predictive Value of Tumor-infiltrating Leukocytes and of Immune Checkpoint Molecules PD1 and PDL1 in Clear Cell Renal Cell Carcinoma | Stenzel PJ, Schindeldecker M, Teagscherer KE, Foersch S, Herpel E, Hohenfellner M, Hatiboglu G, Alt J, Thomas C, Haferkamp A, Roth W, Macher-Goeppinger S | 2020 | Translational Oncology | Oncology, Immuno-oncology | Classifier, Cytonuclear, TMA | HALO |
| Mechanical regulation of glycolysis via cytoskeleton architecture | Park JS, Burckhardt CJ, Lazcano R, Solis LM, Isogai T, Li L, Chen CS, Gao B, Minna JD, Bachoo R, DeBerardinis RJ, Danuser G | 2020 | Nature | Oncology | Classifier, Cytonuclear, TMA | HALO |
| 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 images | Ono 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 T | 2020 | Cancer Medicine | Immuno-oncology | Classifier, Multiplex IHC, Serial Section | HALO |
| Distinct fibroblast functional states drive clinical outcomes in ovarian cancer and are regulated by TCF21 | Hussain 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 LE | 2020 | Journal of Experimental Medicine | Oncology | Classifier, Area Quantification | HALO |
| Prognostic value of tumor-infiltrating immune cells in primary colorectal cancer and metastases | Martin SZ, Tagscherer KE, Deckert S, Horst D, Moehler M, Lang H, Roth W | 2020 | Research Square | Immuno-oncology | Classifier, Cytonuclear | HALO |
| Photoacoustic imaging biomarkers for monitoring biophysical changes during nanobubble-mediated radiation treatment | Hysi E, Fadhel MN, Wang Y, Sebastian JA, Giles A, Czarnota GJ, Exner AA, Kolios MC | 2020 | Photoacoustics | Other | Classifier, Area Quantification, Object Colocalization | HALO |
| p53 is associated with high-risk and pinpoints TP53 missense mutations in mantle cell lymphoma | Rodrigues 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 S | 2020 | British Journal of Haematology | Oncology | Classifier, Cytonuclear | HALO |
| Implementation of PD-L1 22C3 IHC pharmDxTM in Cell Block Preparations of Lung Cancer: Concordance with Surgical Resections and Technical Validation of CytoLyt® Prefixation | Lou SK, Ko HM, Kinoshita T, MacDonald S, Weiss J, Czarnecka-Kujawa K, Boerner SL, Yasufuku K, Tsao M-S, Schwock J | 2020 | Acta Cytologica | Oncology | Classifier, Membrane | HALO |
| Ex-vivo delivery of monoclonal antibody (Rituximab) to treat human donor lungs prior to transplantation | Ku TJY, Ribeiero RVP, Ferreira VH, Galasso M, Keshavjee S, Kumar D, Cypel M, Humar A | 2020 | EBioMedicine | Other | Classifier, Cytonuclear | HALO |
| Acute Respiratory Distress in Aged, SARS-CoV-2 Infected African Green Monkeys but not Rhesus Macaques | Blair 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 J | 2020 | The American Journal of Pathology | Infectious Disease | Classifier | HALO |
| 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 A | 2020 | Cancers | Immuno-oncology | Classifier, Multiplex IHC | HALO |
| SLFN11 informs on standard of care and novel treatments in a wide range of cancer models | Winkler 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 E | 2020 | British Journal of Cancer | Oncology | Classifier, Cytonuclear | HALO |
| Naproxen chemoprevention promotes immune activation in Lynch syndrome colorectal mucosa | Reyes-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 E | 2020 | The BMJ | Oncology, Gastroenterology | Classifier, Cytonuclear | HALO |
| A preclinical trial and molecularly-annotated patient cohort identify predictive biomarkers in homologous recombination deficient pancreatic cancer | Wang Y, Park J, Pacis A, Denroche R, Jang G, Zhang A, Cuggia A, Domecq C, Monlong J, Raitses-Gurevich M, Grant R, Borgida A, Holter S, Stossel C, Bu S, Masoomian M, Lungu I, Bartlett J, Wilson J, Gao Z, Riazalhosseini Y, Asselah J, Bouganim N, Cabrera T, Boucher L, Valenti D, Biagi J, Greenwood C, Polak P, Foulkes W, Golan T, O’Kane G, Fischer S, Knox J, Gallinger S, Zogopoulos G | 2020 | Clinical Cancer Research | Oncology | Classifier, Cytonuclear, Multiplex IHC | HALO |
| Preoperative ipilimumab plus nivolumab in locoregionally advanced urothelial cancer: the NABUCCO trial | van Dijk N, Gil-Jimenez A, Silina K, Hendricksen K, Smit LA, de Feijter JM, van Montfoort ML, van Rooijen C, Peters D, Broeks A, van der Poel HG, Bruining A, Lubeck Y, Sikorska K, Boellaard TN, Kvistborg P, Vis DJ, Hooijberg E, Schumacher TN, van den Broek M, Wessels LFA, Blank CU, van Rhijn BW, van der Heijden MS | 2020 | Nature Medicine | Immuno-oncology | Classifier, Highplex FL | HALO |
| IBI112, a selective anti-IL23p19 monoclonal antibody, displays high efficacy in IL-23-induced psoriasiform dermatitis | Li L, Wu Z, Qiu X, Wu Y, Kuang Z, Wang L, Sun T, Liu Y, Yi S, Jing H, Zhou S, Chen B, Wu, D, Wu W, Liu J | 2020 | International Immunopharmacology | Immunology, Dermatology | Classifier | HALO |
| PIK3CA mutation and CNV status and post-chemoradiotherapy survival in patients with cervical cancer | Martell K, McIntyre JB, Kornaga EN, Chan AMY, Phan T, Kobel M, Enwere EK, Dean ML, Ghatage P, Lees-Miller SP, Doll CM | 2020 | Gynecologic Oncology | Oncology | Classifier, Highplex FL, TMA | HALO |
| Association between CD8 and PD‐L1 expression and outcomes after radical prostatectomy for localized prostate cancer | Vicier C, Ravi P, Kwak L, Werner L, Huang Y, Evan C, Loda M, Hamid AA, Sweeney CJ | 2020 | The Prostate | Immuno-oncology | Classifier, Highplex FL | HALO |
| Naproxen chemoprevention promotes immune activation in Lynch syndrome colorectal mucosa | Reyes-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 E | 2020 | Gut | Oncology | Classifier, Cytonuclear | HALO |
| 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 Y | 2020 | Cancer Immunology Research | Oncology, Immuno-oncology | Classifier, Cytonuclear | HALO |
| Spatial immune profiling of the colorectal tumor microenvironment predicts good outcome in stage II patients | Nearchou IP, Gwyther BM, Georgiakakis ECT, Gavriel CG, Kajiwara Y, Ueno H, Harrison DJ, Caie PD | 2020 | Digital Medicine | Immuno-oncology | Classifier, Area Quantification, Spatial Analysis | HALO |
| Ex vivo tissue slice culture system to measure drug-response rates of hepatic metastatic colorectal cancer | Martin SZ, Wagner DC, Hörner N, Horst D, Lang H, Tagscherer KE, Roth W | 2019 | BMC Cancer | Oncology | Classifier, Cytonuclear | HALO |
| Magnetic Resonance Imaging as a Biomarker in Rodent Peripheral Nerve Injury Models Reveals an Age-Related Impairment of Nerve Regeneration | Giorgetti E, Obrecht M, Ronco M, Panesar M, Lambert C, Accart N, Doelemeyer A, Nash M, Bidinosti M, Beckmann N | 2019 | Scientific Reports | Neuroscience | Classifier | HALO |
| Quantification of histopathological findings using a novel image analysis platform | Horai Y, Mizukawa M, Nishina H, Nishikawa S, Ono Y, Takemoto K, Baba N | 2019 | Journal of Toxicologic Pathology | Toxicology | Classifier | HALO |
| Detection of Lung Cancer Lymph Node Metastases from Whole-Slide Histopathologic Images Using a Two-Step Deep Learning Approach | Pham HHN, Futakuchi M, Bychkov A, Furukawa T, Kuroda K, Fukuoka J | 2019 | The American Journal of Pathology | Oncology | Classifier | HALO, HALO AI |
| Modulation of Microglia by Voluntary Exercise or CSF1R Inhibition Prevents Age-Related Loss of Functional Motor Units | Giorgetti 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 M | 2019 | Cell Reports | Neuroscience | Classifier, Cytonuclear | HALO |
| Histological characterization of aldosterone-producing adrenocortical adenomas with different somatic mutations | Ono Y, Yamazaki Y, Omata K, Else T, Tomlins SA, Rhayem Y, Williams TA, Reincke M, Carling T, Monticone S, Mulatero P, Beuschlein F, Ito S, Satoh F, Rainey WE, Sasano H | 2019 | The Journal of Clinical Endocrinology & Metabolism | Oncology | Classifier, Area Quantification | HALO |
| Validation and characterisation of prognostically significant PD-L1+ immune cells in HPV+ oropharyngeal squamous cell carcinoma | Young RJ, Bressel M, Porceddu S, Cernelc J, Savas P, Liu H, Urban D, Thai AA, Cooper C, Fua T, Neeson P, Rischin D, Solomon B | 2019 | Oral Oncology | Oncology, Infectious Disease | Classifier, Highplex FL | HALO |
| Neutrophil content predicts lymphocyte depletion and anti-PD1 treatment failure in NSCLC | Kargl J, Zhu X, Zhang H, Yang GHY, Friesen TJ, Shipley M, Maeda DY, Zebala JA, McKay-Fleisch J, Meredith G, Mashadi-Hossein A, Baik C, Pierce RH, Redman MW, Thompson JC, Albelda SM, Bolouri H, Houghton AM | 2019 | JCI Insight | Immuno-oncology | Classifier, Highplex FL | HALO |
| MEDI3039, a novel highly potent tumor necrosis factor (TNF)-related apoptosis-inducing ligand (TRAIL) receptor 2 agonist, causes regression of orthotopic tumors and inhibits outgrowth of metastatic triple-negative breast cancer | Greer YE, Gilbert SF, Gril B, Narwal R, Brooks DLP, Tice DA, Steeg PS, Lipkowitz | 2019 | Breast Cancer Research | Oncology | Classifier | HALO |
| Precision immunoprofiling by image analysis and artificial intelligence | Koelzer VH, Sirinukunwattana K, Rittscher J, Mertz KD | 2019 | Vichows Archiv | Review | Classifier, Multiplex IHC, Spatial Analysis | HALO |
| 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 R | 2019 | Clinical & Translational Immunology | Immuno-oncology | Classifier | HALO |
| Accelerated phosphatidylcholine turnover in macrophages promotes adipose tissue inflammation in obesity | Petkevicius K, Virtue S, Bidault G, Jenkins B, Cubuk C, Morgantini C, Aouadi M, Dopazo J, Serlie M, Koulman A, Vidal-Puig A | 2019 | Elife | Immunology | Classifier, Vacuole | HALO, HALO AI |
| Detection of Lung Cancer from Whole-Slide Histopathologic Images Using Deep Learning Approach | Mishra N, Behera P, Nanda R, Sahoo M | 2019 | International Journal of Research in Engineering and Sciences | Oncology | Classifier | HALO, HALO AI |
| 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 JQ | 2019 | Acta Neuropathologica | Neuroscience | Classifier, Area Quantification | HALO |
| 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 N | 2019 | Vichows Archiv | Oncology | Classifier, Cytonuclear | HALO |
| Distinct fibroblast functional states drive clinical outcomes in ovarian cancer and are regulated by TCF21 | Hussain A, Voisin V, Poon S, Dmytryshyn J ,Richman C, Meens J, Ho VW, Tang KH, Paterson J, Clarke B, Bernardini M, Bader G, Neel B, Ailles L | 2019 | Journal of Experimental Medicine | Oncology | Classifier, Area Quantification | HALO |
| Cognitive and Pathological Influences of Tau Pathology in Lewy Body Disorders | Coughlin DG, Xie SX, Liang M, Williams A, Peterson C, Weintraub D, McMillan CT, Wolk DA, Akhtar RS, Hurtig H, Coslett HB, Hamilton R, Siderowf A, Duda JE, Rascovsky K, Lee EB, Lee VM-Y, Grossman M, Trojanowski JQ, Irwin DJ | 2019 | Annals of Neurology | Neuroscience | Classifier, Area Quantification | HALO |
| 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 BE | 2019 | Breast Cancer Research | Oncology | Classifier, Cytonuclear | HALO |
| Islet amyloidosis in a child with type 1 diabetes | Beery ML, Jacobsen LM, Atkinson MA, Butler AE, Campbell-Thompson M | 2019 | Islets | Metabolism | Classifier | HALO |
| Machine learning approaches for pathologic diagnosis | Komura D, Ishikawa S | 2019 | Vichows Archiv | Review | Classifier | HALO, HALO AI |
| Multiplexed Immunohistochemistry for Molecular and Immune Profiling in Lung Cancer—Just About Ready for Prime-Time? | Hofman P, Badoual C, Henderson F, Berland L, Hamila M, Long-Mira E, Lassalle S, Roussel H, Hofman V, Tartour E, Ilié M | 2019 | Cancers | Oncology, Immuno-oncology, Review | Classifier, Multiplex IHC | HALO |
| MYB-NFIB gene fusions identified in archival adenoid cystic carcinoma tissue employing NanoString analysis: an exploratory study | McIntyre JB, Ko JJ, Siever J, Chan AMY, Simpson RHW, Hao D, Lau HY | 2019 | Diagnostic Pathology | Oncology | Classifier, Highplex FL | HALO |
| Predicting breast cancer response to neoadjuvant chemotherapy based on tumor vascular features in needle biopsies | Brocato TA, Brown-Glaberman U, Wang Z, Selwyn RG, Wilson CM, Wyckoff EF, Lomo LC, Saline JL, Hooda-Nehra A, Pasqualini R, Arap W, Brinker CJ, Cristini V | 2019 | JCI Insight | Oncology | Classifier | HALO |
| 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 LV | 2019 | American Journal of Physiology-Renal Physiology | Metabolism | Classifier, Cytonuclear, Figure Maker | HALO |
| 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 cytometry | Guo L, Wang Z, Anderson CA, Doolittle E, Kernag S, Cotta CV, Ondrejka SL, Ma X-J, Cook JR | 2018 | Modern Pathology | Other | Classifier, ISH/FISH | HALO |
| pRAD50: a novel and clinically applicable pharmacodynamic biomarker of both ATM and ATR inhibition identified using mass spectrometry and immunohistochemistry | Jones 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 AJ | 2018 | British Journal of Cancer | Oncology | Classifier, Cytonuclear | HALO |
| 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 SE | 2018 | The FASEB Journal | Neuroscience, Metabolism | Classifier, Vacuole | HALO |
| 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, SerraV | 2018 | Annals of Oncology | Oncology | Classifier, Cytonuclear | HALO |
| Biomarker Evaluation and Toxic Effects of an Acute Oral and Systemic Fumonisin Exposure of Pigs with a Special Focus on Dietary Fumonisin Esterase Supplementation | Schertz H, Danicke S, Frahm J, Schatzmayr D, Dohnal I, Bichl G, Schwartz-Zimmerman HE, Colicchia S, Breves G, Teifke JP, Kluess J | 2018 | Toxins | Toxicology | Classifier | HALO |
| 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 ML | 2018 | Scientific Reports | Oncology | Classifier, Cytonuclear | HALO |
| 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 S | 2018 | BMC Cancer | Oncology | Classifier, Cytonuclear | HALO |
| 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 KD | 2018 | Histopathology | Oncology, Immuno-oncology | Classifier, Multiplex IHC | HALO |
| 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 B | 2018 | Breast Cancer Research and Treatment | Oncology | Classifier, Cytonuclear | HALO |
| 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 C | 2018 | Archives of Toxicology | Toxicology | Classifier, Cytonuclear | HALO |
| 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 NL | 2018 | American Journal of Physiology-Renal Physiology | Metabolism | Classifier, Cytonuclear | HALO |
| Ovarian Tumor Microenvironment Signaling: Convergence on the Rac1 GTPase | Hudson LG, Gillette JM, Kang H, Rivera MR, Wandinger-Ness A | 2018 | Cancers | Review | Classifier, Cytonuclear, Figure Maker | HALO |
| 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 JJ | 2018 | Oncotarget | Oncology | Classifier, Area Quantification, Cytonuclear | HALO |
| 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 M | 2018 | Science Advances | Oncology, Neuroscience | Classifier, Cytonuclear | HALO |
| Cysteinyl leukotriene receptor 1 facilitates tumorigenesis in a mouse model of colitis-associated colon cancer | Osman J, Savari S, Chandrashekar NK, Bellamkonda K, Souglas D, Sjolander A | 2017 | Oncotarget | Oncology, Immunology | Classifier, Area Quantification | HALO |
| Ki67 reproducibility using digital image analysis: an inter-platform and inter-operator study | Acs B, Pelekanou V, Bai Y, Martinez-Morilla S, Toki M, Leung SCY, Nielsen TO, Rimm DL | 2017 | Laboratory Investigations | Oncology | Classifier, Cytonuclear | HALO |
| 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 D | 2017 | Annals of Oncology | Oncology | Classifier, ISH/FISH | HALO |
| 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 H | 2017 | JCI Insight | Immunology, Metabolism | Classifier, Cytonuclear | HALO |
| 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 J | 2017 | Stem Cell Reports | Oncology | Classifier | HALO |
| 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 I | 2017 | Developmental Biology | Myology | Classifier, Area Quantification | HALO |
| 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 S | 2017 | PLOS One | Oncology | Classifier, Cytonuclear | HALO |
| 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 S | 2017 | Journal of Biomaterials Applications | Oncology | Classifier | HALO |
| 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 Hudson | 2017 | The American Journal of Pathology | Oncology | Classifier, Area Quantification, Cytonuclear | HALO |
| 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 DM | 2016 | Clinical Cancer Research | Oncology | Classifier, Cytonuclear | HALO |
| 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 IO | 2016 | Virchows Archiv | Oncology | Classifier, Cytonuclear | HALO |
| Efficient recovery of potent tumour-infiltrating lymphocytes through quantitative immunomagnetic cell sorting | Wang Z, Ahmed S, Labib M, Wang H, Hu X, Wei J, Yao Y, Moffat J, Sargent E, Kelley S | 2022 | Nature Biomedical Engineering | Immuno-oncology | Classifier, Cytonuclear | HALO |
| Cell signaling activation and extracellular matrix remodeling underpin glioma tumor microenvironment heterogeneity and organization | Dinevska M, Widodo S, Furst L, Cuzcano L, Fang Y, Mangiola S, Neeson P, Darcy P, Ramsay R, Hutchinson R, MacKay F, Christie M, Stylli S, Mantamadiotis T | 2022 | Cellular Oncology | Oncology | Classifier, Highplex FL, Registration | HALO |
Related HALO Modules
Quantify expression of an unlimited number of biomarkers in any cellular compartment - membrane, nucleus or cytoplasm.
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Quantify expression of up to five brightfield stains in any cellular compartment - membrane, nucleus or cytoplasm.
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Plot cells and objects from one or more images and perform nearest neighbor analysis, proximity analysis, and tumor infiltration analysis.
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