{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,20]],"date-time":"2026-03-20T17:08:27Z","timestamp":1774026507956,"version":"3.50.1"},"reference-count":63,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2026,4,1]],"date-time":"2026-04-01T00:00:00Z","timestamp":1775001600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2026,4,1]],"date-time":"2026-04-01T00:00:00Z","timestamp":1775001600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2026,2,24]],"date-time":"2026-02-24T00:00:00Z","timestamp":1771891200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100010767","name":"Innovative Medicines Initiative","doi-asserted-by":"publisher","award":["821558"],"award-info":[{"award-number":["821558"]}],"id":[{"id":"10.13039\/501100010767","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003032","name":"National Association of Technical Research","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100003032","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001665","name":"French National Research Agency","doi-asserted-by":"publisher","award":["ANR-24-EXCI-0001"],"award-info":[{"award-number":["ANR-24-EXCI-0001"]}],"id":[{"id":"10.13039\/501100001665","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001665","name":"French National Research Agency","doi-asserted-by":"publisher","award":["ANR-24-EXCI-0005"],"award-info":[{"award-number":["ANR-24-EXCI-0005"]}],"id":[{"id":"10.13039\/501100001665","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001665","name":"French National Research Agency","doi-asserted-by":"publisher","award":["ANR-23-IACL-0008"],"award-info":[{"award-number":["ANR-23-IACL-0008"]}],"id":[{"id":"10.13039\/501100001665","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001665","name":"French National Research Agency","doi-asserted-by":"publisher","award":["ANR-24-EXCI-0003"],"award-info":[{"award-number":["ANR-24-EXCI-0003"]}],"id":[{"id":"10.13039\/501100001665","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001665","name":"French National Research Agency","doi-asserted-by":"publisher","award":["ANR-24-EXCI-0004"],"award-info":[{"award-number":["ANR-24-EXCI-0004"]}],"id":[{"id":"10.13039\/501100001665","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001665","name":"French National Research Agency","doi-asserted-by":"publisher","award":["ANR-24-EXCI-0002"],"award-info":[{"award-number":["ANR-24-EXCI-0002"]}],"id":[{"id":"10.13039\/501100001665","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["clinicalkey.com","clinicalkey.com.au","clinicalkey.es","clinicalkey.fr","clinicalkey.jp","elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Computers in Biology and Medicine"],"published-print":{"date-parts":[[2026,4]]},"DOI":"10.1016\/j.compbiomed.2026.111564","type":"journal-article","created":{"date-parts":[[2026,3,7]],"date-time":"2026-03-07T10:33:38Z","timestamp":1772879618000},"page":"111564","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":0,"special_numbering":"C","title":["MIPHEI-ViT: Multiplex immunofluorescence prediction from H&E images using ViT foundation models"],"prefix":"10.1016","volume":"206","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-7750-8852","authenticated-orcid":false,"given":"Guillaume","family":"Balezo","sequence":"first","affiliation":[]},{"given":"Roger","family":"Trullo","sequence":"additional","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7527-2500","authenticated-orcid":false,"given":"Albert","family":"Pla Planas","sequence":"additional","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1349-8042","authenticated-orcid":false,"given":"Etienne","family":"Decenci\u00e8re","sequence":"additional","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7419-7879","authenticated-orcid":false,"given":"Thomas","family":"Walter","sequence":"additional","affiliation":[]}],"member":"78","reference":[{"key":"10.1016\/j.compbiomed.2026.111564_bib0005","first-page":"1","article-title":"Histopathology-based protein multiplex generation using deep learning","author":"Andani","year":"2025","journal-title":"Nat. Mach. Intell."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0010","doi-asserted-by":"crossref","first-page":"527","DOI":"10.1038\/s41551-022-00891-5","article-title":"Multiplexed imaging in oncology","volume":"6","author":"Andreou","year":"2022","journal-title":"Nat. Biomed. Eng."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0015","doi-asserted-by":"crossref","DOI":"10.34133\/2022\/9786242","article-title":"Label-free virtual her2 immunohistochemical staining of breast tissue using deep learning","author":"Bai","year":"2022","journal-title":"BME Frontiers"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0020","doi-asserted-by":"crossref","first-page":"57","DOI":"10.1038\/s41377-023-01104-7","article-title":"Deep learning-enabled virtual histological staining of biological samples","volume":"12","author":"Bai","year":"2023","journal-title":"Light: Sci. Appl."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0025","series-title":"Benchmark of H&e-to-Mif Virtual Staining in Digital Pathology","author":"Balezo","year":"2026"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0030","series-title":"Miphei-Vit Dataset: Processed Restained H&e and Mif Data from Orion-CRC and Hemit","author":"Balezo","year":"2025"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0035","series-title":"Proceedings of the MICCAI Workshop on Computational Pathology","first-page":"36","article-title":"Random multi-channel image synthesis for multiplexed immunofluorescence imaging","author":"Bao","year":"2021"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0040","series-title":"International Conference on Medical Image Computing and Computer-Assisted Intervention","first-page":"184","article-title":"Hemit: h&e to multiplex-immunohistochemistry image translation with dual-branch pix2pix generator","author":"Bian","year":"2024"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0045","doi-asserted-by":"crossref","first-page":"1659","DOI":"10.3390\/cancers13071659","article-title":"Immunoaizer: a deep learning-based computational framework to characterize cell distribution and gene mutation in tumor microenvironment","volume":"13","author":"Bian","year":"2021","journal-title":"Cancers"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0050","doi-asserted-by":"crossref","first-page":"3802","DOI":"10.1038\/s41596-021-00556-8","article-title":"Codex multiplexed tissue imaging with dna-conjugated antibodies","volume":"16","author":"Black","year":"2021","journal-title":"Nat. Protoc."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0055","article-title":"Shift: speedy histological-to-immunofluorescent translation of a tumor signature enabled by deep learning","volume":"10","author":"Burlingame","year":"2020","journal-title":"Scientific Rep."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0060","doi-asserted-by":"crossref","first-page":"124","DOI":"10.1038\/s41551-022-00940-z","article-title":"Label-free intraoperative histology of bone tissue via deep-learning-assisted ultraviolet photoacoustic microscopy","volume":"7","author":"Cao","year":"2023","journal-title":"Nat. Biomed. Eng."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0065","doi-asserted-by":"crossref","first-page":"850","DOI":"10.1038\/s41591-024-02857-3","article-title":"Towards a general-purpose foundation model for computational pathology","volume":"30","author":"Chen","year":"2024","journal-title":"Nat. Med."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0070","series-title":"Proceedings of the IEEE\/CVF International Conference on Computer Vision","first-page":"9640","article-title":"An empirical study of training self-supervised vision transformers","author":"Chen","year":"2021"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0075","author":"Chen"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0080","doi-asserted-by":"crossref","first-page":"792","DOI":"10.1016\/j.cell.2018.03.040","article-title":"In silico labeling: predicting fluorescent labels in unlabeled images","volume":"173","author":"Christiansen","year":"2018","journal-title":"Cell"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0085","author":"Dosovitskiy"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0090","doi-asserted-by":"crossref","first-page":"S307","DOI":"10.4103\/0975-7406.100281","article-title":"Applications of immunohistochemistry","volume":"4","author":"Duraiyan","year":"2012","journal-title":"J. Pharm. Bioallied Sci."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0095","author":"Gamper"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0100","doi-asserted-by":"crossref","DOI":"10.1038\/s41467-023-40218-9","article-title":"Virtual alignment of pathology image series for multi-gigapixel whole slide images","volume":"14","author":"Gatenbee","year":"2023","journal-title":"Nature Communications"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0105","doi-asserted-by":"crossref","first-page":"401","DOI":"10.1038\/s42256-022-00471-x","article-title":"Deep learning-inferred multiplex immunofluorescence for immunohistochemical image quantification","volume":"4","author":"Ghahremani","year":"2022","journal-title":"Nat. Mach. Intell."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0110","series-title":"Proceedings of the IEEE\/CVF International Conference on Computer Vision","first-page":"684","article-title":"Lizard: a large-scale dataset for colonic nuclear instance segmentation and classification","author":"Graham","year":"2021"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0115","series-title":"Proceedings of the IEEE\/CVF Winter Conference on Applications of Computer Vision","first-page":"574","article-title":"Unetr: transformers for 3d medical image segmentation","author":"Hatamizadeh","year":"2022"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0120","doi-asserted-by":"crossref","first-page":"1699","DOI":"10.1158\/1538-7445.AM2020-1699","article-title":"Immucan: broad cellular and molecular profiling of the human tumor microenvironment","volume":"80","author":"Hong","year":"2020","journal-title":"Cancer Res."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0125","author":"Hu"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0130","doi-asserted-by":"crossref","DOI":"10.1016\/j.media.2024.103143","article-title":"Cellvit: vision transformers for precise cell segmentation and classification","volume":"94","author":"H\u00f6rst","year":"2024","journal-title":"Med. Image Anal."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0135","series-title":"An Introduction to Performing Immunofluorescence Staining","author":"Im","year":"2019"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0140","series-title":"Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition","first-page":"1125","article-title":"Image-to-image translation with conditional adversarial networks","author":"Isola","year":"2017"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0145","author":"Liakopoulos"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0150","series-title":"Labsyspharm\/Orion-CRC [Data Set]","author":"Lin","year":"2023"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0155","doi-asserted-by":"crossref","first-page":"1036","DOI":"10.1038\/s43018-023-00576-1","article-title":"High-plex immunofluorescence imaging and traditional histology of the same tissue section for discovering image-based biomarkers","volume":"4","author":"Lin","year":"2023","journal-title":"Nat. Cancer"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0160","series-title":"Proceedings of the IEEE\/CVF International Conference on Computer Vision","first-page":"10012","article-title":"Swin transformer: hierarchical vision transformer using shifted windows","author":"Liu","year":"2021"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0165","doi-asserted-by":"crossref","first-page":"54","DOI":"10.1158\/2767-9764.CRC-24-0327","article-title":"Autofluorescence virtual staining system for H&E histology and multiplex immunofluorescence applied to immuno-oncology biomarkers in lung cancer","volume":"5","author":"Loo","year":"2025","journal-title":"Cancer Res. Commun."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0170","series-title":"International Conference on Medical Image Computing and Computer-Assisted Intervention","first-page":"411","article-title":"Pathocellbench: a comprehensive benchmark for cell phenotyping","author":"L\u00fcscher","year":"2025"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0175","author":"Mai"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0180","doi-asserted-by":"crossref","first-page":"437","DOI":"10.1146\/annurev.biochem.70.1.437","article-title":"Analysis of proteins and proteomes by mass spectrometry","volume":"70","author":"Mann","year":"2001","journal-title":"Annu. Rev. Biochem."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0185","author":"Oh"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0190","article-title":"Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using high definition spatial profiling","author":"Oliveira","year":"2024","journal-title":"BioRxiv"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0195","author":"Oquab"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0200","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pcbi.1013516","article-title":"Scalable, trustworthy generative model for virtual multi-staining from h&e whole slide images","volume":"21","author":"Ounissi","year":"2025","journal-title":"PLOS Comput. Biol."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0205","doi-asserted-by":"crossref","first-page":"466","DOI":"10.1038\/s41551-019-0362-y","article-title":"Virtual histological staining of unlabelled tissue-autofluorescence images via deep learning","volume":"3","author":"Rivenson","year":"2019","journal-title":"Nat. Biomed. Eng."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0210","series-title":"Proceedings of the IEEE\/CVF Conference on Computer Vision and Pattern Recognition (CVPR)","first-page":"10684","article-title":"High-resolution image synthesis with latent diffusion models","author":"Rombach","year":"2022"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0215","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/s13000-021-01126-y","article-title":"Normalization of he-stained histological images using cycle consistent generative adversarial networks","volume":"16","author":"Runz","year":"2021","journal-title":"Diagn. Pathol."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0220","author":"Saillard"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0225","doi-asserted-by":"crossref","first-page":"1341","DOI":"10.1016\/j.cell.2020.07.005","article-title":"Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive front","volume":"182","author":"Sch\u00fcrch","year":"2020","journal-title":"Cell"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0230","series-title":"Napari: A Multi-Dimensional Image Viewer for Python","author":"Sofroniew","year":"2025"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0235","doi-asserted-by":"crossref","first-page":"100","DOI":"10.1038\/s41592-020-01018-x","article-title":"Cellpose: a generalist algorithm for cellular segmentation","volume":"18","author":"Stringer","year":"2021","journal-title":"Nat. Methods"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0240","series-title":"Proceedings of the IEEE\/CVF Conference on Computer Vision and Pattern Recognition","first-page":"3904","article-title":"Bi-directional feature fusion generative adversarial network for ultra-high resolution pathological image virtual re-staining","author":"Sun","year":"2023"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0245","doi-asserted-by":"crossref","first-page":"135","DOI":"10.1002\/cac2.12023","article-title":"Overview of multiplex immunohistochemistry\/immunofluorescence techniques in the era of cancer immunotherapy","volume":"40","author":"Tan","year":"2020","journal-title":"Cancer Commun."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0250","doi-asserted-by":"crossref","first-page":"103","DOI":"10.1038\/s41592-018-0239-0","article-title":"Deep learning enables cross-modality super-resolution in fluorescence microscopy","volume":"16","author":"Wang","year":"2019","journal-title":"Nat. Methods"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0255","series-title":"Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition","first-page":"8798","article-title":"High-resolution image synthesis and semantic manipulation with conditional gans","author":"Wang","year":"2018"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0260","doi-asserted-by":"crossref","DOI":"10.1016\/j.media.2022.102559","article-title":"Transformer-based unsupervised contrastive learning for histopathological image classification","volume":"81","author":"Wang","year":"2022","journal-title":"Med. Image Anal."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0265","series-title":"Proceedings of the IEEE\/CVF Conference on Computer Vision and Pattern Recognition","first-page":"16133","article-title":"Convnext v2: co-designing and scaling convnets with masked autoencoders","author":"Woo","year":"2023"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0270","doi-asserted-by":"crossref","first-page":"7633","DOI":"10.1038\/s41467-025-62346-0","article-title":"Rosie: AI generation of multiplex immunofluorescence staining from histopathology images","volume":"16","author":"Wu","year":"2025","journal-title":"Nature Communications"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0275","doi-asserted-by":"crossref","DOI":"10.1093\/pnasnexus\/pgad171","article-title":"7-up: generating in silico codex from a small set of immunofluorescence markers","volume":"2","author":"Wu","year":"2023","journal-title":"PNAS Nexus"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0280","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1038\/s41377-019-0139-9","article-title":"Bright-field holography: cross-modality deep learning enables snapshot 3d imaging with bright-field contrast using a single hologram","volume":"8","author":"Wu","year":"2019","journal-title":"Light: Sci. Appl."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0285","series-title":"Proceedings of the IEEE\/CVF Conference on Computer Vision and Pattern Recognition","first-page":"5493","article-title":"Vit-comer: vision transformer with convolutional multi-scale feature interaction for dense predictions","author":"Xia","year":"2024"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0290","doi-asserted-by":"crossref","DOI":"10.1016\/j.inffus.2023.102091","article-title":"Vitmatte: boosting image matting with pre-trained plain vision transformers","volume":"103","author":"Yao","year":"2024","journal-title":"Inf. Fusion."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0295","doi-asserted-by":"crossref","first-page":"759","DOI":"10.1038\/s41592-022-01498-z","article-title":"Identification of cell types in multiplexed in situ images by combining protein expression and spatial information using celesta","volume":"19","author":"Zhang","year":"2022","journal-title":"Nat. Methods"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0300","doi-asserted-by":"crossref","first-page":"78","DOI":"10.1038\/s41377-020-0315-y","article-title":"Digital synthesis of histological stains using micro-structured and multiplexed virtual staining of label-free tissue","volume":"9","author":"Zhang","year":"2020","journal-title":"Light: Sci. Appl."},{"key":"10.1016\/j.compbiomed.2026.111564_bib0305","author":"Zhou"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0310","doi-asserted-by":"crossref","DOI":"10.1016\/j.ebiom.2024.105287","article-title":"Virtual multiplexed immunofluorescence staining from non-antibody-stained fluorescence imaging for gastric cancer prognosis","volume":"107","author":"Zhou","year":"2024","journal-title":"EBioMedicine"},{"key":"10.1016\/j.compbiomed.2026.111564_bib0315","series-title":"Proceedings of the IEEE International Conference on Computer Vision","first-page":"2223","article-title":"Unpaired image-to-image translation using cycle-consistent adversarial networks","author":"Zhu","year":"2017"}],"container-title":["Computers in Biology and Medicine"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0010482526001277?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0010482526001277?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2026,3,20]],"date-time":"2026-03-20T16:14:24Z","timestamp":1774023264000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0010482526001277"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,4]]},"references-count":63,"alternative-id":["S0010482526001277"],"URL":"https:\/\/doi.org\/10.1016\/j.compbiomed.2026.111564","relation":{},"ISSN":["0010-4825"],"issn-type":[{"value":"0010-4825","type":"print"}],"subject":[],"published":{"date-parts":[[2026,4]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"MIPHEI-ViT: Multiplex immunofluorescence prediction from H&E images using ViT foundation models","name":"articletitle","label":"Article Title"},{"value":"Computers in Biology and Medicine","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.compbiomed.2026.111564","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2026 The Author(s). Published by Elsevier Ltd.","name":"copyright","label":"Copyright"}],"article-number":"111564"}}