Simultaneously analyze an unlimited number of fluorescent dyes on a per-area basis with the HALO® Area Quantification FL module. This flexible module provides an alternative for analyzing tissues where cell structure cannot be easily identified or where tissue area-based outputs are a more reliable or meaningful measure. Take your area-based analysis to the next level with quantification of dye positive area, average intensity, and binned positivity by intensity. After analysis, leverage interactive markups to dynamically explore dye colocalization.
Indica Labs’ Area Quantification FL module is included with every HALO package at no extra cost.
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
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.
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 Area Quantification Brightfield or FL modules.
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 |
| Disruption of tumor-intrinsic PGAM5 increases anti-PD-1 efficacy through the CCL2 signaling pathway | Wei X, Wang H, Liu H, Wang J, Zhou P, Li X, He Y, Li Y, Han D, Mei T, Wang Y, Li Z, Ning J, Xu Z, Wang A, Li Y, Cheng J, Qian D | 2025 | Journal for Immunotherapy of Cancer | Immuno-oncology | Area Quantification | HALO |
| Reduced circulating sphingolipids and CERS2 activity are linked to T2D risk and impaired insulin secretion | Khan S R, Ye W W, Van J A D, Singh I, Rabiee Y, Rodricks K L, Zhang X, Nicholson R J, Razani B, Summers S A, Futerman A H, Gunderson E P, Wheeler M B | 2025 | Science Advances | Metabolism | Area Quantification | HALO |
| Satellite microglia: marker of traumatic brain injury and regulator of neuronal excitability | Feichtenbiner A B, Sytsma K, O’Boyle R P, Mittenzwei R, Maioli H, Scherpelz K P, Child D D, Li N, Ariza Torres J, Keene L, Kirkland A, Howard K, Latimer C, Keene C D, Ransom C, Nolan A L | 2025 | Journal of Neuroinflammation | Neuroscience | Area Quantification | HALO |
| Cross-species comparisons between pigs and mice reveal conserved sex-specific intraspinal inflammatory responses after spinal cord injury | Kumari R, Hammers G V, Hammons R H, Stewart A N, MacLean S M, Niedzielko T, Schneider L E, Floyd C L, Gensel J C | 2025 | Journal of Neuroinflammation | Neuroscience | Area Quantification, Multiplex IHC | 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 |
| 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 |
| Prevention of tuberculosis in cynomolgus macaques by an attenuated Mycobacterium tuberculosis vaccine candidate | Singh D K, Ahmed M, Akter S, Shivanna V, Bucşan A N, Mishra A, Golden N A, Didier P J, Doyle L A, Hall-Ursone S, Roy C J, Arora G, Dick E J, Jagannath C, Mehra S, Khader S A, Kaushal D | 2025 | Nature Communications | Infectious Disease | Area Quantification, Multiplex IHC | HALO |
| Hybrid EMT Phenotype and Cell Membrane Tension Promote Colorectal Cancer Resistance to Ferroptosis | Wei X, Ge Y, Zheng Y, Zhao S, Zhou Y, Chang Y, Wang N, Wang X, Zhang J, Zhang X, Hu L, Tan Y, Jia Q | 2025 | Advanced Science | Oncology | Area Quantification | HALO |
| Human-correlated genetic models identify precision therapy for liver cancer | Müller M, May S, Hall H, Kendall T J, McGarry L, Blukacz L, Nuciforo S, Georgakopoulou A, Jamieson T, Phinichkusolchit N, Dhayade S, Suzuki T, Huguet-Pradell J, Powley I R, Officer-Jones L, Pennie R L, Esteban-Fabró R, Gris-Oliver A, Pinyol R, Skalka G L, Leslie J, Hoare M, Sprangers J, Malviya G, Mackintosh A, Johnson E, McCain M, Halpin J, Kiourtis C, Nixon C, Clark G, Clark W, Shaw R, Hedley A, Drake T M, Tan E H, Neilson M, Murphy D J, Lewis D Y, Reeves H L, Le Quesne J, Mann D A, Carlin L M, Blyth K, Llovet J M, Heim M H, Sansom O J, Miller C J, Bird T G | 2025 | Nature | Oncology | Area Quantification, Multiplex IHC | HALO |
| A first-in-human study of quantitative ultrasound to assess transplant kidney fibrosis | Hysi E, Baek J, Koven A, He X, Ulloa Severino L, Wu Y, Kek K, Huang S, Krizova A, Farcas M, Ordon M, Fok K-H, Stewart R, Pace K T, Kolios M C, Parker K J, Yuen D A | 2025 | Nature Medicine | Fibrosis | Area Quantification | HALO |
| HER2-targeted star polymer conjugates for improved tumor distribution and efficacy | Sonzini S, England R M, Kapustin A N, Moss J I, Sutton D, Smith A, Sharma S, Siouve E, Mazza M, Ravn P, Puri S, Ashford M | 2025 | Journal of Controlled Release | Oncology | Area Quantification | HALO, HALO AI |
| Single-cell transcriptomic and functional studies identify glial state changes and a role for inflammatory RIPK1 signaling in ALS pathogenesis | Zelic M, Blazier A, Pontarelli F, LaMorte M, Huang J, Tasdemir-Yilmaz O E, Ren Y, Ryan S K, Shapiro C, Morel C, Krishnaswami P, Levit M, Sood D, Chen Y, Gans J, Tang X, Hsiao-Nakamoto J, Huang F, Zhang B, Berry J D, Bangari D S, Gaglia G, Ofengeim D, Hammond T R | 2025 | Immunity | Neuroscience | Area Quantification | HALO |
| Three-Dimensional Vector MR Elastography for Evaluating Tissue Mechanical Heterogeneity to Assess Liver Disease Progression | Wu H, Zhu Z, Li J, Qiu C, Xu P, Glaser K J, Murphy M C, Venkatesh S K, Yaqoob U, Graham R, Mounajjed T, Manduca A, Winkelmann C T, Yashiro H, Manohar R, Allen A M, Shah V H, Ehman R L, Yin M | 2025 | Radiology | Gastroenterology | Area Quantification | HALO |
| Midbrain cytotoxic T cells as a distinct neuropathological feature of progressive supranuclear palsy | Couto B, Forrest S L, Fearon C, Lee S, Knott S, Li J, Fox S H, Tartaglia M C, Lang A E, Kovacs G G | 2025 | Brain | Neuroscience | Area Quantification | HALO, HALO AI |
| Hypoxia-induced Wnt5a-secreting fibroblasts promote colon cancer progression | Harada A, Yasumizu Y, Harada T, Fumoto K, Sato A, Maehara N, Sada R, Matsumoto S, Nishina T, Takeda K, Morii E, Kayama H, Kikuchi A | 2025 | Nature Communications | Oncology | Area Quantification, Cytonuclear | HALO |
| Glycine receptor activation promotes pancreatic islet cell proliferation via the PI3K/mTORC1/p70S6K pathway | Zhang Z, Ye W W, Piro A L, Wang D S, Untereiner A, Lyons S A, Bhattacharjee A, Singh I, Beaudry J L, Orser B A, Dai F F, Wheeler M B | 2025 | JCI Insight | Other | Area Quantification, Highplex FL | HALO |
| Mas Signaling Potentiates Neutrophil Extracellular Traps Formation Induced by Endothelial Cells Derived S1P in Mice with Acute Liver Failure | Yang B, Chen S, Xia X, Tao Z, Liu C, Li S, Zhang S, Huang J, Xia L, Quan W, Yang C, Li J | 2025 | Advanced Science | Gastroenterology | Area Quantification | HALO |
| USP2 inhibition unleashes CD47-restrained phagocytosis and enhances anti-tumor immunity | Dai P, Sun Y, Huang Z, Liu Y-T, Gao M, Liu H-M, Shi J, He C, Xiang B, Yao Y, Yu H, Xu G, Kong L, Xiao X, Wang X, Zhang X, Xiong W, Hu J, Lin D, Zhong B, Chen G, Gong Y, Xie C, Zhang J F | 2025 | Nature Communications | Immuno-oncology | Area Quantification | HALO |
| Anti-pyroglutamate-3 Aβ immunotherapy engages microglia and inhibits amyloid accumulation in transgenic mouse models of Aβ amyloidosis | Liao F, Calvo-Rodriguez M, Chhaya M, Sefrin J P, Charych E I, Mezler M, Clausznitzer D, McGlame E J, Zhao K, Rodgers A, Cao Y, Secker P F, Fernandez Garcia-Agudo L, Huang L, Klein C, Dellovade T, Karran E | 2025 | Acta Neuropathologica | Neuroscience | Area Quantification | HALO |
| Blood phenylalanine lowering partially reverses white matter changes in a mouse model of phenylketonuria | Manek R, Huang W, Huang Y, Guo L, Cornell C S, Shazeeb M S, Verbitsky A, Jackson R, Johnson J, Berthelette P, Yu D, Pfister E L, Bangari D, Ying X, Kumar D, Mueller C, Kyostio-Moore S | 2025 | Molecular Therapy | Neuroscience | Area Quantification | 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 |
| B7-H3 CAR T-cells are effective against ependymomas, but limited by tumor size and immune response | Mehta S, Ippagunta S, Varadharajan S, Kardian A, Laboe N, Dinh D, Jones A B, Meehl M M, Ibañez J, Emanus E, Dao T, Ward M B, Orisme W, Lange S, Langfitt D, Steinberg J, Chiang J, Vogel P, Sheppard H, Ellison D W, Mack S C, Krenciute G | 2025 | Clinical Cancer Research | Immuno-oncology | Area Quantification, Multiplex IHC | HALO |
| Performance of novel tau antibodies across multiple modalities for Alzheimer’s disease assessment | Trivedi P, Forrest K, Fisher D W, Winstone J K, McMillan P J, Valentine M, Postupna N, Wilson A, Bajwa T, MacCoss M J, Keene C D, Darvas M, Kraemer B C, Hoofnagle A N, Latimer C S | 2025 | Alzheimer’s & Dementia | Neuroscience | Area Quantification | HALO |
| Macrophage-T cell interactions promote SLAMF1 expression for enhanced TB defense | Krishna Prasad G V R, Grigsby S J, Erkenswick G A, Portal-Celhay C, Mittal E, Yang G, Fallon S M, Chen F, Klevorn T, Jain N, Li Y, Mitreva M, Martinot A J, Ernst J D, Philips J A | 2025 | Nature Communications | Immunology | Area Quantification | HALO |
| Inhibition of astrocyte signaling leads to sex-specific changes in microglia phenotypes in a diet-based model of cerebral small vessel disease | Gollihue J L, Aung K Z, Rogers C B, Galopin L B, Wright N A, Sompoldej P, Weekman E M, Katsumata Y, Morganti J M, Norris C M | 2025 | Journal of Neuroinflammation | Neuroscience | Area Quantification | HALO |
| Chronic integrated stress response causes dysregulated cholesterol synthesis in white matter disease | Lin K, Ly N, Kunjamma R B, Vu N, King B, Robb H M, Mohler E G, Sridar J, Hao Q, Zavala-Solorio J, Zhang C, Shahryari V, van Bruggen N, Connelly C F, Bennett B D, Lee J J, Sidrauski C | 2025 | JCI Insight | Neuroscience | Area Quantification, Multiplex IHC | HALO |
| Paris polyphylla var. yunnanensis Leaf-Derived Extracellular Vesicle-Like Particles Enhance Periodontal Regeneration | Huang G, Liu A, Hu Y, Yang R, Dai Z, Meng W, Yan Y, Yang H, Li S | 2025 | Biomaterials Research | Biomaterials | Area Quantification, Multiplex IHC | HALO |
| Innate immune and metabolic signals induce mitochondria-dependent membrane lysis via mitoxyperiosis | Wang Y, Lu J, Carisey A, Chadchan S, Lee H, Malireddi R, Sharma B, Pandian N, Tweedell R, Palacios G, Mora N, Robinson C, Pitre A, Vogel P, Chen T, Murphy M, Kanneganti T | 2025 | Cell | Other | Area Quantification | HALO |
| Mutations in the β-tubulin TUBB impair ciliogenesis and are associated with ciliopathy-like phenotypes | Mollica A, Omer S, Forguson G, Steiman S, Evagelou S, Naumenko S, Walker S, Li L, Teeling A, Lindsay K, Erwood S, Visuvanathan S, Vig A, Vernon R, Akman B, Smith-Hicks C, Forman-Kay J, Shroff M, Pai V, Harrison R, Cohn R, Ivakine E | 2025 | Nature Communications | Neuroscience | 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 |
| APOE4 to APOE2 allelic switching in mice improves Alzheimer’s disease-related metabolic signatures, neuropathology and cognition | Golden L, Siano D, Stephens I, MacLean S, Saito K, Nolt G, Funnell J, Pallerla A, Lee S, Smith C, Chen J, Zhu H, Voy C, Whitus C, Hernandez G, Farmer B, Pandya K, Cowley D, Macauley S, Gordon S, Morganti J, Johnson L | 2025 | Nature Neuroscience | Neuroscience | Area Quantification, Object Colocalization, Spatial Analysis | HALO |
| Empowering chemotherapy-induced antitumor immunity by multi-targeted synergistic combination nanomedicine for triple-negative breast cancer | Alradwan I, Zhi P, Zetrini A, Wang L, He C, Rezaeifarimani M, Henderson J, Rauth A, Wu X | 2025 | Materials Today Bio | Immuno-oncology | Area Quantification, Multiplex IHC, Highplex FL | HALO |
| Sex differences in atrial fibrillation-related atrial remodelling assessed by electroanatomic mapping and biopsy | Nakashima K, Yamaguchi T, Takahashi Y, Otsubo T, Shichida S, Osako R, Shinzato K, Tsuruta K, Nishimura Y, Edayoshi M, Kawano Y, Shintani-Domoto Y, Miyazaki K, Fukui A, Kawaguchi A, Aoki S, Nomura S, Takahashi N, Soejima K, Ito K, Node K | 2025 | European Heart Journal | Other | Area Quantification | HALO |
| Down syndrome and a presenilin 2 variant: dual genetic risk of Alzheimer’s disease | Ogg J, Postupna N, Gibbons L E, Ariza J, Xiao M, Fonseca L M, Jayadev S, Keene C D, Bird T D, Latimer C S | 2025 | Acta Neuropathologica | Neuroscience | Area Quantification | HALO, HALO AI |
| Supplementing HIV-ART with cannabinoids increases serotonin, BHB, and Ahr signaling while reducing secondary bile acids and acylcholines | Premadasa LS, Romero L, Mohan M | 2025 | Science Advances | Other | Area Quantification | HALO |
| AAV delivery of artificial miRNA targeting MAPT for the reduction of tau pathology in Alzheimer’s disease | Hogestyn J, Wischhof E, Chen Y, Chan T, Richards B, Mahendran T, Adams J, Dubreuil D, Bu J, Jackson R, Goulet M, Mueller C, Ramachandran S, Elmer B | 2025 | Molecular Therapy | Neuroscience | Area Quantification | HALO |
| ERBB3 overexpression is enriched in diverse patient populations with castration-sensitive prostate cancer and is associated with a unique AR activity signature | Vellky J E, Kirkpatrick B J, Gutgesell L C, Morales M, Brown R M, Wu Y, Maienschein-Cline M, Notardonato L D, Weinfeld M S, Nguyen R H, Brister E, Sverdlov M, Liu L, Xu Z, Kregel S, Nonn L, Vander Griend D J, Reizine N M | 2024 | Clinical Cancer Research | Oncology | Area Quantification, TMA | HALO, HALO AI |
| Multiplex analysis of intratumoural immune infiltrate and prognosis in patients with stage II–III colorectal cancer from the SCOT and QUASAR 2 trials: a retrospective analysis | Frei AL, McGuigan A, Sinha RAK, Jabbar F, Gneo L, Tomasevic T, Harkin A, Iveson T, Saunders MP, Oien KA, Maka N, Pezzella F, Campo L, Browne M, Glaire M, Kildal W, Danielsen HE, Hay J, Edwards J, Sansom O, Kelly C, Tomlinson I, Kerr R, Kerr D, Domingo E, consortium T, Church DN, Koelzer VH | 2024 | The Lancet Oncology | Immuno-oncology | Area Quantification, Highplex FL | HALO, HALO AI |
| Pathway level subtyping identifies a slow-cycling biological phenotype associated with poor clinical outcomes in colorectal cancer | Malla S B, Byrne R M, Lafarge M W, Corry S M, Fisher N C, Tsantoulis P K, Mills M L, Ridgway R A, Lannagan T R M, Najumudeen A K, Gilroy K L, Amirkhah R, Maguire S L, Mulholland E J, Belnoue-Davis H L, Grassi E, Viviani M, Rogan E, Redmond K L, Sakhnevych S, McCooey A J, Bull C, Hoey E, Sinevici N, Hall H, Ahmaderaghi B, Domingo E, Blake A, Richman S D, Isella C, Miller C, Bertotti A, Trusolino L, Loughrey M B, Kerr E M, Tejpar S, Maughan T S, Lawler M, Campbell A D, Leedham S J, Koelzer V H, Sansom O J, Dunne P D | 2024 | Nature Genetics | Oncology | Area Quantification | HALO |
| Pathway level subtyping identifies a slow-cycling biological phenotype associated with poor clinical outcomes in colorectal cancer | Malla S B, Byrne R M, Lafarge M W, Corry S M, Fisher N C, Tsantoulis P K, Mills M L, Ridgway R A, Lannagan T R M, Najumudeen A K, Gilroy K L, Amirkhah R, Maguire S L, Mulholland E J, Belnoue-Davis H L, Grassi E, Viviani M, Rogan E, Redmond K L, Sakhnevych S, McCooey A J, Bull C, Hoey E, Sinevici N, Hall H, Ahmaderaghi B, Domingo E, Blake A, Richman S D, Isella C, Miller C, Bertotti A, Trusolino L, Loughrey M B, Kerr E M, Tejpar S, Maughan T S, Lawler M, Campbell A D, Leedham S J, Koelzer V H, Sansom O J, Dunne P D | 2024 | Nature Genetics | Oncology | Area Quantification | HALO |
| Homocysteine potentiates amyloid β-induced death receptor 4- and 5-mediated cerebral endothelial cell apoptosis, blood brain barrier dysfunction and angiogenic impairment | Carey A, Parodi-Rullan R, Vazquez-Torres R, Canepa E, Fossati S | 2024 | Aging Cell | Neuroscience | Area Quantification | HALO |
| Identification of tyrosine brominated extracellular matrix proteins in normal and fibrotic lung tissues | Cruz LC, Habibovic A, Dempsey B, Massafera MP, Janssen-Heininger YM, Lin MJ, Hoffman ET, Weiss DJ, Huang SK, van der Vliet A, Meotti FC | 2024 | Redox Biology | Fibrosis | Area Quantification, Highplex FL | HALO |
| BCL-XL inhibitors enhance the apoptotic efficacy of BRAF inhibitors in BRAFV600E colorectal cancer | Jenkins L, Luk I, Chionh F, Tan T, Needham K, Ayton J, Reehorst C, Vukelic N, Sieber O, Mouradov D, Gibbs P, Williams D, Tebbutt N, Desai J, Hollande F, Dhillon A, Lee E, Merino D, Fairlie W, Mariadason J | 2024 | Cell Death & Disease | Oncology | Area Quantification | HALO |
| A small-molecule TNIK inhibitor targets fibrosis in preclinical and clinical models | Ren F, Aliper A, Chen J, Zhao H, Rao S, Kuppe C, Ozerov I V, Zhang M, Witte K, Kruse C, Aladinskiy V, Ivanenkov Y, Polykovskiy D, Fu Y, Babin E, Qiao J, Liang X, Mou Z, Wang H, Pun F W, Ayuso P T, Veviorskiy A, Song D, Liu S, Zhang B, Naumov V, Ding X, Kukharenko A, Izumchenko E, Zhavoronkov A | 2024 | Nature Biotechnology | Fibrosis | Area Quantification | HALO |
| Delivery of a BET protein degrader via a CEACAM6-targeted antibody–drug conjugate inhibits tumour growth in pancreatic cancer models | Nakazawa Y, Miyano M, Tsukamoto S, Kogai H, Yamamoto A, Iso K, Inoue S, Yamane Y, Yabe Y, Umihara H, Taguchi J, Akagi T, Yamaguchi A, Koga M, Toshimitsu K, Hirayama T, Mukai Y, Machinaga A | 2024 | Nature Communications | Oncology | Area Quantification | HALO |
| MSUT2 regulates tau spreading via adenosinergic signaling mediated ASAP1 pathway in neurons | Xu H, Qiu Q, Hu P, Hoxha K, Jang E, O’Reilly M, Kim C, He Z, Marotta N, Changolkar L, Zhang B, Wu H, Schellenberg G D, Kraemer B, Luk K C, Lee E B, Trojanowski J Q, Brunden K R, Lee V M-Y | 2024 | Acta Neuropathologica | Neuroscience | Area Quantification | HALO |
| A single nuclear transcriptomic characterisation of mechanisms responsible for impaired angiogenesis and blood-brain barrier function in Alzheimer’s disease | Tsartsalis S, Sleven H, Fancy N, Wessely F, Smith A M, Willumsen N, Cheung T K D, Rokicki M J, Chau V, Ifie E, Khozoie C, Ansorge O, Yang X, Jenkyns M H, Davey K, McGarry A, Muirhead R C J, Debette S, Jackson J S, Montagne A, Owen D R, Miners J S, Love S, Webber C, Cader M Z, Matthews P M | 2024 | Nature Communications | Neuroscience | Area Quantification, 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 |
| Direct and selective pharmacological disruption of the YAP–TEAD interface by IAG933 inhibits Hippo-dependent and RAS–MAPK-altered cancers | Chapeau E, Sansregret L, Galli G, Chène P, Wartmann M, Mourikis T, Jaaks P, Baltschukat S, Barbosa I, Bauer D, Brachmann S, Delaunay C, Estadieu C, Faris J, Furet P, Harlfinger S, Hueber A, Núñez E, Kodack D, Mandon E, Martin T, Mesrouze Y, Romanet V, Scheufler C, Schmelzle T | 2024 | Nature Cancer | Oncology | Area Quantification, Cytonuclear | HALO |
| Landscape of brain myeloid cell transcriptome along the spatiotemporal progression of Alzheimer’s disease reveals distinct sequential responses to Aβ and tau | Wachter A, Woodbury M E, Lombardo S, Abdourahman A, Wuest C, McGlame E, Pastika T, Tamm J, Romanul N, Yanamandra K, Bennett R, Lin G, Kwon T, Liao F, Klein C, Grinberg Y, Jaisa-aad M, Li H, Frosch M P, Kummer M P, Das S, Dellovade T, Karran E H, Langlois X, Ried J S, Serrano-Pozo A, Talanian R V, Biber K, Hyman B T | 2024 | Acta Neuropathologica | Neuroscience | Area Quantification | HALO |
| Conserved immuno-collagenic subtypes predict response to immune checkpoint blockade | Mei J, Cai Y, Xu R, Li Q, Chu J, Luo Z, Sun Y, Shi Y, Xu J, Li D, Li S, Jiang Y, Liu J, Qian Z, Zhou J, Wan M, Yang Y, Zhu Y, Zhang Y, Yin Y | 2024 | Cancer Communications | Immuno-oncology | Area Quantification | HALO |
| N6-methyladenosine-modified circSLCO1B3 promotes intrahepatic cholangiocarcinoma progression via regulating HOXC8 and PD-L1 | Li J, Xu X, Xu K, Zhou X, Wu K, Yao Y, Liu Z, Chen C, Wang L, Sun Z, Jiao D, Han X | 2024 | Journal of Experimental & Clinical Cancer Research | Oncology | Area Quantification, FISH, Highplex FL, TMA | HALO |
| Alpha-synuclein inclusion responsive microglia are resistant to CSF1R inhibition | Stoll AC, Kemp CJ, Patterson JR, Kubik M, Kuhn N, Benskey M, Duffy MF, Luk KC, Sortwell CE | 2024 | Journal of Neuroinflammation | Neuroscience | Area Quantification | HALO |
| A small-molecule microtubule-stabilizing agent safely reduces Aβ plaque and tau pathology in transgenic mouse models of Alzheimer’s disease | Yao Y, Muench M, Alle T, Zhang B, Lucero B, Perez-Tremble R, McGrosso D, Newman M, Gonzalez DJ, Lee VMY, Ballatore C, Brunden KR | 2024 | Alzheimer’s & Dementia | Neuroscience | Area Quantification | HALO |
| Inhibition of mRNA nuclear export promotes SARS-CoV-2 pathogenesis | Mei M, Cupic A, Miorin L, Ye C, Cagatay T, Zhang K, Patel K, Wilson N, McDonald W, Crossland N, Lo M, Rutkowska M, Aslam S, Mena I, Martinez-Sobrido L, Ren Y, García-Sastre A, Fontoura B | 2024 | Proceedings of the National Academy of Sciences | Infectious Disease | Area Quantification | HALO |
| Spatial distribution of Mycobacterium tuberculosis mRNA and secreted antigens in acid-fast negative human antemortem and resected tissue | Nargan K, Glasgow J, Nadeem S, Naidoo T, Wells G, Hunter R, Hutton A, Lumamba K, Msimang M, Benson P, Steyn A | 2024 | eBioMedicine | Infectious Disease | Area Quantification, ISH | HALO |
| Unsupervised Segmentation of 3D Microvascular Photoacoustic Images Using Deep Generative Learning | Sweeney PW, Hacker L, Lefebvre TL, Brown L, Gröhl J, Bohndeik SE | 2024 | Advanced Science | Other | Area Quantification | 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 |
| Phosphodiesterase-5 inhibition collaborates with vaccine-based immunotherapy to reprogram myeloid cells in pancreatic ductal adenocarcinoma | Gross N, Zhang Z, Mitchell J T, Charmsaz S, Hernandez A G, Coyne E M, Shin S M, Vargas Carvajal D C, Sidiropoulos D N, Cho Y, Mo G, Yuan X, Cannon C, Suresh Babu J, Lyman M R, Armstrong T, Kagohara L T, Bever K M, Le D T, Jaffee E M, Fertig E J, Ho W J | 2024 | JCI Insight | Immuno-oncology | Area Quantification | 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 |
| A γδ T cell–IL-3 axis controls allergic responses through sensory neurons | Flayer C H, Kernin I J, Matatia P R, Zeng X, Yarmolinsky D A, Han C, Naik P R, Buttaci D R, Aderhold P A, Camire R B, Zhu X, Tirard A J, McGuire J T, Smith N P, McKimmie C S, McAlpine C S, Swirski F K, Woolf C J, Villani A C, Sokol C L | 2024 | Nature | Neuroscience | Area Quantification, FISH-IF | HALO, HALO AI |
| Chlorquinaldol Alleviates Lung Fibrosis in Mice by Inhibiting Fibroblast Activation through Targeting Methionine Synthase Reductase | Yang X, Lin G, Chen Y, Lei X, Ou Y, Yan Y, Wu R, Yang J, Luo Y, Zhao L, Zhang X, Yang Z, Qin A, Sun P, Yu X-Y, Hu W | 2024 | ACS Central Science | Fibrosis | Area Quantification, Highplex FL | HALO |
| Angiotensin receptor blocker attacks armored and cold tumors and boosts immune checkpoint blockade | Mei J, Chu J, Yang K, Luo Z, Yang J, Xu J, Li Q, Zhang Y, Zhang Q, Wan M, Xue N, Ding J, Zhu Y, Cai Y, Yin Y | 2024 | Journal for Immunotherapy of Cancer | Immuno-oncology | Area Quantification, Multiplex IHC, Highplex FL | HALO |
| Heteroduplex oligonucleotide technology boosts oligonucleotide splice switching activity of morpholino oligomers in a Duchenne muscular dystrophy mouse model | Hasegawa J, Nagata T, Ihara K, Tanihata J, Ebihara S, Yoshida-Tanaka K, Yanagidaira M, Ohara M, Sasaki A, Nakayama M, Yamamoto S, Ishii T, Iwata-Hara R, Naito M, Miyata K, Sakaue F, Yokota T | 2024 | Nature Communications | Myology | Area Quantification, Muscle Fiber | HALO |
| Amyloid-β (Aβ) immunotherapy induced microhemorrhages are linked to vascular inflammation and cerebrovascular damage in a mouse model of Alzheimer’s disease | Taylor X, Noristani H N, Fitzgerald G J, Oluoch H, Babb N, McGathey T, Carter L, Hole J T, Lacor P N, DeMattos R B, Wang Y | 2024 | Molecular Neurodegeneration | Neuroscience | Area Quantification | HALO |
| Entamoeba muris mitigates metabolic consequences of high-fat diet in mice | Roy M, Dumay A, Adiba S, Rozes S, Kobayashi S, Paradis V, Postic C, Rainteau D, Ogier-Denis E, Le Gall M, Meinzer U, Viennois E, Casado-Bedmar M, Mosca A, Hugot J-P | 2024 | Gut Microbes | Metabolism | Area Quantification | HALO |
| Stress granules are not present in Kras mutant cancers and do not control tumor growth | Libert M, Quiquempoix S, Fain J S, Ruys S, Haidar M, Wulleman M, Herinckx G, Vertommen D, Bouchart C, Arsenijevic T, Van Laethem J-L, Jacquemin P | 2024 | EMBO reports | Oncology | Area Quantification | HALO |
| Perioperative sintilimab and neoadjuvant anlotinib plus chemotherapy for resectable non-small-cell lung cancer: a multicentre, open-label, single-arm, phase 2 trial (TD-NeoFOUR trial) | Duan H, Shao C, Luo Z, Wang T, Tong L, Liu H, Yao X, Lei J, Zhao J, Gao Y, Jiang T, Yan X | 2024 | Signal Transduction and Targeted Therapy | Immuno-oncology | Area Quantification, Spatial Analysis, Highplex FL | HALO |
| The Antipsychotic Drug Aripiprazole Suppresses Colorectal Cancer by Targeting LAMP2a to Induce RNH1/miR-99a/mTOR-Mediated Autophagy and Apoptosis | Hu H-F, Fu J-Y, Han L, Gao G-B, Zhang W-X, Yu S-M, Li N, Li Y-J, Lu Y-F, Ding X-F, Pan Y-L, Wang Y, He Q-Y | 2024 | Advanced Science | Oncology | Area Quantification | HALO |
| Hepatocellular senescence induces multi-organ senescence and dysfunction via TGFβ | Kiourtis C, Terradas-Terradas M, Gee L M, May S, Georgakopoulou A, Collins A L, O’Sullivan E D, Baird D P, Hassan M, Shaw R, Tan E H, Müller M, Engelmann C, Andreola F, Hsieh Y C, Reed L H, Borthwick L A, Nixon C, Clark W, Hanson P S, Sumpton D, Mackay G, Suzuki T, Najumudeen A K, Inman G J, Campbell A, Barry S T, Quaglia A, Morris C M, LeBeau F E N, Sansom O J, Kirschner K, Jalan R, Oakley F, Bird T G | 2024 | Nature Cell Biology | Other | Area Quantification, Multiplex IHC, Highplex FL | HALO |
| BTK regulates microglial function and neuroinflammation in human stem cell models and mouse models of multiple sclerosis | Gruber R C, Wirak G S, Blazier A S, Lee L, Dufault M R, Hagan N, Chretien N, LaMorte M, Hammond T R, Cheong A, Ryan S K, Macklin A, Zhang M, Pande N, Havari E, Turner T J, Chomyk A, Christie E, Trapp B D, Ofengeim D | 2024 | Nature Communications | Neuroscience | Area Quantification | HALO |
| Enhanced and sustained biodistribution of HIV-1 neutralizing antibody VRC01LS in human genital and rectal mucosa | Lemos M P, Astronomo R D, Huang Y, Narpala S, Prabhakaran M, Mann P, Paez C A, Lu Y, Mize G J, Glantz H, Westerberg K, Colegrove H, Smythe K S, Lin M, Pierce R H, Hutter J, Frank I, Mascola J R, McDermott A B, Bekker L-G, McElrath M J | 2024 | Nature Communications | Immunology | Area Quantification | HALO |
| Dementia with lewy bodies patients with high tau levels display unique proteome profiles | Greally S, Kumar M, Schlaffner C, van der Heijden H, Lawton ES, Biswas D, Berretta S, Steen H, Steen JA | 2024 | Molecular Neurodegeneration | Neuroscience | Area Quantification, Multiplex IHC | HALO, HALO AI |
| Single-cell and spatial transcriptomic analyses reveal heterogeneity characteristics and specific cell subtype regulators in growth hormone-secreting pituitary adenomas | Zhang Y, Wang L, Yi X, Ma X, Wu H, Zhang M, Yang Z, Ma L, Mi Z, Zhi W, Fu C, Liu P, Yang Z | 2024 | International Journal of Surgery | Oncology | Area Quantification | HALO |
| Tumor-infiltrating leukocyte profiling defines three immune subtypes of NSCLC with distinct signaling pathways and genetic alterations | Aoki K, Nishito Y, Motoi N, Arai Y, Hiraoka N, Shibata T, Sonobe Y, Kayukawa Y, Hashimoto E, Takahashi M, Fujii E, Nishizawa T, Fukuda H, Ohashi K, Arai K, Mizoguchi Y, Yoshida Y, Watanabe S, Yamashita M, Kitano S, Sakamoto H, Nagata Y, Mitsumori R, Ozaki K, Niida S, Kanai Y, Hirayama A, Soga T, Maruyama T, Tsukada K, Yabuki N, Shimada M, Kitazawa T, Natori O, Sawada N, Kato A, Yoshida T, Yasuda K, Mizuno H, Tsunoda H, Ochiai A | 2023 | Cancer Research Communications | Immuno-oncology | Area Quantification, Cytonuclear | HALO |
| Beta-containing bivalent SARS-CoV-2 protein vaccine elicits durable broad neutralization in macaques and protection in hamsters | Berry C, Pavot V, Anosova N, Kishko M, Li L, Tibbitts T, Raillard A, Gautheron S, Cummings S, Bangari D, Kar S, Atyeo C, Deng Y, Alter G, Gutzeit C, Koutsoukos M, Chicz R, Lecouturier V | 2023 | Communications Medicine | Infectious Disease | Area Quantification | HALO |
| Vascular injury is associated with repetitive head impacts and tau pathology in chronic traumatic encephalopathy | Kirsch D, Shah A, Dixon E, Kelley H, Cherry J, Xia W, Daley S, Aytan N, Cormier K, Kubilus C, Mathias R, Alvarez V, Huber B, McKee A, Stein T | 2023 | Journal of Neuropathology & Experimental Neurology | Neuroscience | Area Quantification | 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 |
| Spike and nsp6 are key determinants of SARS-CoV-2 Omicron BA.1 attenuation | Chen D-Y, Chin C, Kenney D, Tavares A, Khan N, Conway H, Liu G, Choudhary M, Gertje H, O’Connell A, Adams S, Kotton D, Herrmann A, Ensser A, Connor J, Bosmann M, Li J, Gack M, Baker S, Kirchdoerfer R, Kataria Y, Crossland N, Douam F, Saeed M | 2023 | Nature | Infectious Disease | Area Quantification | HALO |
| URI alleviates tyrosine kinase inhibitors-induced ferroptosis by reprogramming lipid metabolism in p53 wild-type liver cancers | Ding Z-W, Pan Y-F, Shang T, Jiang T-Y, Lin Y-K, Yang C, Pang S, Cui X-W, Wang Y, Feng X, Xu M, Pei M, Chen Y, Li X, Ding J, Tan Y-X, Wang H, Dong L-W, Wang L | 2023 | Research Square | Oncology | Area Quantification | HALO |
| Transcriptional vulnerabilities of striatal neurons in human and rodent models of Huntington’s disease | Matsushima A, Pineda S, Crittenden J, Lee H, Galani K, Mantero J, Tombaugh G, Kellis M, Heiman M, Graybiel A | 2023 | Nature Communications | Neuroscience | Area Quantification, ISH-IHC/FISH-IF | HALO |
| Extensive and Persistent Extravascular Dermal Fibrin Deposition Characterizes Systemic Sclerosis | Browning J, Bhawan J, Tseng A, Crossland N, Bujor A, Akassoglou K, Assassi S, Skaug B, Ho J | 2023 | bioRxiv | Fibrosis | Area Quantification | HALO |
| Butyrate alleviates cognitive impairment by improving gut mucosal barrier function and blocking neuroinflammatory signaling in LDLR -/- mice | Song R, Gao H, Jiang H, Zhang W, Han S | 2023 | Research Square | Neuroscience, Metabolism | Area Quantification | HALO |
| Inhibition of indoleamine dioxygenase leads to better control of tuberculosis adjunctive to chemotherapy | Singh B, Moodley C, Singh D, Escobedo R, Sharan R, Arora G, Ganatra S, Shivanna V, Gonzalez O, Hall-Ursone S, Dick Jr. E, Kaushal D, Alvarez X, Mehra S | 2023 | JCI Insight | Infectious Disease, Fibrosis | Area Quantification, Highplex FL | HALO |
| Altered MANF Expression in Pancreatic Acinar and Ductal Cells in Chronic Alcoholic Pancreatitis: A Cross-Sectional Study | Caldwell N, Li H, Bellizzi A, Luo J | 2023 | Biomedicines | Gastroenterology | Area Quantification, Cytonuclear | HALO |
| Tau-RNA complexes inhibit microtubule polymerization and drive disease-relevant conformation change | McMillan P, Benbow S, Uhrich R, Saxton A, Baum M, Strovas T, Wheeler J, Baker J, Liachko N, Keene C, Latimer C, Kraemer B | 2023 | Brain | Neuroscience | Area Quantification | HALO |
| Mouse-Adapted SARS-CoV-2 MA10 Strain Displays Differential Pulmonary Tropism and Accelerated Viral Replication, Neurodissemination, and Pulmonary Host Responses in K18-hACE2 Mice | Thieulent C, Dittmar W, Balasuriya U, Crossland N, Wen X, Richt J, Carossino M | 2023 | mSphere | Infectious Disease | Area Quantification | HALO |
| Nucleolin mediates SARS-CoV-2 replication and viral-induced apoptosis of host cells | Merino V, Yan Y, Ordonez A, Bullen C, Lee A, Saeki H, Ray K, Huang T, Jain S, Pomper M | 2023 | Antiviral Research | Infectious Disease | Area Quantification | HALO |
| Genetic models of cleavage-reduced and soluble TREM2 reveal distinct effects on myelination and microglia function in the cuprizone model | Beckmann N, Neuhaus A, Zurbruegg S, volkmer P, Patino C, Joller S, Feuerbach D, Doelemeyer A, Schweizer T, Rudin S, Nuemann U, Berth R, Frieauff W, Gasparani F, Shimshek D | 2023 | Journal of Neuroinflammation | Neuroscience | Area Quantification | HALO |
| A Comparative Study on the Distribution Pattern of Endocrine Cells in the Gastrointestinal Tract of Two Small Alpine Mammals, Plateau Zokor (Eospalax baileyi) and Plateau Pika (Ochotona curzoniae) | Cai X, Bao D, Hua R, Cai B Wang L, Dong R, Hua L | 2023 | Animals | Gastroenterology | Area Quantification | HALO |
| Pioglitazone restores mitochondrial function but does not spare cortical tissue following mild brain contusion | Hubbard W, Vekaria H, Kalimon O, Spry M, Brown E, Kobaugh T, Sullivan P | 2023 | Brain Communications | Neuroscience | Area Quantification | HALO |
| Endothelial Cells are Heterogeneous in Different Brain Regions and are Dramatically Altered in Alzheimer’s Disease | Bryant A, Li Z, Jayakumar R, Serrano-Pozo A, Woost B, Hu M, Woodbury M, Wachter A, Lin G, Kwon T, Talanian R, Biber K, Karran E, Hyman B, Das S, Bennett R | 2023 | bioRxiv | Neuroscience | Area Quantification | HALO |
| TGF-β in the microenvironment induces a physiologically occurring immune-suppressive senescent state | Matsuda S, Revandkar A, Dubash T, Ravi A, Wittner B, Lin M, Morris R, Burr R, Guo H, Seeger K, Szabolcs A, Che D, Nieman L, Getz G, Ting D, Lawrence M, Gainor J, Haber D, Maheswaran S | 2023 | Cell Reports | Oncology | Area Quantification | HALO |
| Cancer-associated fibroblasts are the main contributors to epithelial-to-mesenchymal signatures in the tumor microenvironment | Szabo P, Vajdi A, Kumar N, Tolstorukov M, Chen B, Edwards R, Ligon K, Chasalow S, Chow K, Shetty A, Bolisetty M, Holloway J, Golhar R, Kidd B, Hull P, Houser J, Vlach L, Siemers N, Saha S | 2023 | Scientific Reports | Oncology | Area Quantification | 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 |
| Ubiquinone deficiency drives reverse electron transport to disrupt hepatic metabolic homeostasis in obesity | Goncalves R, Wang Z, Inouye K, Lee G, Fu X, Saksi J, Rosique C, Parlakgul G, Arruda A, Hui S, Loperena M, Burgess S, Graupera I, Hotamisligil G | 2023 | bioRxiv | Metabolism | Area Quantification | HALO |
| Synergistic therapeutic combination with a CAF inhibitor enhances CAR-NK-mediated cytotoxicity via reduction of CAF-released IL-6 | Lee Y, Go G, Koh E, Yoon H, Seo M, Hong S, Jeong J, Kim J, Cho D, Kim T, Kim S, Jun E, Jang M | 2023 | Journal for ImmunoTherapy of Cancer | Immuno-oncology | Area Quantification | HALO |
| Feasibility of [18F]FSPG PET for Early Response Assessment to Combined Blockade of EGFR and Glutamine Metabolism in Wild-Type KRAS Colorectal Cancer | Bae S, Wang J, Georgiou D, Wen X, Cohen A, Geng L, Tantawy M, Manning H | 2023 | Tomography | Oncology | Area Quantification | 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 |
| Cannabinoids modulate the microbiota–gut–brain axis in HIV/SIV infection by reducing neuroinflammation and dysbiosis while concurrently elevating endocannabinoid and indole-3-propionate levels | McDew-White M, Lee E, Premadasa L, Alvarez X, Okeoma C, Mohan M | 2023 | Journal of Neuroinflammation | Neuroscience, Infectious Disease | Area Quantification | HALO |
| TIPE2 Inhibits MGD Inflammation by Regulating Macrophage Polarization | Zhao S, Shen Y, Wu S, Shao Y, Shi R, Yan Y, Zhao H | 2023 | Journal of Personalized Medicine | Immunology | Area Quantification, Highplex FL | HALO |
| Inhibition of Cellular MEK/ERK Signaling Suppresses Murine Papillomavirus Type 1 Replicative Activities and Promotes Tumor Regression | Luna A, Young J, Sterk R, Bondu V, Schultz F, Kusewitt D, Kang H, Ozbun M | 2023 | bioRxiv | Oncology, Infectious Disease | Area Quantification, Cytonuclear | HALO |
| Bi-allelic mutation in SEC16B alters collagen trafficking and increases ER stress | El-Gazzar A, Voraberger B, Rauch F, Mairhofer M, Schmidt K, Guillemyn B, Mitulovic G, Reiterer V, Haun M, Mayr M, Mayr J, Kimeswenger S, Drews O, Saraff V, Shaw N, Fratzl-Zelman N, Symoens S, Farhan H, Hogler W | 2023 | EMBO Molecular Medicine | Other | Area Quantification, Highplex FL | HALO |
| Tumour Extracellular Vesicles Induce Neutrophil Extracellular Traps To Promote Lymph Node Metastasis | Su X, Brassard A, Bartolomucci A, Dhoparee-Dooma I, Qiu Q, Tsering T, Rohanizadeh R, Koufos O, Giannias B, Bourdeau F, Feng L, Leo S, Sangwan V, Tankel J, Quail D, Spicer J, Burnier J, Bailey S, Ferri L, Cools-Lartigue J | 2023 | bioRxiv | Immuno-oncology | Area Quantification, Highplex FL | HALO |
| The localization of molecularly distinct microglia populations to Alzheimer’s disease pathologies using QUIVER | Shahidehpour R, Nelson A, Sanders L, Embry C, Nelson P, Bachstetter A | 2023 | Acta Neuropathologica Communications | Neuroscience | Area Quantification, Object Colocalization, Spatial Analysis, Registration | HALO |
| Sustained delivery of a heterodimer bone morphogenetic protein-2/7 via a collagen hydroxyapatite scaffold accelerates and improves critical femoral defect healing | Liu Y, Puthia M, Sheehy E, Ambite I, Petrlova J, Prithviraj S, Oxborg M, Sebastian S, Vater C, Zwingenberger S, Struglics A, Bourgine P, O’Brien F, Raina D | 2023 | Acta Biomaterialia | Biomaterials | Area Quantification, Figure Maker | HALO |
| Repertoire of P-glycoprotein drug transporters in the zoonotic nematode Toxocara canis | Chelladurai J, Martin K, Vardaxis P, Reinemeyer C, Vijayapalani P, Robertson A, Brewer M | 2023 | Scientific Reports | Infectious Disease | Area Quantification | HALO |
| Chronic immune activation and gut barrier dysfunction is associated with neuroinflammation in ART-suppressed SIV+ rhesus macaques | Byrnes S, Busman-Sahay K, Angelovich T, Younger S, Taylor-Brill S, Nekorchuk M, Bondoc S, Dannay R, Terry M, Cochrane C, Jenkins T, Roche M, Deleage C, Bosinger S, Paiardini M, Brew B, Estes J, Churchill M | 2023 | PLOS Pathogens | Infectious Disease | Area Quantification, Object Colocalization, ISH, Highplex FL | HALO |
| MAIT cell inhibition promotes liver fibrosis regression via macrophage phenotype reprogramming | Mabire M, Hegde P, Hammoutene A, Wan J, Caër C, Al Sayegh R, Cadoux M, Allaire M, Weiss E, Thibault-Sogorb T, Lantz O, Goodhardt M, Paradis V, de la Grange P, Gilgenkrantz H, and Lotersztajn S | 2023 | Nature Communications | Gastroenterology | Area Quantification | HALO |
| Cannabinoid enhancement of lncRNA MMP25-AS1/MMP25 interaction reduces neutrophil infiltration and intestinal epithelial injury in HIV/SIV infection | Premadasa L, Lee E, McDew-White M, Alvarez X, Jayakumar S, Ling B, Okeoma C, Byrareddy S, Kulkarni S, and Mohan M | 2023 | JCI Insight | Infectious Disease | Area Quantification, Highplex FL | HALO |
| Disrupting the α-synuclein-ESCRT interaction with a peptide inhibitor mitigates neurodegeneration in preclinical models of Parkinson’s disease | Nim S, O’Hara D, Corbi-Verge C, Perez-Riba A, Fujisawa K, Kapadia M, Chau H, Albanese F, Pawar G, De Snoo M, Ngana S, Kim J, El-Agnaf O, Rennella E, Kay L, Kalia S, Kalia L, Kim P | 2023 | Nature Communications | Neuroscience | Area Quantification | HALO |
| In situ microwave fixation provides an instantaneous snapshot of the brain metabolome | Juras J, Webb M, Young L, Markussen K, Hawkinson T, Buoncristiani M, Bolton K, Coburn P, Williams M, Sun L, Sanders W, Bruntz R, Conroy L, Wang C, Gentry M, Smith B, Sun R | 2023 | Cell Reports Methods | Other | Area Quantification | HALO |
| Dual truncation of tau by caspase-2 accelerates its CHIP-mediated degradation | Reinhardt L, Musacchio F, Bichmann M, Behrendt A, Ercan-Herbst E, Stein J, Becher I, Haberkant P, Mader J, Schöndorf D, Schmitt M, Korffmann J, Reinhardt P, Pohl C, Savitski M, Klein C, Gasparini L, Fuhrmann M, Ehrnhoefer D | 2023 | Neurobiology of Disease | Neuroscience | Area Quantification | HALO |
| Immunomodulatory amnion-derived mesenchymal stromal cells preserve muscle function in a mouse model of Duchenne muscular dystrophy | Nitahara-Kasahara Y, Nakayama S, Kimura K, Yamaguchi S, Kakiuchi Y, Nito C, Hayashi M, Nakaishi T, Ueda Y, Okada T | 2023 | Stem Cell Research & Therapy | Myology | Area Quantification | HALO |
| Single cell G-protein coupled receptor profiling of activated kidney fibroblasts expressing transcription factor 21 | Kaur H, Yerra VG, Batchu SN, Tran DT, Kabir MDG, Liu Y, Advani SL, Sedrak P, Geldenhuys L, Tennankore KK, Poyah P, Siddiqi FS, Advani A | 2023 | British Journal of Pharmacology | Fibrosis | Area Quantification | HALO |
| Exploration of spatial heterogeneity of tumor microenvironment in nasopharyngeal carcinoma via transcriptional digital spatial profiling | Wang L, Wang D, Zeng X, Zhang Q, Wu H, Liu J, Wang Y, Liu G, Poan Y | 2023 | International Journal of Biological Sciences | Oncology | Area Quantification | HALO |
| The role of human endometrial stem cells application in endometrial-factor induced infertility | Bausyte R, Vaigauskaite B, Borutinskaite V, Valatkaite E, Besusparis J, Valkiuniene R, Kazenaite E, Ramasauskaite D, Navakauskiene R | 2023 | Research Square | Other | Area Quantification | HALO |
| Microglial depletion does not impact alphasynuclein aggregation or nigrostriatal degeneration in the rat preformed fibril model | Stoll A, Kemp C, Patterson J, Kubik M, Kuhn N, Benskey M, Duffy M, Luk K, Sortwell C | 2023 | Research Square | Neuroscience | Area Quantification | HALO |
| Therapeutic effects of axitinib, an anti-angiogenic tyrosine kinase inhibitor, on interstitial cystitis | Shin J, Ryu C, Yu H, Park Y, Shin D, Choo M | 2023 | Scientific Reports | Other | Area Quantification | HALO |
| Context-dependent activation of STING-interferon signaling by CD11b agonists enhances anti-tumor immunity | Liu X, Hogg G, Zuo C, Borcherding N, Baer J, Lander V, Kang LI, Knolhoff B, Ahmad F, Osterhout R, Galkin A, Bruey J, Carter L, Mpoy C, Vij K, Fields R, Schwarz J, Park H, Gupta V, DeNardo D | 2023 | Cancer Cell | Immuno-oncology | Area Quantification, Cytonuclear, Highplex FL | HALO |
| Reciprocal Interaction of Cancer Stem Cells of Cholangiocarcinoma with Macrophage | Wang X, Golino J, Hawk N, Xie C | 2023 | Stem Cell Reviews and Reports | Oncology | Area Quantification | HALO |
| Mucin 4 is a cellular biomarker of necrotizing bronchiolitis in influenza A virus infection | Arruda B, Kanefsky R, Hau S, Janzen G, Anderson T, Baker A | 2023 | Microbes and Infection | Infectious Disease | Area Quantification | HALO |
| PI3K inhibition circumvents resistance to SHP2 blockade in metastatic triple-negative breast cancer | Amante RJ, Jehanno C, De Silva D, Coissieux M, Ackerknecht M, Romanet V, Sethi A, Hamelin B, Preca B, Piscuoglio S, Ng C, Mohseni M, Bentires-Alj M | 2023 | Journal of Mammary Gland Biology and Neoplasia | Oncology | Area Quantification | HALO |
| CNS-dominant human FMRP isoform rescues seizures, fear, and sleep abnormalities in Fmr1-KO mice | Wong H, Hooper A, Kang H, Lee S, Zhao J, Sadhu C, Rawat S, Gray S, Hampson D | 2023 | JCI Insight | Neuroscience | Area Quantification | 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 |
| Orthotopic model of pancreatic cancer using CD34+ humanized mice and generation of tumor organoids from humanized tumors | Jeong J, Park S, Lee S, Kim Y, Shim I, Jeong S, Choi E, Kim J, Jun E | 2023 | International Immunopharmacology | Immuno-oncology | Area Quantification | HALO |
| The Effects of Acute Ethanol Intoxication on Spinal Cord Injury Outcomes in Female Mice | Glaser E, Stewart A, Jagielo-Miller J, Bailey C, Prendergast M, Gensel J | 2023 | Journal of Neurotrauma | Neuroscience | Area Quantification | 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 |
| The antiviral effects of a MEK1/2 inhibitor promote tumor regression in a preclinical model of human papillomavirus infection-induced tumorigenesis | Luna A, Young J, Sterk R, Bondu V, Schultz F, Kusewitt D, Kang H, Ozbun M | 2023 | Antiviral Research | Oncology, Infectious Disease | Area Quantification, Cytonuclear | HALO |
| The Defenders of the Alveolus Succumb in COVID-19 Pneumonia to SARS-CoV-2 and Necroptosis, Pyroptosis and Panoptosis | Schifanella L, Anderson J, Wieking G, Southern P, Antinori S, Galli M, Corbellino M, Lai A, Klatt N, Schacker T, Haase A | 2023 | The Journal of Infectious Diseases | Infectious Disease | Area Quantification | HALO |
| Histological validation of atrial structural remodelling in patients with atrial fibrillation | Takahashi Y, Yamaguchi T, Otsubo T, Nakashima K, Shinzato K, Osako R, Shichida S, Kawano Y, Fukui A, Kawaguchi A, Aishima S, Saito T, Takahashi N, Node K | 2023 | European Heart Journal | Other | Area Quantification | HALO |
| Decreased left heart flow in fetal lambs causes left heart hypoplasia and pro-fibrotic tissue remodeling | Reuter MS, Sokolowski DJ, Diaz-Mejia JJ, Keunen J, de Vrijer B, Chan C, Wang L, Ryan G, Chiasson DA, Ketela T, Scherer SW, Wilson MD, Jaeggi E, and Chaturvedi RR | 2023 | Communications Biology | Other | Area Quantification | HALO |
| Electrical impedance myography detects dystrophin-related muscle changes in mdx mice | Hiyoshi T, Zhao F, Baba R, Hirakawa T, Kuboki R, Suzuki K, Tomimatsu Y, O’Donnell P, Han S, Zach N, Nakashima M | 2023 | Research Square | Myology | Area Quantification, Muscle Fiber | HALO |
| Altered expression, but small contribution, of the histone demethylase KDM6A in obstructive uropathy in mice | Hong LYQ, Yeung ESH, Tran DT, Yerra VGY, Kaur HK, Kabir MDG, Advani SL, Liu Y, Batchu SN, Advani A | 2023 | Disease Models & Mechanisms | Gastroenterology | Area Quantification, Object Colocalization | HALO |
| Amyloid-β (Aβ) immunotherapy induced microhemorrhages are associated with activated perivascular macrophages and peripheral monocyte recruitment in Alzheimer’s disease mice | Taylor X, Clark I, Fitzgerald G, Oluoch H, Hole J, DeMattos R, Wang Y, Pan F | 2023 | Molecular Neurodegeneration | Immuno-oncology, Neuroscience | Area Quantification | HALO |
| Desialylated platelet clearance in the liver is a novel mechanism of systemic immunosuppression | Li J, Karakas D, Xue F, Chen Y, Zhu G, Ycel Y, MacParland S, Zhang H, Semple J, Freedman J, Shi Q, Ni H | 2023 | Research | Immunology | Area Quantification | HALO |
| SMRT Sequencing Enables High-Throughput Identification of Novel AAVs from Capsid Shuffling and Directed Evolution | Widler Casy, Garza IT, Chen X, Dong T, Hu Y, Kanchwala M, Trygg CB, Shyng C, Xing C, Bunnell BA, Braun SE, Gray SJ | 2023 | Genes | Other | Area Quantification | HALO |
| Differential effects of PGAM5 knockout on high fat high fructose diet and methionine choline-deficient diet induced non-alcoholic steatohepatitis (NASH) in mice | Li L, Guo C, Yu Y, Tie L, Lu G, Liu F, Han X, Ji L, Zou X | 2023 | Cell & Bioscience | Metabolism | Area Quantification | HALO |
| Rosmarinic acid alleviates intestinal inflammatory damage and inhibits endoplasmic reticulum stress and smooth muscle contraction abnormalities in intestinal tissues by regulating gut microbiota | Li K, Wu J, Xu S, Li X, Zhang Y, Gao X | 2023 | Microbiology Spectrum | Infectious Disease | Area Quantification | 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 |
| Regional and cellular iron deposition patterns predict clinical subtypes of multiple system atrophy | Lee S, Martinez-Valbuena I, Lang AE, Kovacs GG | 2023 | Research Square | Neuroscience | Area Quantification, Object Colocalization | HALO |
| A novel retinoic acid receptor-γ agonist antagonizes immune checkpoint resistance in lung cancers by altering the tumor immune microenvironment | Wei CH, Huang L, Kreh B, Liu X, Tyutyunyk-Massey L, Kawakami M, Chen Z, Shi M, Kozlov S, Chan KC, Andresson T, Carrington M, Vuligonda V, Sanders ME, Horowitz A, Hwu P, Peng W, Dmitrovsky E, Liu X | 2023 | Scientific Reports | Immuno-oncology | Area Quantification, Cytonuclear | HALO, HALO AI |
| Gys1 Antisense Therapy Prevents Disease-Driving Aggregates and Epileptiform Discharges in a Lafora Disease Mouse Model | Donohue K, Fitzsimmons B, Bruntz R, Markussen K, Young L, Clarke H, Coburn P, Griffith L, Sanders W, Klier J, Burke S, Maurer A, Minassian B, Sun R, Kordasiewisz H, Gentry M | 2023 | Neurotherapeutics | Neuroscience | Area Quantification | HALO |
| Parvalbumin in the metabolic pathway of glutamate and γ-aminobutyric acid: Influence on expression of GAD65 and GAD67 | Zeng C, Lei D, Lu Y, Huang Q, Wu Y, Yang S, Wu Y | 2023 | Archives of Biochemistry and Biophysics | Neuroscience | Area Quantification | HALO |
| Novel read through agent: ZKN-0013 demonstrates efficacy in APCmin model of familial adenomatous polyposis | Graf M, Apte S, Terzo E, Padhye S, Shi S, Cox M, Clark R, Modur V, Badarinarayana V | 2023 | Journal of Molecular Medicine | Oncology | Area Quantification | HALO |
| p38MAPKa stromal reprogramming sensitizes metastatic breast cancer to immunotherapy | Faget D, Luo X, Inkman M, Ren Q, Su X, Ding K, Waters M, Raut G, Pandey G, Dodhiawala P, Ramalho-Oliveira R, Ye J, Cole T, Murali B, Zheleznyak A, Shokeen M, Weiss K, Monahan J, DeSelm C, Lee A, Oesterreich S, Weilbaecher K, Zhang J, DeNardo D, Stewart S | 2023 | Cancer Discovery | Immuno-oncology | Area Quantification | HALO |
| T cell immunotherapies engage neutrophils to eliminate tumor antigen escape variants | Hirschhorn D, Budhu S, Kraehenbuehl L, Gigoux M, Schröder D, Chow A, Ricca J, Gasmi B, De Henau O, Mangarin L, Li Y, Hamadene L, Flamar A, Choi H, Cortez C, Liu C, Holland A, Schad S, Schulze I, Warner A, Hollmann T, Arora A, Panageas K, Rizzuto G, Duhen R, Weinberg A, Spencer C, Ng D, He X, Albrengues J, Redmond D, Egeblad M, Wolchok J, Merghoub T | 2023 | Cell | Immuno-oncology | Area Quantification, Highplex FL | HALO |
| Coptisine modulates the pharmacokinetics of florfenicol by targeting CYP1A2, CYP2C11 and CYP3A1 in the liver and P-gp in the jejunum of rats: a pilot study | Li S, Zhang M, Wang B, Li X, Liang G | 2023 | Xenobiotica | Gastroenterology | Area Quantification | HALO |
| Phase I Study of SYNB1891, an Engineered E. coli Nissle Strain Expressing STING Agonist, with and without Atezolizumab in Advanced Malignancies | Luke J, Piha-Paul S, Medina T, Verschraegen C, Varterasian M, Brennan A, Rise R, Sokolovska A, Strauss J, Hava D, Janku F | 2023 | Clinical Cancer Research | Immuno-oncology | Area Quantification | HALO |
| Hepatic proinflammatory myeloid phenotypes are a hallmark of Ebola virus Kikwit pathogenesis in rhesus monkeys | Tseng A, Carossino M, Gertje H, O’Connell A, Gummuluru S, Kolachalama V, Balasuriya U, Connor J, Bennett R, Liu D, Hensley L, Crossland N | 2023 | Veterinary Pathology | Infectious Disease | Area Quantification, Highplex FL | HALO |
| Nicotinamide N-methyltransferase sustains a core epigenetic program that promotes metastatic colonization in breast cancer | Pinto Couto J, Vulin M, Jehanno C, Coissieux M, Hamelin B, Schmidt A, Ivanek R, Sethi A, Bräutigam K, Frei A, Hager C, Manivannan M, Gómez-Miragaya J, Obradović M, Varga Z, Koelzer V, Mertz K, Bentires-Alj M | 2023 | The EMBO Journal | Oncology | Area Quantification, Multiplex IHC | HALO, HALO AI |
| Effect of Dupilumab on Type 2 Biomarkers in Chronic Rhinosinusitis With Nasal Polyps: SINUS-52 Study Results | Bachert C, Laidlaw T, Cho S, Mullol J, Swanson B, Naimi S, Classe M, Harel S, Jagerschmidt A, Laws E, Ruddy M, Praestgaard A, Amin N, Mannent L | 2023 | Annals of Otology, Rhinology & Laryngology | Other | Area Quantification | HALO, HALO AI |
| 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 |
| ASK1 inhibitors are potential pan-antiviral drugs, which dampen replication of diverse viruses including SARS-CoV2 | Demian W, Jacob R, Cormier O, Nazli A, Melki M, Asavajaru A, Baid K, Zhang A, Miller M, Kaushic C, Banerjee A, Mossman K | 2023 | Antiviral Research | Infectious Disease | Area Quantification | 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 |
| 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 |
| A2ML1 Inhibits Esophageal Squamous Cell Carcinoma Progression and Serves as a Novel Prognostic Biomarker | Zhang X, Tang C, Lian J, Jiang Y | 2023 | Canadian Journal of Gastroenterology and Hepatology | Oncology | Area Quantification | HALO |
| Specific Polo-Like Kinase 1 Expression in Nodular Lymphocyte-Predominant Hodgkin Lymphoma Suggests an Intact Immune Surveillance Program | Weiss J, Gibbons K, Ehyaee V, Perez-Silos V, Zevallos A, Maienschein-Cline M, Brister E, Sverdlov M, Shah E, Balakrishna J, Symes E, Frederiksen J K, Gann P H, Post R, Lopez-Hisijos N, Reneau J, Venkataraman G, Bailey N, Brown N A, Xu M L, Murga-Zamalloa C | 2023 | The American Journal of Pathology | Oncology | Area Quantification, Spatial Analysis | HALO |
| The apelin‑apelin receptor signaling pathway in fibroblasts is involved in tumor growth via p53 expression of cancer cells | Saiki H, Hayashi Y, Yoshii S, Kimura E, Nakagawa K, Kato M, Uema R, Inoue T, Sakatani A, Yoshihara T, Tsujii Y, Shinzaki S, Iijima H, Takehara T | 2023 | International Journal of Oncology | Oncology | Area Quantification | HALO |
| 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 |
| Seeding the aggregation of TDP-43 requires post-fibrillization proteolytic cleavage | Kumar ST, Nazarov S, Porta S, Majarjan N, Cendrowska U, Kabani M, Finamore F, Xu Y, Lee VMY, Lashuel HA | 2023 | Nature Neuroscience | Neuroscience | Area Quantification, Highplex FL | HALO |
| Donor IL-17 receptor A regulates LPS-potentiated acute and chronic murine lung allograft rejection | Watanabe T, Juvet SC, Berra G, Havlin J, Zhong W, Boonstra K, Daigneault T, Horie M, Konoeda C, Teskey G, Guan Z, Hwang DM, Liu M, Keshavjee S, Martinu T | 2023 | JCI Insight | Immunology, Fibrosis | Area Quantification | 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 |
| Parishin treatment alleviates cardiac aging in naturally aged mice | Zhou S, Zhao X, Wu L, Yan R, Sun L, Zhang Q, Gong C, Liu Y, Xiang L, Li S, Wang P, Yang Y, Ren W, Jiang J, Yang Y | 2023 | Heliyon | Other | Area Quantification | HALO |
| Fecal microbiota transplanted from old mice promotes more colonic inflammation, proliferation, and tumor formation in azoxymethane-treated A/J mice than microbiota originating from young mice | Crossland NA, Beck S, Tan WY, Lo M, Mason JB, Zhang C, Guo W, Crott JW | 2023 | Gut Microbes | Other | Area Quantification, Highplex FL | HALO |
| Intratracheally Administered Peptide-Modified Lipid Admixture Containing Fasudil and/or DETA NONOate Ameliorates Various Pathologies of Pulmonary Arterial Hypertension | Sarkar T, Moinuddin SM, Isbatan A, Chen J, Mann D, Ahsan F | 2023 | Pharmaceuticals | Other | Area Quantification | HALO, HALO Link |
| Chiral metal-organic frameworks incorporating nanozymes as neuroinflammation inhibitors for managing Parkinson’s disease | Jiang W, Li Q, Zhang R, Li J, Lin Q, Li J, Zhou X, Yan X, Fan K | 2023 | Nature Communications | Neuroscience | Area Quantification | HALO |
| COVID-19 and influenza infections mediate distinct pulmonary cellular and transcriptomic changes | Wang C, Khatun M S, Zhang Z, Allen M J, Chen Z, Ellsworth C R, Currey J M, Dai G, Tian D, Bach K, Yin X-M, Traina-Dorge V, Rappaport J, Maness N J, Blair R V, Kolls J K, Pociask D A, Qin X | 2023 | Communications Biology | Infectious Disease | Area Quantification, Highplex FL, Figure Maker | HALO, HALO AI |
| ApoER2-Dab1 disruption as the origin of pTau-associated neurodegeneration in sporadic Alzheimer’s disease | Ramsden C, Zamora D, Horowitz M, Jahanipour J, Calzada E, Li X, Keyes G, Murray H, Curtis M, Faull R, Sedlock A, Maric D | 2023 | Acta Neuropathologica Communications | Neuroscience | Area Quantification, Object Colocalization | HALO |
| Mesenchymal cells support the early retention of primary alveolar type 2 cells on acellular mouse lung scaffolds | Taniguchi D, Ahmadipour M, Eiliazadeh A, Duchesneau P, Nagayasu T, Haykal S, Karoubi G, Waddell T | 2023 | Regenerative Therapy | Other | Area Quantification | 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 |
| Antimicrobial activity of yak beta-defensin 116 against Staphylococcus aureus and its role in gut homeostasis | Li B, Zhang L, Wang L, Wei Y, Guan J, Mei Q, Hao N | 2023 | International Journal of Biological Macromolecules | Infectious Disease | Area Quantification | HALO |
| A microtubule stabilizer ameliorates protein pathogenesis and neurodegeneration in mouse models of repetitive traumatic brain injury | Zhao X, Zeng W, Xu H, Sun Z, Hu Y, Peng B, McBride JD, Duan J, Deng J, Zhang B, Kim SJ, Zoll B, Saito T, Sasaguri H, Saido TC, Ballatore C, Yao H, Wang Z, Trojanowski JQ, Brunden KR, Lee VMY, He Z | 2023 | Science Translational Medicine | Neuroscience | Area Quantification, Object Colocalization, Multiplex IHC | HALO |
| A novel porous hydroxyapatite scaffold (pHAMG) enhances angiogenesis and osteogenesis around dental implants by regulating the immune microenvironment | Li P, Zhou X, Xun Q, Zheng J, Mu Y, Liao J | 2023 | Clinical Oral Investigations | Other | Area Quantification | HALO |
| An antibody-drug conjugate directed to tissue factor shows preclinical anti-tumor activity in head and neck cancer as a single agent and in combination with chemoradiotherapy | Bakema J E, Stigter-van Walsum M, Harris J R, Ganzevles S H, Muthuswamy A, Houtkamp M, Plantinga T S, Bloemena E, Brakenhoff R H, Breij E C W, van de Ven R | 2023 | Molecular Cancer Therapeutics | Oncology | Area Quantification | HALO |
| Amelioration of Tumor-Promoting Microenvironment via Vascular Remodeling and CAF Suppression using E7130: Biomarker Analysis by Multi-modal Imaging Modalities | Ito K, Yamaguchi M, Semba T, Tabata K, Tamura M, Aoyama M, Abe T, Asano O, Terada Y, Funashashi Y, Fujii H | 2023 | Molecular Cancer Therapeutics | Oncology | Area Quantification, Object Colocalization | HALO |
| Impact of tectoridin on the pharmacokinetics of florfenicol via targeting cytochrome P450 and P-glycoprotein of rats | Zhang M, Wang B, Li X, Yin Q, Liang G, Li S | 2023 | Xenobiotica | Other | Area Quantification | HALO |
| Inulin-like polysaccharide ABWW may impede CCl4 induced hepatic stellate cell activation through mediating the FAK/PI3K/AKT signaling pathway in vitro & in vivo | Dai X, Du Z, Jin C, Tang B, Chen X, Jing X, Shen Y, He F, Wang S, Li J, Ding K, Zang Y | 2023 | Carbohydrate Polymers | Fibrosis | Area Quantification | 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 |
| Electroacupuncture at Sensitized Acupoints Relieves Somatic Referred Pain in Colitis Rats by Inhibiting Sympathetic-Sensory Coupling to Interfere with 5-HT Signaling Pathway | Yang Y, Qu J, Guo H, Zhou H, Ruan X, Peng Y, Shen X, Xiong J, Wang Y. | 2023 | Chinese Journal of Integrative Medicine | Gastroenterology | Area Quantification | HALO |
| Enterococcus faecium inhibits NF-κB / NLRP3 / Caspase-1 signaling pathway to antagonize enterotoxigenic Escherichia coli-mediated inflammatory response | Zheng H, Pu S, Liu J, Yang F, Chen D | 2023 | Canadian Journal of Microbiology | Infectious Disease | Area Quantification | HALO |
| Cannabinoid control of gingival immune activation in chronically SIV-infected rhesus macaques involves modulation of the indoleamine-2,3-dioxygenase-1 pathway and salivary microbiome | McDew-White M, Lee E, Alvarez X, Sestak K, Ling B, Byrareddy S, Okeoma C, Mohan M | 2022 | EBioMedicine | Infectious Disease | Area Quantification | HALO |
| Tumor cell-derived exosomes deliver TIE2 protein to macrophages to promote angiogenesis in cervical cancer | Du S, Qian J, Tan S, Li W, Liu P, Zhao J, Zeng Y, Xu L, Wang Z, Cai J | 2022 | Cancer Letters | Oncology | Area Quantification, Spatial Analysis | HALO |
| Switching to Regular Diet Partially Resolves Liver Fibrosis Induced by High-Fat, High-Cholesterol Diet in Mice | Farooq M, Hameed H, Dimanchi-Boitrel M, Piquet-Pellorce C, Samson M, Le Seyec J | 2022 | Nutrients | Metabolism | Area Quantification | HALO |
| High-dose rifampin improves bactericidal activity without increased intracerebral inflammation in animal models of tuberculous meningitis | Ruiz-Bedoya C, Mota F, Tucker E, Mahmud F, Reyes-Mantilla M, Erice C, Bahr M, Flavahan K, De Jesus P, Kim J, Foss C, Peloquin C, Hammound D, Ordonez A, Pardo C, Jain S | 2022 | The Journal of Clinical Investigation | Infectious Disease | Area Quantification | 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 |
| The oral drug nitazoxanide restricts SARS-CoV-2 infection and attenuates disease pathogenesis in Syrian hamsters | Miorin L, Mire C, Ranjbar S, Hume A, Huang J, Crossland N, White K, Laporte M, Kehrer T, Haridas V, Moreno E, Nambu A, Jangra S, Cupic A, Dejosez M, Abo K, Tseng A, Werder R, Rathnasinghe R, Mutetwa T, Ramos I, Sainz de Aja J, Garcia de Alba Rivas C, Schotsaert M, Corley R, Falvo J, Fernandez-Sesma A, Kim C, Rossingnol J, Wilson A, Zwaka T, Kotton D, Muhlberger E, Garcia-Sastre A, Goldfeld A | 2022 | bioRxiv | Infectious Disease | Area Quantification | HALO |
| Extracellular vesicles released after cranial radiation: An insight into an early mechanism of brain injury | Sukati S, Ho J, Chaiswing L, Sompol P, Pandit H, Wei W, Izumi T, Chen Q, Weiss H, Noel T, Bondada S, Butterfield D, St. Cair D | 2022 | Brain Research | Neuroscience | Area Quantification | HALO |
| An Fc-inert PD-L1×4-1BB bispecific antibody mediates potent anti-tumor immunity in mice by combining checkpoint inhibition and conditional 4-1BB co-stimulation | Muik A, Altintas I, Gieseke F, Schoedel K, Burm S, Toker A, Salcedo T, Verzijl, Eisel D, Grunwitz C, Kranz L, Vormehr M, Satijn D, Diken M, Kreiter S, Sasser K, Ahmadi T, Tureci O, Breij E, Jure-Kunkel M, Sahin U | 2022 | OncoImmunology | Immuno-oncology | Area Quantification, Immune, Multiplex IHC | HALO |
| 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 H | 2022 | International Journal of Molecular Sciences | Oncology | Area Quantification, Cytonuclear, Membrane | HALO |
| Collagen-VI expression is negatively mechanosensitive in pancreatic cancer cells and supports the metastatic niche | Papalazarou V, Drew J, Juin A, Spence H, Nixon C, Salmeron-Sanchez M, Machesky L | 2022 | bioRxiv | Oncology | Area Quantification, Figure Maker | HALO |
| Transcriptional and DNA Methylation Signatures of Subcutaneous Adipose Tissue and Adipose-Derived Stem Cells in PCOS Women | Divoux A, Erdos E, Whytock K, Osborne T, Smith S | 2022 | Cells | Metabolism | Area Quantification | 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 |
| An anti-PD-1–GITR-L bispecific agonist induces GITR clustering-mediated T cell activation for cancer immunotherapy | Chan S, Belmar N, Ho S, Rogers B, Stickler M, Graham M, Lee E, Tran N, Zhang D, Gupta P, Sho M, MacDonough T, Woolley A, Kim H, Zhang H, Liu W, Zheng P, Dezso Z, Halliwill K, Ceccarelli M, Rhodes S, Thakur A, Forsyth C, Xiong M, Tan S, Iyer R, Lake M, Digiammarino E, Zhou L, Bigelow L, Longenecker K, Judge R, Liu C, Trumble M, Remis J, Fox M, Cairns B, Akamatsu Y, Hollenbaugh D, Farding F, Alvarez H | 2022 | Nature Cancer | Immuno-oncology | Area Quantification | HALO |
| Sulforaphane exhibits antiviral activity against pandemic SARS-CoV-2 and seasonal HCoV-OC43 coronaviruses in vitro and in mice | Ordonez A, Bullen C, Villabona-Rueda A, Thompson E, Turner M, Merino V, Yan Y, Kim J, Davis S, Komm O, Powell J, D’Alessio F, Yolken R, Jain S, Jones-Brando L | 2022 | Communications Biology | Infectious Disease | Area Quantification | HALO |
| Ad26.COV2.S prevents upregulation of SARS-CoV-2 induced pathways of inflammation and thrombosis in hamsters and rhesus macaques | Aid M, Vidal S, Piedra-Mora C, Ducat S, Chan C, Bondoc S, Colarusso A, Starke C, Nekorchuk M, Busman-Sahay K, Estes J, Martinot A, Barouch D | 2022 | PLOS Pathogens | Infectious Disease | Area Quantification, Multiplex IHC | HALO, HALO AI |
| Humanized mice reveal a macrophage-enriched gene signature defining human lung tissue protection during SARS-CoV-2 infection | Kenney D, O’Connell A, Turcinovic J, Montanaro P, Hekman R, Tamura T, Berneshawi A, Cafiero T, Abdullatif S, Blum B, Goldstein S, Heller B, Gertje H, Bullitt E, Trachtenberg A, Chavez E, Nono E, Morrison C, Tseng A, Sheikh A, Kurnick S, Grosz K, Bosmann M, Ericsson M, Huber B, Saeed M, Balazs A, Francis K, Klose A, Paragas N, Campbell J, Connor J, Emili A, Crossland N, Ploss A, Douam F | 2022 | Cell Reports | Infectious Disease | Area Quantification, Highplex FL | HALO |
| Interface astrogliosis in contact sport head impacts and military blast exposure | Babcock K, Abdolmohammadi B, Kiernan P, Mahar I, Cherry J, Alvarez V, Goldstein L, Stein T, McKee, Huber B | 2022 | Acta Neuropathologica Communications | Neuroscience | Area Quantification | HALO |
| Neuropathology and virus in brain of SARS-CoV-2 infected non-human primates | Rutkai I, Mayer M, Hellmers L, Ning B, Huang Z, Monjure C, Coyne C, Silvestri R, Golden N, Hensley K, Chandler K, Lehmicke G, Bix G, Maness N, Russell-Lodrigue K, Hu T, Roy C, Blair R, Bohm R, Doyle-Meyers L, Rappaport J, Fisher T | 2022 | Nature Communications | Infectious Disease | Area Quantification | HALO |
| Type I interferon regulates proteolysis by macrophages to prevent immunopathology following viral infection | Lee A, Feng E, Chew M, Balint E, Poznanski S, Giles E, Zhang A, Marzok A, Revill S, Vahedi F, Dubey A, Ayaub E, Jimenez-Saiz R, McGrath J, Ritchie T, Jordana M, Jonigk D, Ackermann M, Ask K, Miller M, Richards C, Ashkar A | 2022 | PLOS Pathogens | Infectious Disease | Area Quantification, Multiplex IHC, TMA | HALO |
| Single-cell profling of human dura and meningioma reveals cellular meningeal landscape and insights into meningioma immune response | Wang A, Bowman-Kirigin J, Desai R, Kang L, Patel P, Patel B, Khan S, Bender D, Marlin M, Liu J, Osbun J, Leuthardt E, Chicoine M, Dacey Jr R, Zipfel G, Kim A, DeNardo D, Petti A, Dunn G | 2022 | Genome Medicine | Neuroscience | Area Quantification | HALO |
| An in vivo accelerated developmental myelination model for testing promyelinating therapeutics | Lariosa-Willingham K, Leunoudakis D, Bragge T, Tolppanen L, Nurmi A, Flanagan M, Gibson J, Wilson D, Stratton J, Lehtimaki K, Miszczuk D | 2022 | BMC Neuroscience | Neuroscience | Area Quantification | HALO |
| Restoring Pro-healing/remodeling- associated M2a/c Macrophages using ON101 Accelerates Diabetic Wound Healing | Lin 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 S | 2022 | JID Innovations | Other | Area Quantification, Cytonuclear | HALO |
| ATG7 is a haploinsufficient repressor of tumor progression and promoter of metastasis | Long J, Kania E, McEwan D, Barthet V, Brucoli M, Ladds M, Nossing C, Ryan K | 2022 | Proceedings of the National Academy of Sciences | Oncology, Other | Area Quantification | HALO |
| Loss of EMP1 promotes the metastasis of human bladder cancer cells by promoting migration and conferring resistance to ferroptosis through activation of PPAR gamma signaling | Liu S, Shi J, Wang L, Huang Y, Zhao B, Ding H, Liu Y, Wang W, Chen Z, Yang J | 2022 | Free Radical Biology and Medicine | Oncology | Area Quantification | HALO |
| Prostate-Specific Membrane Antigen Is a Biomarker for Residual Disease following Neoadjuvant Intense Androgen Deprivation Therapy in Prostate Cancer | Bright J, Lis R, Ku A, Terrigino N, Whitlock N, Trostel S, Carrabba N, Harmon S, Turkbey B, Wilkonson S, Sowalsky A | 2022 | Journal of Urology | Oncology | Area Quantification | HALO |
| Hyperpolarized 13C-Pyruvate Metabolism as a Surrogate for Tumor Grade and Poor Outcome in Renal Cell Carcinoma—A Proof of Principle Study | Ursprung 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 F | 2022 | Cancers | Oncology | Area Quantification | HALO |
| The Key Molecular Mechanisms of Sini Decoction Plus Ginseng Soup to Rescue Acute Liver Failure: Regulating PPARα to Reduce Hepatocyte Necroptosis? | He Y, Zhang Y, Zhang J, Hu X | 2022 | Journal of Inflammation Research | Other | Area Quantification | HALO |
| TIE2-high cervical cancer cells promote tumor angiogenesis by upregulating TIE2 and VEGFR2 in endothelial cells | Tan S, Chen Y, Du S, Li W, Liu P, Zhao J, Yang P, Cai J, Gao R, Wang Z | 2022 | Translational Oncology | Oncology | Area Quantification | HALO |
| Maternal Undernutrition Model of Two Generations of Rats: Changes in the Aged Retina | Laurinaviciute G, Simkunaite-Rizgeliene R, Zalgeviciene V, Bartuskiene V, Cepuliene R, Jakimaviciene E, Galgauskas S, Petroska D, Besusparis J, Tutkuviene J | 2022 | Histology and Histopathology | Other | Area Quantification, Multiplex IHC | HALO |
| The SGLT2i Dapagliflozin Reduces RV Mass Independent of Changes in RV Pressure Induced by Pulmonary Artery Banding | Connelly K, Wu E, Visram A, Friedberg M, Batchu S, Yeera V, Thai K, Nghiem L, Zhang Y, Kabir G, Desjardins J, Advani A, Gilbert R | 2022 | Cardiovascular Drugs and Therapy | Other | Area Quantification | HALO |
| The Novel Gabapentinoid Mirogabalin Prevents Upregulation of α2δ-1 Subunit of Voltage-Gated Calcium Channels in Spinal Dorsal Horn in a Rat Model of Spinal Nerve Ligation | Domon Y, Kobayashi N, Kubota K, Kitano Y, Ueki H, Shimojo Y, Ishikawa K, Ofune Y | 2022 | Drug Research | Neuroscience | Area Quantification | HALO |
| Functional Intercellular Transmission of miHTT via Extracellular Vesicles: An In Vitro Proof-of-Mechanism Study | Morais R, Sogorb-Gonzalez M, Bar C, Timmer N, Van der Bent M, Wartel M, Valles A | 2022 | Cells | Neuroscience | Area Quantification | HALO |
| Cholesterol-Conjugated Short-Interfering RNA Silencing Tnf for the Treatment of Liver Macrophage-Mediated Acute Inflammation in Nonalcoholic Fatty Liver Disease | Craig K, Abrams M, Amiji M | 2022 | Nucleic Acid Therapeutics | Metabolism | Area Quantification | HALO |
| Deep learning-based quantification of NAFLD/NASH progression in human liver biopsies | Heinemann F, Gross P, Zeveleva S, Qian H, Hill J, Hofer A, Jonigk D, Diehl A, Abdelmalek M, Lenter M, Pullen S, Guarnieri P, Stierstorfer B | 2022 | Scientific Reports | Metabolism | Area Quantification | HALO, HALO AI |
| Glutaminase 2 Knockdown Reduces Hyperammonemia and Associated Lethality of Urea Cycle Disorder Mouse Model | Mao X, Chen H, Lin A, Kim S, Burczynski M, Na E, Halasz G, Sleeman M, Murphy A, Okamoto H, Cheng X | 2022 | Journal of Inherited Metabolic Disease | Metabolism | Area Quantification, ISH/FISH | HALO |
| Defects in NLRP6, autophagy and goblet cell homeostasis are associated with reduced duodenal CRH receptor 2 expression in patients with functional dyspepsia | Bruce J, Burns G, Soh W, Nair P Sherwin S, Fan K, Dowling L, Goggins B, Koloski N, Potter M, Bollipo S, Foster R, Gan L, Veysey M, Philpott D, Girardin S, Holtmann G, Kaiko G, Walker M, Talley N, Keely S | 2022 | Brain, Behavior, and Immunity | Metabolism | Area Quantification | HALO |
| Ex vivo enzymatic treatment converts blood type A donor lungs into universal blood type lungs | Wang A, Ribeiro R, Ali A, Brambate E, Abdelnour-Berchtold E, Michaelsen V, Zhang Y, Rahfeld P, Moon H, Gokhale H, Gazzalle A, Pal P, Liu M, Waddell T, Cserti-Gadewich C, Tinckam K, Kizhakkedathu J, West L, Keshavjee S, Withers S, Cypel M | 2022 | Science Translational Medicine | Other | Area Quantification, Cytonuclear | HALO |
| T-cell mediated targeted delivery of anti-PD-L1 nanobody overcomes poor antibody penetration and improves PD-L1 blocking at the tumor site | Pierre-Florent P, Bombart R, Desimpel P, Naulaerts S, Thouvenel L, Collet J, Van den Eynde B, Zhu J | 2022 | Cancer Immunology Research | Immuno-oncology | Area Quantification, Cytonuclear | HALO |
| Crocin alleviates cognitive impairment associated with atherosclerosis via improving neuroinflammation in LDLR−/− mice fed a high-fat/cholesterol diet | Song R, Han S, Gao H, Jiang H, Li X | 2022 | Phytotherapy Research | Neuroscience | Area Quantification | HALO |
| Reverse Transcriptase Inhibition Disrupts Repeat Element Life Cycle in Colorectal Cancer | Rajurkar M, Parikh A, Solovyov A, You E, Kulkarni A, Chu C, Xu K, Jaicks C, Taylor M, Wu C, Alexander K, Good C, Szabolcs A, Gerstberger S, Tran A, Xu N, Ebright R, Van Seventer E, Vo K, Tai E, Lu C, Joseph-Chazan J, Raabe M, Nieman L, Desai N, Arora K, Ligorio M, Thapar V, Cohen L, Garden P, Senussi Y, Zheng H, Allen J, Blaszkowsky L, Clark J, Goyal L, Wo J, Ryan D, Cocoran R, Deshpande V, Rivera M, Aryee M, Hong T, Berger S, WAlt D, Burns K, Park P, Greenbaum B, Ting D | 2022 | Cancer Discovery | Oncology | Area Quantification | 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 |
| Cytotoxic granzyme C–expressing ILC1s contribute to antitumor immunity and neonatal autoimmunity | Nixon B, Chou C, Krishna C, Dadi S, Michel A, Cornish A, Kansler E, Do M, Wang X, Capistrano K, Rudensky A, Leslie C, Li M | 2022 | Science Immunology | Immuno-oncology | Area Quantification | HALO |
| Phenotype-genotype correlation in aldosterone-producing adenomas characterized by intracellular cholesterol metabolism | Harashima S, Yamazaki Y, Motomura N, Ono Y, Omata K, Tezuka Y, Morimoto R, Nakamura Y, Satoh F, Suzuki H, Kwon G, Choi M, Sasano H | 2022 | The Journal of Steroid Biochemistry and Molecular Biology | Oncology, Metabolism | Area Quantification, Membrane | HALO |
| Impact of Physiologically Relevant Genistein Exposure at Different Time Windows on Puberty Onset and Neuroendocrine Function in Female Rats | Xiong J, Tian Y, Ma G, Wang X, Shan S, Cheng G | 2022 | Molecular Nutrition & Food Research | Other | Area Quantification | HALO |
| Periostin- and podoplanin- positive cancer-associated fibroblast subtypes cooperate to shape the inflamed tumor microenvironment in aggressive pancreatic adenocarcinoma | Neuzillet C, Nicolle R, Raffenne J, Tijeras-Raballand A, Brunel A, Astorgues-Xerri L, Vacher S, Arbateraz F, Fanjul M, Hilmi M, Samain R, Klein C, Perraud A, Rebours V, Mathonnet M, Bieche I, Kocher H, Cros J, Bousquet C | 2022 | Journal of Pathology | Oncology | Area Quantification | HALO |
| Atypical chemokine receptor 3 induces colorectal tumorigenesis in mice by promoting β-arrestin-NOLC1-fibrillarin-dependent rRNA biogenesis | Yang J, Miao R, Li Y, Pan T, Wu S, Qu X, Cui S | 2022 | Acta Pharmacologica Sinica | Oncology | Area Quantification | HALO |
| Gasdermin D maintains bone mass by rewiring the endo-lysosomal pathway of osteoclastic bone resorption | Li M, Yang D, Yan H, Tang Z, Jiang D, Zhang J, Chi Z, Nie W, Zhen W, Yu W, Chen S, Wang Z, Yu Q, Zhang X, Yang F, Fan S, Lin X, Wang D | 2022 | Developmental Cell | Other | Area Quantification, Multiplex IHC | HALO |
| Micellar nanoparticles inhibit the postoperative inflammation, recurrence and pulmonary metastasis of 4T1 breast cancer by blocking NF-κB pathway and promoting MDSCs depletion | Lu Z, Ma L, Mei L, Ren K, Li M, Zhang L, Liu X, He Q | 2022 | International Journal of Pharmaceutics | Immuno-oncology | Area Quantification | HALO |
| Evolutionary trajectory of receptor binding specificity and promiscuity of the spike protein of SARS-CoV-2 | Planchais C, Reyes-Ruiz A, Lacombe R, Zarantonello A, Lecerf M, Revel M, Roumenina L, Atanasov B, Mouquet H, Dimitrov J | 2022 | Protein Science | Infectious Disease | Area Quantification | HALO |
| Cell-specific dysregulation of iron and oxygen homeostasis as a novel pathophysiology in PSP | Lee S, Martinez-Valbuena I, de Andrea C, Villalba-Esparza M, Ilaalagan S, Couto B, Visanji N, Lang A, Kovacs G | 2022 | Annals of Neurology | Neuroscience | Area Quantification | HALO |
| The PSEN1 E280G mutation leads to increased amyloid-43 production in induced pluripotent stem cell neurons and deposition in brain tissue | Willumsen N, Arber C, Lovejoy C, Toombs J, Alatza A, Weston P, Chavez-Gutierrez L, Hardy J, Zetterberg H, Fox N, Ryan N, Lashley T, Wray S | 2022 | Brain Communications | Neuroscience | Area Quantification | HALO |
| MGAT2 inhibitor decreases liver fibrosis and inflammation in murine NASH models and reduces body weight in human adults with obesity | Cheng D, Zinker B, Luo Y, Shipkova P, De Oliveira C, Krishna G, Brown E, Boehm S, Tirucherai G, Gu H, Ma Z, Chu C, Onorato J, Kopcho L, Ammar R, Smith J, Devasthale P, Lawrence R, Stryker S, Dierks E, Azzara A, Carayannopoulos L, Charles E, Lentz K, Gordon D | 2022 | Cell Metabolism | Metabolism | Area Quantification | HALO |
| Yak DEFB124 alleviates intestinal injury caused by Staphylococcus aureus infection | Zhang L, Mei Q, Wang L, Guan J, Cao W, Hong N | 2022 | International Immunopharmacology | Infectious Disease | Area Quantification | HALO |
| Stem cell–derived CAR T cells traffic to HIV reservoirs in macaques | Barber-Axthelm IM, Barber-Axthelm V, Sze KY, Zhen A, Suryawanshi GW, Chen ISY, Zack JA, Kitchen SG, Kiem H-P, Peterson CW | 2021 | JCI Insight | Immunology, Infectious Disease | Area Quantification | HALO |
| Dystrophic microglia are associated with neurodegenerative disease and not healthy aging in the human brain | Shahidehpour RK, Higdon RE, Crawford NG, Neltner JH, Ighodaro ET, Patel E, Price D, Nelson PT, Bachstetter AD | 2021 | Neurobiology of Aging | Neuroscience | Area Quantification | HALO |
| Inhibition of Hedgehog signaling alters fibroblast composition in pancreatic cancer | Steele NG, Biffi G, Kemp SB, Zhang Y, Drouillard D, Syu L-J, Hao Y, Oni TE, Brosnan E, Elyada E, Doshi A, Hansma C, Espinoza C, Abbas A, The S, Irizarry-Negron VM, Halbrook CJ, Franks N, Hoffman M, Brown KL, Carpenter ES, Nwosu ZC, Johnson C, Lima F, Anderson MA, Park Y, Crawford HC, Lyssiotis CA, Frankel TF, Rao A, Bednar F, Dlugosz AA, Preall J, Tuveson DA, Allen B, di Magliano MP | 2021 | Clinical Cancer Research | Oncology | Area Quantification | HALO |
| Potential role of M2 TAMs around lymphatic vessels during lymphatic invasion in papillary thyroid carcinoma | Kabasawa T, Ohe R, Aung NY, Urano Y, Kitaoka T, Tamazawa N, Utsunomiya A, Yamakawa M | 2021 | Scientific Reports | Oncology | Area Quantification | HALO |
| Amylin deposition activates HIF1α and 6-phosphofructo-2-kinase/fructose-2, 6-biphosphatase 3 (PFKFB3) signaling in failing hearts of non-human primates | Liu M, Li N, Qu C, Gao Y, Wu L, Hu LG | 2021 | Communications Biology | Metabolism | Area Quantification, Cytonuclear | HALO |
| Frontotemporal lobar degeneration proteinopathies have disparate microscopic patterns of white and grey matter pathology | Giannini LAA, Peterson C, Ohm D, Xie SX, McMillan CT, Raskovsky K, Massimo L, Suh E, Van Deerlin VM, Wolk DA, Trojanowski JQ, Lee EB, Grossman M, Irwin DJ | 2021 | Acta Neuropathologica Communications | Neuroscience | Area Quantification | HALO |
| Exploring transcriptional regulators Ref-1 and STAT3 as therapeutic targets in malignant peripheral nerve sheath tumours | Gampala S, Shah F, Zhang C, Rhodes SD, Babb O, Grimard M, Wireman RS, Rad E, Calver B, Bai R-Y, Staedtke V, Hulsey EL, Saadatzadeh MR, Pollok KE, Tong Y, Smith AE, Clapp DW, Tee AR, Kelley MR, Fishel ML | 2021 | British Journal of Cancer | Oncology | Area Quantification, Cytonuclear | HALO |
| An extended release GLP-1 analogue increases α-synuclein accumulation in a mouse model of prodromal Parkinson’s disease | Bergkvist L, Johnson ME, Mercado G, Steiner JA, Meyerdick L, Schulz E, Madaj Z, Ma J, Becker K, Li Y, Brudin P | 2021 | Experimental Neurology | Neuroscience | Area Quantification | HALO |
| Inhibition of STAT3 augments antitumor efficacy of anti-CTLA-4 treatment against prostate cancer | Witt K, Evans-Axelsson S, Lundqvist A, Johansson M, Bjartell A, Hellsten R | 2021 | Cancer Immunology, Immunotherapy | Immuno-oncology | Area Quantification, Multiplex IHC | HALO |
| Pathological Change and Whole Transcriptome Alternation Caused by ePTFE Implantation in Myocardium | Shan Y, Zhang W, Chen G, Shi Q, Mi Y, Zhang H, Jia B | 2021 | BioMed Research International | Fibrosis | Area Quantification | HALO |
| Q134R: Small chemical compound with NFAT inhibitory properties improves behavioral performance and synapse function in mouse models of amyloid pathology | Sompol P, Gollihue J, Kraner S, Artiushin I, Cloyd R, Chishti E, Koren S, Nation G, Abisambra J, Huzian O, Nagy L, Santha M, Hackler L, Puskas L, Norris C | 2021 | Aging Cell | Neuroscience | Area Quantification | HALO |
| Mechanism of Nucleic Acid Sensing in Retinal Pigment Epithelium (RPE): RIG-I Mediates Type I Interferon Response in Human RPE | Schustak J, Twarog M, Wu X, Huang Q, Bao Y | 2021 | Journal of Immunology Research | Immunology | Area Quantification, ISH/FISH | HALO |
| White adipose tissue autophagy and adipose-liver crosstalk exacerbate nonalcoholic fatty liver disease in mice | Sakane S, Hikita H, Shirai K, Myojin Y, Sasaki Y, Kudo S, Fukumoto K, Mizutani N, Tahata Y, Makino Y, Yamada R, Kodama T, Sakamori R, Tatsumi T, Takehara T | 2021 | Cellular and Molecular Gasteroenterology and Hepatology | Metabolism | Area Quantification | HALO |
| SMAD4 represses FOSL1 expression and pancreatic cancer metastatic colonization | Dai C, Rennhack J, Arnoff T, Thaker M, Younger S, Doench J, Huang A, Yang A, Aguirre A, Wang B, Mun E, O’Connel J, Huang Y, Labella K, Talamas J, Li J, Ilic N, Hwang J, Hong A, Giacomelli A, Gjoerup O, Root D, Hahn W | 2021 | Cell Reports | Oncology | Area Quantification | HALO |
| The deletion of yeaJ gene facilitates Escherichia coli escape from immune recognition | Wang X, Lin X, Wan Z, Wang S, Zuo J, Wang Z, Xu Y, Han X, Miao J | 2021 | Journal of Bacteriology | Infectious Disease | Area Quantification | HALO |
| Cabozantinib for neurofibromatosis type 1–related plexiform neurofibromas: a phase 2 trial | Fisher MJ, Shih C-S, Rhodes SD, Armstrong AE, Wolters PL, Dombi E, Zhang C, Angus SP, Johnson GL, Packer RJ, Allen JC, Ullrich NJ, Goldman S, Gutmann DH, Plotkin SR, Rosser T, Robertson KA, Widemann BC, Smith AE, Bessler WK, He Y, Park S-J, Mund JA, Jiang L, Bijangi-Vishehsaraei K, Robinson CT, Cutter GR, Korf BR, Neurofibromatosis Clinical Trials Consortium, Blakeley JO, Clapp DW | 2021 | Nature Medicine | Oncology | Area Quantification | HALO |
| Promyelocytic leukemia protein promotes the phenotypic switch of smooth muscle cells in atherosclerotic plaques of human coronary arteries | Karle W, Becker S, Stenzel P, Knosalla C, Siegel G, Baum O, Zakrzewicz A, Berkholz J | 2021 | Clinical Science | Myology | Area Quantification, Object Colocalization | HALO |
| Dynamic Hydrogels for Prevention of Post‐Operative Peritoneal Adhesions | Stapleton LM, Lucian HJ, Grosskopf AK, Smith AAA, Totherow KP, Woo YJ, Appel EA | 2021 | Advanced Therapeutics | Biomaterials | Area Quantification | HALO |
| Over-expression of Th2-related molecules in the skin of patients with eosinophilic dermatosis of hematologic malignancy | Maglie R, Ugolini F, De Logu F, Nassini R, Simi S, Nardiello P, Pasqualaini E, Baroini G, Del Bianco E, Massi D, Antiga E | 2021 | Journal of the American Academy of Dermatology | Oncology, Immuno-oncology | Area Quantification, Multiplex IHC | HALO, HALO Link |
| Cx43 phosphorylation sites regulate pancreatic cancer metastasis | Solan JL, Hingorani SR, Lampe PD | 2021 | Oncogene | Oncology | Classifier, Area Quantification | HALO |
| Intracranial administration of alpha-synuclein fibrils in A30P-synuclein transgenic mice causes robust synucleinopathy and microglial induction | Gentzel R, Toolan D, Jinn S, Schachter J, Ma L, Kahle P, Smith S, Marcus J | 2021 | Neurobiology of Aging | Neuroscience | 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 |
| Alteration of Colonic Mucin Composition and Cytokine Expression in Acute Swine Dysentery | Lin S J-H, Arruda B, Burrough E | 2021 | Veterinary Pathology | Immunology | Area Quantification, ISH/FISH | HALO |
| Single-cell RNA transcriptome landscape of hepatocytes and non-parenchymal cells in healthy and NAFLD mouse liver | Su Q, Kim S, Adewale F, Zhou Y, Alder C, Ni M, Wei Y, Burcznski M, Atwal G, Sleeman M, Murphy A, Xin Y, Cheng X | 2021 | iScience | Metabolism | Area Quantification | HALO |
| Atypical chemokine receptor 3 (ACKR3) induces the perturbation of rRNA biogenesis in colonic cells: a novel mechanism of colorectal tumorigenesis | Yang J, Li Y, Pan T, Miao R, Zhang Y, Wu S, Qu X, Cui S | 2021 | Research Square | Oncology | Area Quantification | HALO |
| Increased IL-6 expression precedes reliable viral detection in the rhesus macaque brain during acute SIV infection | Gopalakrishnan R, Aid M, Mercado N, Davis C, Malik S, Geiger E, Varner V, Jones R, Bosinger S, Piedra-Mora C, Martinot A, Barouch D, Reeves R, Tan C | 2021 | JCI Insight | Infectious Disease | Area Quantification | HALO |
| Baricitinib Treatment Resolves Lower-Airway Macrophage Inflammation and Neutrophil Recruitment in Sars-Cov-2-Infected Rhesus Macaques | Hoang T, Pino M, Boddapati A, Viox E, Starke C, Upadhyay A, Gumber S, Nekorchuk M, Busman-Sahay K, Strongin Z, Harper J, Tharp G, Pellegrini K, Kirejczyk S, Zandi K, Tao S, Horton T, Beagle E, Mahar E, Lee M, Cohen J, Jean S, Wood J, Connor-Stroud F, Stammen R, Delmas O, Wang S, Cooney K, Sayegh M, Wang L, Filev P, Weiskopf D, Silvestri G, Waggoner J, Piantadosi A, Kasturi S, Al-Shakhshir H, Ribeiro S, Sekaly R, Levit R, Estes J, Vanderfold T, Schinazi R, Bosinger S, Paiardine M | 2021 | Cell | Infectious Disease | Area Quantification, Multiplex IHC | HALO |
| Interleukin-33 activates group 2 innate lymphoid cell expansion and modulates endometriosis | Miller J, Lingegowda H, Symons L, Bougie O, Young S, Lessey B, Koti M, Tayade C | 2021 | JCI Insight | Other | Area Quantification, Cytonuclear | HALO |
| Suppression of insulin-induced gene 1 (INSIG1) function promotes hepatic lipid remodelling and restrains NASH progression | Azzu 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-Puig | 2021 | Molecular Metabolism | Metabolism | Area Quantification | HALO |
| Computational modeling of tau pathology spread reveals patterns of regional vulnerability and the impact of a genetic risk factor | Cornblath E, Li H, Changolkar C, Zhang B, Brown H, Gathagan R, Olufemi M, Trojanowski J, Bassett D, Lee V, Henderson M | 2021 | Science Advances | Neuroscience | Area Quantification | HALO |
| Tau-tubulin kinase 1 phosphorylates TDP-43 at disease-relevant sites and exacerbates TDP-43 pathology | Tian Y, Wang Y, Jablonski A, Hu Y, Sugam J, Koglin M, Stachel S, Zhou H, Uslaner J, Parmentier-Batteur S | 2021 | Neurobiology of Disease | Neuroscience | Area Quantification | HALO |
| The TRPA1 Channel Amplifies the Oxidative Stress Signal in Melanoma | De Logu F, Monteiro de Araujo D, Ugolini F, Iannone L, Vannucchi M, Portelli F, Landini L, Titiz M, De Giorgi V, Geppetti P, Massi D, Nassini R | 2021 | Cells | Oncology | Area Quantification, Multiplex IHC | HALO, HALO AI, HALO Link |
| Isoform specific anti-TGFβ therapy enhances antitumor efficacy in mouse models of cancer | Gupta A, Budhu S, Fitzgerald K, Giese R, Michel A, Holland A, Campesato L, vanSnick J, Uyttenhove C, Ritter G, Wolchok J, Merghoub T | 2021 | Communications Biology | Oncology | Area Quantification | 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 |
| Effects of Dietary Pork Fat Cooked Using Different Methods on Glucose and Lipid Metabolism, Liver Inflammation and Gut Microbiota in Rats | Zhu W, Xu Y, Liu J, Chen D, Zhang H, Yang Z, Zhou X | 2021 | Foods | Metabolism | Area Quantification | HALO |
| Nuclear pore protein NUP210 depletion suppresses metastasis through heterochromatin-mediated disruption of tumor cell mechanical response | Amin R, Shukla A, Zhu J, Kim S, Wang P, Tian S, Tran A, Paul D, Cappell S, Burkett S, Liu H, Lee M, Kruhlak M, Dwyer J, Simpson R, Hager G, Ruan Y, Hunter K | 2021 | Nature Communications | Oncology | Area Quantification | HALO, HALO AI |
| Localization of KRAS downstream target ARL4C to invasive pseudopods accelerates pancreatic cancer cell invasion | Harada A, Matsumoto S, Yasumizu Y, Akama T, Eguchi H, Kikuchi A | 2021 | bioRxiv | Oncology | Area Quantification | HALO |
| Bone Morphogenetic Protein Pathway Antagonism by Grem1 Regulates Epithelial Cell Fate in Intestinal Regeneration | Koppens MAJ, Davis H, Valbuena GN, Mulholland EJ, Nasreddin N, Colombe M, Antanaviciute A, Biswas S, Friedrich M, Lee L, Oxford IBD cohort investigators, Wang LM, Koelzer VH, East JE, Simmons A, Winton DJ, Leedham SJ | 2021 | Gastroenterology | Gastroenterology | Area Quantification | HALO |
| A minimal standardized human bone marrow microphysiological system to assess resident cell behavior during normal and pathological processes | Voeltzel 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 V | 2021 | Biomaterials Science | Biomaterials | Area Quantification, Cytonuclear | HALO |
| Clinically relevant mitochondrial-targeted therapy improves chronic outcomes after traumatic brain injury | Hubbard W, Spry M, Gooch J, Cloud A, Vekaria H, Burden S, Powell D, Berkowitz B, Geldenhuys W, Harris N, Sullivan P | 2021 | Brain | Neuroscience | Area Quantification | HALO |
| Age-associated expression of p21 and p53 during human wound healing | Chia CW, Sherman-Baust CA, Larson SA, Pandey R, Withers R, Karikkineth AC, Zukley LM, Campisi J, Egan JM, Sen R, Ferrucci L | 2021 | Aging Cell | Dermatology | Area Quantification, ISH/FISH, Multiplex IHC | 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 |
| Diverse human astrocyte and microglial transcriptional responses to Alzheimer’s pathology | Smith A, Davey K, Tsartsalis S, Khozoie C, Fancy N, Tang S, Liaptsi E, Weinert M, McGarry A, Muirhead R, Gentleman S, Owen D, Matthews P | 2021 | Acta Neuropathologica | Neuroscience | Area Quantification, Multiplex IHC, Microglia | HALO |
| The SGLT2i Dapagliflozin Reduces RV Hypertrophy Independent of Changes in RV Pressure Induced by Pulmonary Artery Banding | Connelly K, Wu E, Visram A, Friedberg M, Batchu S, Yeera V, Thai K, Nghiem L, Zhang Y, Kabir G, Desjardins J, Advani A, Gilbert R | 2021 | Research Square | Other | Area Quantification | HALO |
| Complement activation is a crucial driver of acute kidney injury in rhabdomyolysis | Broudhabhay I, Poillerat V, Grunenwald A, Torset C, Leon J, Daugan M, Lucibello F, Karoui K, Ydee A, Chauvet S, Girardie P, Sacks S, Farrar C, Garred P, Berthaud R, Le Quintrec M, Rabant M de Lonlay P, Rambaud C, Gnemmi V, Fremeaux-Bacchi V, Frimat M, Roumenina L | 2021 | Kidney International | Other | Area Quantification | 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 |
| The MK2/Hsp27 axis is a major survival mechanism for pancreatic ductal adenocarcinoma under genotoxic stress | Grierson P, Dodhiawala P, Cheng Y, Chen T, Khawar I, Wei Q, Zhang D, Li L, Herndon J, Monahan J, Ruzinova M, Lim K | 2021 | Science Translational Medicine | Oncology | Area Quantification, TMA | HALO |
| Pharmacological HIF-1 stabilization promotes intestinal epithelial healing through regulation of α-integrin expression and function | Goggins B, Minihan K, Sherwin S, Soh W, Pryor J, Bruce J, Liu G, Mathe A, Knight D, Horvat J, Walker M, Keely S | 2021 | American Journal of Physiology-Gastrointestinal and Liver Physiology | Gastroenterology | Area Quantification | HALO |
| Transcriptomic Analysis of Healthy and Atopic Dermatitis Samples Reveals the Role of IL-37 in Human Skin | Zhou J, Gemperline D, Turner M, Oldach J, Molignano J, Sims J, Stayrook K | 2021 | ImmunoHorizons | Dermatology | Area Quantification, Cytonuclear | HALO |
| Transmission of tauopathy strains is independent of their isoform composition | He Z, McBride JD, Zu, Changolkar L, Kim S, Zhang B, Narasimhan S, Gibbons GS, Kozak M, Schellenberg GD, Trrojanowski JQ, Lee VM-Y | 2020 | Nature Communications | Neuroscience | Area Quantification | HALO |
| Imaging breast cancer using hyperpolarized carbon-13 MRI | Gallagher FA, Woitek R, McLean MA, Gill AB, Garcia RM, Provenzano E, Riemer F, Kaggie J, Chhabra A, Ursprung S, Grist JT, Daniels CJ, Zaccagna F, Laurent M-C, Locke M, Hilborne S, Frary A, Torheim T, Boursnell C, Schiller A, Patterson I, Slough R, Carmo B, Kane J, Biggs H, Harrison E, Deen SS, Patterson A, Lanz T, Kingsbury Z, Ross M, Basu B, Baird R, Lomas DJ, Sala E, Wason J, Rueda OM, Chin S-F, Wilkinson IB, Graves MJ, Abraham JE, Gilbert FJ, Caldas C, Brindle KM | 2020 | Proceedings of the National Academy of Sciences | Oncology | Area Quantification | HALO |
| Immune cell landscaping reveals a protective role for regulatory T cells during kidney injury and fibrosis | do 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 M | 2020 | JCI Insight | Immunology | Area Quantification, Cytonuclear | HALO |
| Clinicopathological significance of endoplasmic reticulum stress proteins in ovarian carcinoma | Samanta S, Tamura S, Dubeau L, Mhawech-Fauceglia P, Miyagi Y, Kato H, Lieberman R, Buckanovich RJ, Lin YG, Neamati N | 2020 | Scientific Reports | Oncology | Area Quantification | HALO |
| Dendritic Cell Paucity Leads to Dysfunctional Immune Surveillance in Pancreatic Cancer | Hedge 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 DG | 2020 | Cancer Cell | Oncology, Immuno-oncology | Area Quantification, Cytonuclear, Immune | HALO |
| Environmental contaminant ammonia triggers epithelial-to-mesenchymal transition-mediated jejunal fibrosis with the disassembly of epithelial cell-cell contacts in chicken | Jing H, Wang S, Wang Y, Shen N, Gao X-J | 2020 | Science of the Total Environment | Toxicology | Area Quantification | HALO |
| Formoterol, a β2-adrenoreceptor agonist, induces mitochondrial biogenesis and promotes cognitive recovery after traumatic brain injury | Vekaria HJ, Hubbard WB, Scholpa NE, Spry ML, Gooch JL, Prince SJ, Schnellmann Sullivan PG | 2020 | Neurobiology of Disease | Neuroscience | Area Quantification | 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 |
| Cholinergic receptors on intestine cells of Ascaris suum and activation of nAChRs by levamisole | McHugh M, Williams P, Verma S, Powell-Coffman JA, Robertson AP, Martin RJ | 2020 | International Journal for Parasitology: Drugs and Drug Resistance | Gastroenterology, Infectious Disease | Area Quantification | HALO |
| 11β hydroxysteroid dehydrogenase 1: a new marker for predicting response to immune-checkpoint blockade therapy in non-small-cell lung carcinoma | Saito R, Miki Y, Abe T, Miyauchi E, Abe J, Nanamiya R, Inoue C, Sato I, Sasano H | 2020 | British Journal of Cancer | Immuno-oncology | Area Quantification | 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 |
| Ad26 vaccine protects against SARS-CoV-2 severe clinical disease in hamsters | Tostanoski LH, Wegmann F, Martinot AJ, Loos C, McMahan K, Mercado NB, Yu J, Chan CN, Bondoc S, Starke CE, Nekorchuk M, Busman-Sahay K, Piedra-Mora C, Wrijil LM, Ducat S, Custers J, Atyeo C, Fischinger S, Burke JS, Feldman J, Hauser BM, Caradonna TM, Bondzie EA, Dagotto G, Gebre MS, Jacob-Dolan C, Lin Z, Mahrokhian SH, Nampanya F, Nityanandam R, Pessaint L, Porto M, ALi V, Benetiene D, Tevi K, Andersen H, Lewis MG, Schmidt AG, Lauffenburger DA, Alter G, Estes JD, Schuitemaker H, Zahn R, Barouch DH | 2020 | Nature Medicine | Infectious Disease | Area Quantification, Multiplex IHC | HALO |
| Human cardiac fibroblasts expressing VCAM1 improve heart function in postinfarct heart failure rat models by stimulating lymphangiogenesis | Iwamiya T, Segnard B-D, Matsuoka Y, Imamura T | 2020 | PLOS One | Myology | Area Quantification | HALO |
| Conformation-selective tau monoclonal antibodies inhibit tau pathology in primary neurons and a mouse model of Alzheimer’s disease | Gibbons GS, Kim S-J, Wu Q, Riddle DM, Leight SN, Changolkar L, Xu H, Meymand ES, O’Reilly M, Zhang B, Brunden KR, Trojanowski JQ, Lee VMY | 2020 | Molecular Neurodegeneration | Neuroscience | Area Quantification | HALO |
| Epithelial-mesenchymal transition of absorptive enterocytes and depletion of Peyer’s patch M cells after PEDV infection | Chen Y-M, Helm ET, Groeltz-Thrush, Gabler NK, Burrough ER | 2020 | Virology | Immunology | Area Quantification | HALO |
| Adult onset pan-neuronal human tau tubulin kinase 1 expression causes severe cerebellar neurodegeneration in mice | McMillan P, Wheeler J, Gatlin RE, Taylor L, Strovas T, Baum M, Bird TD, Latimer C, Keene CD, Kraemer BC, Liachko NF | 2020 | Acta Neuropathologica Communications | Neuroscience | Area Quantification | HALO |
| Impact of Preanalytical Factors During Histology Processing on Section Suitability for Digital Image Analysis | Chlipala EA, Butters M, Brous M, Fortin JS, Archuletta R, Copeland K, Bolon B | 2020 | Toxicologic Pathology | Toxicology | Area Quantification, Cytonuclear | HALO |
| TGFβ-blockade uncovers stromal plasticity in tumors by revealing the existence of a subset of interferon-licensed fibroblasts | Grauel AL, Nguyen B, Ruddy D, Laszewski T, Schwartz S, Chang J, Chen J, Piquet M, Pelletier M, Yan Z, Kirkpatrick ND, Wu J, deWeck A, Riester M, Hims M, Geyer FC, Wagner J, MacIsaac K, Deeds J, Diwanji R, Jayaraman P, Yu Y, Simmons Q, Weng S, Raza A, Minie B, Dostalek M, Chikkegowda P, Ruda V, Iartchouk O, Chen N, Thierry R, Zhou J, Pruteanu-Malinici I, Fabre C, Engelman JA, Dranoff G, Cremasco V | 2020 | Nature Communications | Oncology | Area Quantification | HALO |
| Acute brain inflammation, white matter oxidative stress, and myelin deficiency in a model of neonatal intraventricular hemorrhage | Goulding DS, Vogel RC, Gensel JC, Morganti JM, Stromberg AJ, Miller BA | 2020 | Journal of Neuroscience | Immunology, Neuroscience | Area Quantification, Object Colocalization | HALO |
| Artificial Intelligence-Based Quantification of Epithelial Proliferation in Mammary Glands of Rats and Oviducts of Göttingen Minipigs | Hvid H, Skydsgaard M, Jensen NK, Vluff BM, Jensen HE, Oleksiewicz MB, Kvist PH | 2020 | Toxicologic Pathology | Toxicology | Area Quantification | HALO, HALO AI |
| HIV-1-induced cytokines deplete homeostatic innate lymphoid cells and expand TCF7-dependent memory NK cells | Wang 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 | 2020 | Nature Immunology | Immunology, Infectious Disease | Area Quantification, Cytonuclear, ISH/FISH | HALO |
| IL6/STAT3 Signaling Hijacks Estrogen Receptor α Enhancers to Drive Breast Cancer Metastasis | Siersbæk R, Scabia V, Nagarajan S, Chernukhin I, Papachristou EK, Broome R, Johnston SJ, Joosten SEP, Green AR, Kumar S, Jones J, Omarjee S, Alvarez-Fernandez R, Glont S, Aitken SJ, Kishore K, Cheeseman D, Rakha EA, D’Santos C, Zwart W, Ruseel A, Brisken C, Carroll JS | 2020 | Cancer Cell | Oncology | Area Quantification, Multiplex IHC | HALO |
| Efficacy and safety of a 3‐in‐1 antiaging night facial serum containing melatonin, bakuchiol, and ascorbyl tetraisopalmitate through clinical and histological analysis | Goldberg DJ, Mraz-Robinson D, Granger C | 2020 | Journal of Cosmetic Dermatology | Dermatology | Area Quantification | HALO |
| Engineering functional microvessels in synthetic polyurethane random-pore scaffolds by harnessing perfusion flow | Wright MEE, Yu JK, Jain D, Maeda A, Yeh S-CA, DaCosta RS, Lin CP, Santerre JP | 2020 | Biomaterials | Biomaterials | Area Quantification | HALO |
| Expansion of Immature, Nucleated Red Blood Cells by Transient Low‐Dose Methotrexate Immune Tolerance Induction in Mice | Tran JQ, Grover D, Zhang M, Stapels M, Brennan R, Bangari DS, Piepenhagen PA, Roberts E, Olivia P, Zubair F, Vela JL, Richards SM, Joseph AM | 2020 | Clinical & Experimental Immunology | Immunology | Area Quantification | HALO |
| Multimodal In Vivo and Post-mortem Assessments of Tau in Lewy Body Disorders | Coughlin DG, Phillips JS, Roll E, Peterson C, Lobrovich R, Rascovsky K, Ungrady M, Wolk DA, Das S, Weintraub D, Lee EB, Trojanowski JQ, Shaw LM, Vaishnavi S, Siderowf A, Nasrallah IM, Irwin DJ, McMillan CT | 2020 | Neurobiology of Aging | Neuroscience | Area Quantification | HALO |
| The RAC1 target NCKAP1 plays a crucial role in progression of BRAF/PTEN -driven melanoma in mice | Swaminathan K, Campbell A, Papalazarou V, Jaber-Hijazi F, Nixon C, McGhee E, Strathdee D, Sansom OJ, Machesky LM | 2020 | Journal of Investigative Dermatology | Oncology, Dermatology | Area Quantification, Multiplex IHC | HALO |
| Temporospatial Development of Neuropathologic Findings in a Canine Model of Mucopolysaccharidosis IIIB | Harm TA, Hostetter SJ, Nenninger AS, Valentine BN, Ellinwood NM, Smith JD | 2020 | Veterinary Pathology | Immunology, Neuroscience | Area Quantification, Cytonuclear | HALO |
| α-Synuclein modulates tau spreading in mouse brains | Bassil F, Meymand ES, Brown HJ, Xu H, Cox TO, Pattabhiraman S, Maghames CM, Wu Q, Zhang B, Trojanowski JQ, Lee VM-Y | 2020 | Journal of Experimental Medicine | Neuroscience | Area Quantification | HALO |
| Clinicopathological significance of nerves in esophageal cancer | Griffin N, Rowe CW, Gao F, Jobling P, Wills V, Walker MM, Faulkner S, Hondermarck H | 2020 | The American Journal of Pathology | Oncology | Area Quantification | HALO |
| Expression of SARS-CoV-2 Entry Factors in the Pancreas of Normal Organ Donors and Individuals with COVID-19 | Kusmartseva I, Wu W, Syed F, Van Der Heide V, Jorgensen M, Joseph P, Tang X, Candelario-Jalil E, Yang C, Nick H, Harbert J, Posgai A, Paulsen J, Lloyd R, Cechin S, Pugliese A, Campbell-Thomson M, Vander Heide R, Evans-Molina C, Homann D, Atkinson M | 2020 | Cell Metabolism | Infectious Disease | Area Quantification | 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 |
| Methacrylic Acid Copolymer Coating Enhances Constructive Remodeling of Polypropylene Mesh by Increasing the Vascular Response | Coindre VF, Carleton MM, Sefton MV | 2019 | Advanced Healthcare Materials | Biomaterials | Area Quantification | HALO |
| IRAK4 mediates colitis-induced tumorigenesis and chemoresistance in colorectal cancer | Li Q, Chen Y, Zhang D, Grossman J, Li L, Khurana N, Jiang H, Grierson PM, Herndon J, DeNardo DG, Challen GA, Liu J, Ruzinova MB, Fields RC, Lim K-H | 2019 | JCI Insight | Oncology, Immuno-oncology | Area Quantification | HALO |
| Persistence of inflammatory phenotype in residual psoriatic plaques in patients on effective biologic therapy: Residual Psoriatic Plaques After Treatment | Mashiko S, Edelmayer RM, Bi Y, Olson LM, Wetter JB, Wang J, Maari C, Proulx ES-C, Kaimal V, Li X, Salte K, Garcet S, Kannan AK, Huang SM, Cao X, Liu Z, Krueger JG, Sarfati M, Bissonnette R, Smith KM | 2019 | Journal of Investigative Dermatology | Immunology, Dermatology | Area Quantification | HALO |
| Alzheimer’s disease tau is a prominent pathology in LRRK2 Parkinson’s disease | Henderson MX, Sengupta M, Trojanowski JQ, Lee VMY | 2019 | Acta Neuropathologica Communications | Neuroscience | Area Quantification | HALO |
| Alzheimer Disease Pathology-Associated Polymorphism in a Complex Variable Number of Tandem Repeat Region Within the MUC6 Gene, Near the AP2A2 Gene | Katsumata 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 PT | 2019 | Journal of Neuropathology & Experimental Neurology | Neuroscience | Area Quantification, 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 |
| Characterization of novel conformation-selective α-synuclein antibodies as potential immunotherapeutic agents for Parkinson’s disease | Henderson MX, Covell DJ, Chung C-HY, Pitkin RM, Sandler RM, Decker SC, Riddle DM, Zhang B, Gathagan RJ, James MJ, Trojanowski JQ, Brunden KR, Lee VMY, Luk KC | 2019 | Neurobiology of Disease | Neuroscience | Area Quantification | HALO |
| Epithelial to mesenchymal plasticity and differential response to therapies in pancreatic ductal adenocarcinoma | Porter RL, Magnus NKC, Thapar V, Morris R, Szabolcs A, Neyaz A, Kulkarni AS, Tai E, Chougule A, Hillis A, Golczer G, Guo H, Yamada T, Kurokawa T, Yashaswini C, Ligorio M, Vo KD, Nieman L, Liss AS, Deshpande V, Lawrence MS, Maheswaran S, Fernandez-Del Castillo C, Hong TS, Ryan DP, O’Dwyer PJ, Drebin JA, Ferrone CR, Haber DA, Ting DT | 2019 | Proceedings of the National Academy of Sciences | Oncology | Area Quantification | HALO |
| Evaluation of Peritumoral Fibrosis in Metastatic Colorectal Adenocarcinoma to the Liver Using Digital Image Analysis | Waters KM, Cottrell TR, Besharati S, Zhu Q, Anders RA | 2019 | American Journal of Clinical Pathology | Oncology | Area Quantification | HALO |
| Divergent patterns of TDP‐43 and tau pathologies in primary progressive aphasia | Giannini LAA, Xie SX, McMillan CT, Liang M, Williams A, Jester C, Rascovsky K, Wolk DA, Ash S, Lee EB, Trojanowski JQ, Grossman M, Irwin DJ | 2019 | Annals of Neurology | Neuroscience | Area Quantification | HALO |
| Empiric Methods to Account for Pre-analytical Variability in Digital Histopathology in Frontotemporal Lobar Degeneration | Giannini LAA, Xie SX, Peterson C, Zhou C, Lee EB, Wolk DA, Grossman M, Trojanowski JQ, McMillan CT, Irwin DJ | 2019 | Frontiers in Neuroscience | Neuroscience | Area Quantification, Registration, Figure Maker | HALO |
| Exposure to maternal obesity programs sex differences in pancreatic islets of the offspring in mice | Nicholas LM, Nagao M, Kusinski LC, Fernandez-Twinn DS, Eliasson L, Ozanne SE | 2019 | Diabetologia | Metabolism | Area Quantification | HALO |
| A phase 2 study of GVAX colon vaccine with cyclophosphamide and pembrolizumab in patients with mismatch repair proficient advanced colorectal cancer | Yarchoan M, Huang C-Y, Zhu Q, Ferguson AK, Durham JN, Anders RA, Thompson ED, Rozich NS, Thomas DL, Nauroth JM, Rodriguez C, Osipov A, De Jesus-Acosta A, Le DT, Murphy AG, Laheru D, Donehower RC, Jaffee EM, Zheng L, Azad NS | 2019 | Cancer Medicine | Immuno-oncology | Area Quantification | HALO |
| 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 |
| Kras and Lkb1 mutations synergistically induce intraductal papillary mucinous neoplasm derived from pancreatic duct cells | Collet L, Ghurburrun E, Meyers N, Assi M, Pirlot B, Leclercq IA, Couvelard A, Komuta M, Cros J, Demetter P, Lemaigre FP, Borbath I, Jacquemin P | 2019 | Gut | Oncology | Area Quantification | HALO |
| 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 E | 2019 | Journal of Gastrointestinal Cancer | Oncology | Area Quantification, Cytonuclear | HALO |
| Effects of advanced age upon astrocyte-specific responses to acute traumatic brain injury in mice | Early AN, Gorman AA, Van Eldik LJ, Bachstetter AD, Morganti JM | 2019 | Journal of Neuroinflammation | Neuroscience | Area Quantification | HALO |
| FK506-binding protein 13 expression is upregulated in interstitial lung disease and correlated with clinical severity: a potentially protective role | Tat 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 K | 2019 | American Journal of Respiratory Cell and Molecular Biology | Immunology, Fibrosis | Area Quantification | HALO |
| Microbial regulation of enteric eosinophils and its impact on tissue remodeling and Th2 immunity | Jimenez-Saiz R, Anipindi VC, Galipeau H, Ellenbogen Y, Chaudhary R, Koenig JF, Gordon ME, Walker TD, Mandur TS, Abed S, Humbles A, Chu DK, Ask K, Verdu EF, Jordana M | 2019 | Frontiers in Immunology | Immunology, Infectious Disease | Area Quantification | 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 |
| CCN3/Nephroblastoma Overexpressed Is a Functional Mediator of Prostate Cancer Bone Metastasis That Is Associated with Poor Patient Prognosis | Dankner M, Ouellet V, Communal L, Schmitt E, Perkins D, Annis MG, Barrès V, Caron C, Mes-Masson A-M, Saad F, Siegel PM | 2019 | The American Journal of Pathology | Oncology | Area Quantification | HALO |
| Characterization of psoriasiform dermatitis induced by systemic injection of interleukin‐23 minicircles in mice | Leys L, Wang Y, Paulsboe S, Edelmayer R, Salte K, Wetter J, Namovic M, Phillips L, Dunstan R, Gauvin D, Donnelly-Roberts D, Su Z, Honore P, McGaraughty S | 2019 | The Journal of Dermatology | Dermatology | Area Quantification | HALO |
| 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 VE | 2019 | Experimental Dermatology | Dermatology | Area Quantification, Cytonuclear | HALO |
| In Situ Temporospatial Characterization of the Glial Response to Prion Infection | Michael AV, Greenlee JJ, Harm TA, Moore SJ, Zhang M, Lind MS, Greenlee MHW, Smith JD | 2019 | Veterinary Pathology | Immunology, Neuroscience, Infectious Disease | Area Quantification | HALO |
| Dysregulated expression but redundant function of the long non-coding RNA HOTAIR in diabetic kidney disease | Majumder S, Hadden MJ, Thieme K, Batchu SN, Niveditha D, Chowdhury S, Yerra VG, Advani SL, Bowskill BB, Liu Y, Vakili H, Alghamdi TA, White KE, Geldenhuys L, Siddiqi FS, Advani A | 2019 | Diabetologia | Metabolism | Area Quantification | HALO |
| Lenvatinib induces death of human hepatocellular carcinoma cells harboring an activated FGF signaling pathway through inhibition of FGFR-MAPK cascades | Hoshi T, Miyano SW, Watanabe H, Sonobe RMK, Seki Y, Ohta E, Nomoto K, Matsui J, Funahashi Y | 2019 | Biochemical and Biophysical Research Communications | Oncology | Area Quantification | HALO |
| LRRK2 inhibition does not impart protection from α-synuclein pathology and neuron death in non-transgenic mice | Henderson MX, Sengupta M, McGeary I, Zhang B, Olufemi MF, Brown H, Trojanowski JQ, Lee VMY | 2019 | Acta Neuropathologica Communications | Neuroscience | Area Quantification, Cytonuclear | HALO |
| Cutaneous pharmacologic cAMP induction induces melanization of the skin and improves recovery from ultraviolet injury in melanocortin 1 receptor‐intact or heterozygous skin | Bautista R-M, Carter KM, Jarrett SG, Napier D, Wakamatsu K, Ito S, D’Orazio JA | 2019 | Pigment Cell & Melanoma Research | Dermatology | Area Quantification | HALO |
| Targeted drug delivery via caveolae-associated protein PV1 improves lung fibrosis | Marchetti GM, Burwell TJ, Peterson NC, Cann JA, Hanna RN, Li Q, Ongstad EL, Boyd JT, Kennedy MA, Zhao W, Rickert KW, Grimsby JS, Dall’Acqua WF, Wu H, Tsui P, Borrok MJ, Gupta R | 2019 | Communications Biology | Fibrosis | Area Quantification | HALO |
| Unmasking of oestrogen‐dependent changes in left ventricular structure and function in aged female rats: a potential model for pre‐heart failure with preserved ejection fraction | Bustamante M, Garate‐Carrillo A, Ito BR, Garcia R, Carson N, Ceballos G, Ramirez‐Sanchez I, Omens J, Villarreal F | 2019 | The Journal of Physiology | Myology | Area Quantification | HALO |
| Tough Composite Hydrogels with High Loading and Local Release of Biological Drugs | Li J, Weber E, Guth‐Gundel S, Schuleit M, Kuttler A, Halleux C, Accart N, Doelemeyer A, Basler A, Tigani B, Wuersch K, Fornaro M, Kneissel M, Stafford A, Freedman BR, Mooney DJ | 2018 | Advanced Healthcare Materials | Biomaterials | Area Quantification | HALO |
| A brain-penetrant triazolopyrimidine enhances microtubule-stability, reduces axonal dysfunction and decreases tau pathology in a mouse tauopathy model | Zhang B, Yao Y, Cornec A-S, Oukoloff K, James MJ, Koivula P, Trojanowski JQ, Smith AB III, Lee VM-Y, Ballatore C, Brunden KR | 2018 | Molecular Neurodegeneration | Neuroscience | Area Quantification | HALO |
| A CD3-bispecific molecule targeting P-cadherin demonstrates T cell-mediated regression of established solid tumors in mice | TS Fisher, AT Hooper, J Lucas, TH Clark, AK Rohner, B Peano, MW Elliott, K Tsaparikos, H Wang, J Golas, M Gavriil, N Haddish-Berhane, L Tchistiakova, H-P Gerber, AR Root, C May | 2018 | Cancer Immunology, Immunotherapy | Oncology, Immuno-oncology | Area Quantification | HALO |
| A murine glaucoma model induced by rapid in vivo photopolymerization of hyaluronic acid glycidyl methacrylate | Guo C, Qu X, Rangaswamy N, Leehy B, Xiang C, Rice D, Prasanna G | 2018 | PLOS One | Biomaterials | Area Quantification | HALO |
| Age-related pathology after adenoviral overexpression of the leucine-rich repeat kinase 2 in the mouse striatum | Kritzingerab A, Ferger B, Gillardon F, Stierstorfer B, Birk G, Kochanek S, Ciossek T | 2018 | Neurobiology of Aging | Neuroscience | Area Quantification, Object Colocalization, Microglia | HALO |
| Anti-NKG2A mAb Is a Checkpoint Inhibitor that Promotes Anti-tumor Immunity by Unleashing Both T and NK Cells | Andre ́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 E | 2018 | Cell | Oncology, Immuno-oncology | Area Quantification, Cytonuclear | HALO |
| Cellular milieu imparts distinct pathological α-synuclein strains in α-synucleinopathies | Peng C, Gathagan RJ, Covell DJ, Medellin C, Stieber A, Robinson JL, Zhang B, Pitkin RM, Olufemi MF, Luk KC, Trojanowski JQ, Lee VM-Y | 2018 | Nature | Neuroscience | Area Quantification | HALO |
| Chronic Intermittent Hypoxia Induces Robust Astrogliosis in an Alzheimer’s Disease-Relevant Mouse Model | Macheda T, Roberts K, Lyons DN, Higgins E, Ritter KJ, Lin A-L, Alilain WJ, Bachstetter AD | 2018 | Neuroscience | Neuroscience | Area Quantification | HALO |
| 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 KC | 2018 | Acta Neuopathologica | Neuroscience | Area Quantification, Cytonuclear | HALO |
| Disease Progression and Pharmacological Intervention in a Nutrient-Deficient Rat Model of Nonalcoholic Steatohepatitis | Tølbøl KS, Stierstorfer B, Rippmann JF, Veidal SS, Rigbolt KTG, Schönberger T, Gillum MP, Hansen HH, Vrang N, Jelsing J, Feigh M, Broermann A | 2018 | Digestive Diseases and Sciences | Metabolism | Area Quantification | HALO |
| Evaluation of PD-L1 expression on vortex-isolated circulating tumor cells in metastatic lung cancer | Dhar M, Wong J, Che J, Matsumoto M, Grogan T, Elashof D, Garon EB, Goldman JW, Christen ES, Carlo DD, Kulkarni RP | 2018 | Scientific Reports | Oncology, Immuno-oncology | Area Quantification | HALO |
| Glucagon contibutes to liver zonation | Cheng X, Kim SK, Okamoto H, Xin Y, Yancopoulos GD, Murphy AJ, Gromada J | 2018 | Proceedings of the National Academy of Sciences | Metabolism | Area Quantification | HALO |
| Tumor Microenvironment in Functional Adrenocortical Adenomas: Immune Cell Infiltration in Cortisol-producing Adrenocortical Adenoma | Kitawaki Y, Nakamura Y, Kubota-Nakayama F, YamazakiY, Miki Y, Hata S, Ise K, Kikuchie K, MorimotoR, Satoh F, Sasano H | 2018 | Human Pathology | Oncology, Immuno-oncology | Area Quantification | HALO |
| Ossabaw Pigs With a PCSK9 Gain‐of‐Function Mutation Develop Accelerated Coronary Atherosclerotic Lesions: A Novel Model for Preclinical Studies | Yuan F, Guo L, Park K-H, Woollard JR, Taek‐Geun K, Jiang K, Melkamu T, Zang B, Smith SL, Fahrenkrug SC, Kolodgie FD, Lerman A, Virmani R, Lerman LO, Carlson DF | 2018 | Journal of the American Heart Association | Myology | Area Quantification | HALO |
| Up-Regulation of Iba-1 and GFAP in the Acidic Saline Model of Chronic Widespread Musculoskeletal Pain: A Pilot Study Examining the Relationship Between Gliosis and Hyperalgesia | Lambert DM, Kumar U, Hafell UO | 2018 | Journal of Neuroscience and Neuropharmacology | Neuroscience | Area Quantification | 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 |
| Selective modulation of the androgen receptor AF2 domain rescues degeneration in spinal bulbar muscular atrophy | Badders NM, Korff A, Miranda HC, Vuppala PK, Smith RB, Winborn BJ, Quemin ER, Sopher BL, Dearman J, Messing J, Kim NC, Moore J, Freibaum BD, Kanagaraj AP, Fan B, Tillman H, Chen P-C, Wang Y, Freeman BB, Li Y, Kim HJ, La Spada AR, Taylor JP | 2018 | Nature Medicine | Myology | Area Quantification | HALO |
| Systemic messenger RNA as an etiological treatment for acute intermittent porphyria | Jiang L, Berraondo P, Jericó D, Guey LT, Sampedro A, Frassetto A, Benenato KE, Burke K, Santamaría E, Alegre M, Pejenaute A, Kalariya M, Butcher W, Park JS, Zhu X, Sabnis S, Kumarasinghe ES, Salerno T, Kenney M, Lukacs CM, Ávila MA, Martini PGV, Fontanellas A | 2018 | Nature Medicine | Metabolism | Area Quantification | HALO |
| The neurotrophic tyrosine kinase receptor TrkA and its ligand NGF are increased in squamous cell carcinomas of the lung | Gao F, Griffin N, Faulkner S, Rowe CW, Williams L, Roselli S, Thorne RF, Ferdoush A, Jobling P, Walker MM, Hondermarck H | 2018 | Scientific Reports | Oncology | Area Quantification | HALO |
| Tumor Cell Subtypes Based on the Intracellular Hormonal Activity in KCNJ5-Mutated Aldosterone-Producing Adenoma | Yamazaki Y, Omata K, Tezuka Y, Ono Y, Morimoto R, Adachi Y, Ise K, Nakamura Y, Gomez-Sanchez CE, Shibahara Y, Kitamoto T, Nishikawa T, Ito S, Satoh F, Sasano H | 2018 | Hypertension | Oncology | Area Quantification, Cytonuclear | HALO |
| Tuning of delta-protocadherin adhesion through combinatorial diversity | Bisogni AJ, Ghazanfar S, Williams EO, Marsh HM, Yang JYH, Lin DM | 2018 | eLife | Neuroscience | Area Quantification | 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 |
| Amyloid-β plaques enhance Alzheimer’s brain tau-seeded pathologies by facilitating neuritic plaque tau aggregation | He Z, Guo JL, McBride JD, Narasimhan S, Kim H, Changolkar L, Zhang B, Gathagan RJ, Yue C, Dengler C, Stieber A, Nitla M, Coulter DA, Abel T, Brunden KR, Trojanowski JQ, Lee V M-Y | 2017 | Nature Medicine | Neuroscience | Area Quantification | HALO |
| Angptl4 does not control hyperglucagonemia or α-cell hyperplasia following glucagon receptor inhibition | Okamoto H, Cavino K, Na E, Krumm E, Kim SY, Stevis PE, Harp J, Murphy AJ, Yancopoulos GD, Gromada J | 2017 | Proceedings of the National Academy of Sciences | Metabolism | Area Quantification | HALO |
| Ante mortem CSF tau levels correlate with post mortem tau pathology in FTLD | Irwin DJ, Lleó A, Xie SX, McMillan CT, Wolk D, Lee EB, Van Deerlin VM, Shaw LM, Trojanowski JQ, Grossman M | 2017 | Annals of Neurology | Neuroscience | Area Quantification | HALO |
| Asymmetry of post-mortem neuropathology in behavioural-variant frontotemporal dementia | DJ Irwin, CT McMillan, SX Xie, K Rascovsky, VM Van Deerlin, HB Coslett, R Hamilton, G Aguirre, EB Lee, VMY Lee, JQ Trojanowski, M Grossman | 2017 | Brain | Neuroscience | Area Quantification | HALO |
| Both brown adipose tissue and skeletal muscle thermogenesis processes are activated during mild to severe cold adaptation in mice | Bal NC, Singh S, Reis FCG, Maurya SK, Pani S, Rowland LA, Periasamy M | 2017 | Journal of Biological Chemistry | Myology | Area Quantification | HALO |
| Co-clinical Analysis of a Genetically Engineered Mouse Model and Human Prostate Cancer Reveals Significance of NKX3.1 Expression for Response to 5α-reductase Inhibition | Dutta A, Panja S, Virk RK, Kim JY, Zott R, Cremers S, Golombos DM, Liu D, Mosquera JM, Mostaghel EA, Barbieri CE, Mitrofanova A, Abate-Shen C | 2017 | European Urology | Oncology | Area Quantification | HALO |
| Connexin-43 and aquaporin-4 are markers of ageing-related tau astrogliopathy (ARTAG)-related astroglial response | Kovacs GG, Yousef A, Kaindl S, Lee VM, Trojanowski JQ | 2017 | Neuropathology and Applied Neurobiology | Neuroscience | Area Quantification | 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 |
| Efficacy of injectable praziquantel for elimination of trematode metacercariae in bluegills (Lepomis macrochirus) and quantification of parasite death by propidium iodide staining | Bader C, Chelladurai JJ, Starling DE, Jones DE, Brewer MT | 2017 | Parasitology Research | Infectious Disease | Area Quantification | HALO |
| Persistence of Pancreatic Insulin mRNA Expression and Proinsulin Protein in Type 1 Diabetes Pancreata | Wasserfall C, Nick HS, Campbell-Thompson M, Beachy D, Haataja L, Kusmartseva I, Posgai A, Beery M, Rhodes C, Bonifacio E, Arvan P, Atkinson M | 2017 | Cell Metabolism | Metabolism | Area Quantification | HALO |
| Glucagon receptor inhibition normalizes blood glucose in severe insulin-resistant mice | Okamoto H, Cavino K, Na E, Krumm E, Kim SY, Cheng X, Murphy AJ, Yancopoulos GD, Gromada J | 2017 | Proceedings of the National Academy of Sciences | Metabolism | Area Quantification | HALO |
| 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 JQ | 2017 | Acta Neuropathologica Communications | Neuroscience | Area Quantification, Cytonuclear | HALO |
| 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-Y | 2017 | Journal of Biological Chemistry | Neuroscience | Area Quantification, Cytonuclear | HALO |
| Neutorphils dominate the immune cell composition in non-small cell lung cancer | Kargl J, Busch SE, Yang GHY, Kim K-H, Hanke ML, Metz HE, Hubbard JJ, Lee SM, Madtes DK, McIntosh MW, Houghton AM | 2017 | Nature Communications | Oncology, Immuno-oncology | Area Quantification | HALO |
| Plant-based vaccines for oral delivery of type 1 diabetes-related autoantigens: Evaluating oral tolerance mechanisms and disease prevention in NOD mice | Posgai AL, Wasserfall CH, Kwon K-C, Daniell H, Schatz DA, Atkinson MA | 2017 | Scientific Reports | Metabolism | Area Quantification | HALO |
| Expression of protein disulfide isomerase family members correlates with tumor progression and patient survival in ovarian cancer | Samanta S, Tamura S, Dubeau L, Mhawech-Fauceglia P, Miyagi Y, Kato H, Lieberman R, Buckanovich RJ, Lin YG, Neamati N | 2017 | Oncotarget | Oncology | Area Quantification | HALO |
| Receptor tyrosine kinase expression and phosphorylation in canine nasal carcinoma | Hocker SA, Higginbotham ML, Schermerhorn T, Henningson J | 2017 | Research in Veterinary Science | Oncology | Area Quantification, Multiplex IHC | HALO |
| 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 J | 2017 | JCI Insight | Oncology, Immuno-oncology | Area Quantification, Cytonuclear | HALO |
| Sex- and Dose-Specific Effects of Maternal Bisphenol A Exposure on Pancreatic Islets of First- and Second-Generation Adult Mice Offspring | Bansal A, Rashid C, Xin F, Li C, Polyak E, Duemler A, van der Meer T, Stefaniak M, Wajid S, Doliba N, Bartolomei MS, Simmons RA | 2017 | Environmental Health Perspectives | Metabolism | Area Quantification | 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 |
| The action of β-hydroxybutyrate on the growth, metabolism and global histone H3 acetylation of spontaneous mouse mammary tumours: evidence of a β-hydroxybutyrate paradox | Rodrigues LM, Uribe-Lewis S, Madhu B, Honess DJ, Stubbs M, Griffiths JR | 2017 | Cancer & Metabolism | Oncology, Metabolism | Area Quantification, Cytonuclear | HALO |
| Epigenetic regulation of the thioredoxin-interacting protein (TXNIP) gene by hyperglycemia in kidney | De Marinis Y, Cai M, Bompada P, Atac D, Kotova O, Johansson ME, Garcia-Vaz E, Gomez MF, Laakso M, Groop L | 2016 | Kidney International | Metabolism | Area Quantification | HALO |
| Evaluation of the brain-penetrant microtubule-stabilizing agent, dictyostatin, in the PS19 tau transgenic mouse model of tauopathy | Makani V, Zhang B, Han H, Yao Y, Lassalas P, Lou K, Paterson I, Lee VMY, Trojanowski JQ, Ballatore C, Smith AB, Brunden KR | 2016 | Acta Neuropatholgica Communications | Neuroscience | Area Quantification | HALO |
| Leptin, BMI, and a Metabolic Gene Expression Signature Associated with Clinical Outcome to VEGF Inhibition in Colorectal Cancer | Pommier AJC, Farren M, Patel B, Wappett M, Michopoulos F, Smith NR, Kendrew J, Frith J, Huby R, Eberlein C, Campbell H, Womack C, Smith PD, Robertson J, Morgan S, Critchlow SE, Barry ST | 2016 | Cell Metabolism | Oncology, Metabolism, Gastroenterology | Area Quantification | HALO |
| CNS-accessible inhibitor of glucosylceramide synthase for substrate reduction therapy of neuronopathic Gaucher disease | Marshall J, Sun Y, Bangari DS, Budman E, Park H, Nietupski JB, Allaire A, Cromwell MA, Wang B, Grabowski GA, Leonard JP, Cheng SH | 2016 | Molecular Therapy | Neuroscience | Area Quantification | HALO |
| ProNGF is a potential diagnostic biomarker for thyroid cancer | Faulkner S, Roselli S, Demont Y, Pundavela J, Choquet G, Leissner P, Oldmeadow C, Attia J, Walker MM, Hondermarck H | 2016 | Oncotarget | Oncology | Area Quantification | HALO |
| Synergistic targeted inhibition of MEK and dual PI3K/mTOR diminishes viability and inhibits tumor growth of canine melanoma underscoring its utility as a preclinical model for human mucosal melanoma | Wei B-R, Michael HT, Hasley CHC, Peer CJ, Adhikari A, Dwyer JE, Hoover SB, El Meskini R, Kozlov S, Ohler ZW, Figg WD, Merlino G, Simpson RM | 2016 | Pigment Cell & Melanoma Research | Oncology | Area Quantification | HALO |
| Solid-state NMR structure of a pathogenic fibril of full-length human [alpha]-synuclein | Tuttle MD, Comellas G, Nieuwkoop AJ, Covell DJ, Berthold DA, Kloepper KD, Courtney JM, Kim JK, Barclay AM, Kendall A, Wan W, Stubbs G, Schwieters CD, Lee VMY, George JM, Rienstra CM | 2016 | Structural & Molecular Biology | Neuroscience | Area Quantification | HALO |
| The Dynamics and Turnover of Tau Aggregates in Cultured Cells: Insights into Therapies for Tauopathies | Guo JL, Buist A, Soares A, Callaerts K, Calafate S, Stevenaert F, Daniels JP, Zoll BE, Crowe A, Brunden KR, Moechars D, Lee VMY | 2016 | The Journal of Biological Chemistry | Neuroscience | Area Quantification | HALO |
| Unique pathological tau conformers from Alzheimer’s brains transmit tau pathology in nontransgenic mice | Guo JL, Narasimhan S, Changolkar L, He Z, Stieber Z, Zhang B, Gathagan RJ, Iba M, McBride JD, Trojanowski JQ, Lee VMY | 2016 | Journal of Experimental Medicine | Neuroscience | Area Quantification | HALO |
| Glucagon Receptor Blockade With a Human Antibody Normalizes Blood Glucose in Diabetic Mice and Monkeys | Okamoto H, Kim J, Aglione JP, Lee J, Cavino K, Na E, Rafique A, Kim JH, Harp J, Valenzuela DM, Yancopoulos GD, Murphy AJ, Gromada J | 2015 | Endocrinology | Metabolism | Area Quantification | HALO |
| Nerve fibers infiltrate the tumor microenvironment and are associated with nerve growth factor production and lymph node invasion in breast cancer | Pundavela J, Roselli S, Faulkner S, Attia J, Scott RJ, Thorne RF, Forbes JF, Bradshaw RA, Walker MM, Jobling P, Hondermarck H | 2015 | Molecular Oncology | Oncology, Neuroscience | Area Quantification | HALO |
| ANGPTL8/betatrophin does not control pancreatic beta cell expansion | Gusarova V, Alexa CA, Na E, Stevis PE, Xin Y, Bonner-Weir S, Cohen JC, Hobbs HH, Murphy AJ, Yancopoulos GD, Gromada J | 2014 | Cell | Metabolism | Area Quantification | HALO |
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Separate multiple tissue classes across a tissue using a learn-by-example approach. Can be used in conjunction with all other modules (fluorescent and brightfield) to select specific tissue classes for further analysis.
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