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Hydroxymethylation alterations in progenitor-like cell types of pediatric central nervous system tumors are associated with cell type-specific transcriptional changes.
Lee MK, Azizgolshani N, Zhang Z, Perreard L, Kolling FW, Nguyen LN, Zanazzi GJ, Salas LA, Christensen BC. Lee MK, et al. Among authors: perreard l. Res Sq [Preprint]. 2023 Feb 28:rs.3.rs-2517758. doi: 10.21203/rs.3.rs-2517758/v1. Res Sq. 2023. Update in: Nat Commun. 2024 Apr 30;15(1):3635. doi: 10.1038/s41467-024-47943-9 PMID: 36909536 Free PMC article. Updated. Preprint.
Spatial Omics Driven Crossmodal Pretraining Applied to Graph-based Deep Learning for Cancer Pathology Analysis.
Azher Z, Fatemi M, Lu Y, Srinivasan G, Diallo A, Christensen B, Salas L, Kolling F, Perreard L, Palisoul S, Vaickus L, Levy J. Azher Z, et al. Among authors: perreard l. bioRxiv [Preprint]. 2023 Jul 31:2023.07.30.551187. doi: 10.1101/2023.07.30.551187. bioRxiv. 2023. Update in: Pac Symp Biocomput. 2024;29:464-476. PMID: 37577686 Free PMC article. Updated. Preprint.
Feasibility of Inferring Spatial Transcriptomics from Single-Cell Histological Patterns for Studying Colon Cancer Tumor Heterogeneity.
Fatemi MY, Lu Y, Sharma C, Feng E, Azher ZL, Diallo AB, Srinivasan G, Rosner GM, Pointer KB, Christensen BC, Salas LA, Tsongalis GJ, Palisoul SM, Perreard L, Kolling FW, Vaickus LJ, Levy JJ. Fatemi MY, et al. Among authors: perreard l. medRxiv [Preprint]. 2023 Oct 9:2023.10.09.23296701. doi: 10.1101/2023.10.09.23296701. medRxiv. 2023. PMID: 37873186 Free PMC article. Preprint.
An initial game-theoretic assessment of enhanced tissue preparation and imaging protocols for improved deep learning inference of spatial transcriptomics from tissue morphology.
Fatemi MY, Lu Y, Diallo AB, Srinivasan G, Azher ZL, Christensen BC, Salas LA, Tsongalis GJ, Palisoul SM, Perreard L, Kolling FW 4th, Vaickus LJ, Levy JJ. Fatemi MY, et al. Among authors: perreard l. Brief Bioinform. 2024 Sep 23;25(6):bbae476. doi: 10.1093/bib/bbae476. Brief Bioinform. 2024. PMID: 39367648 Free PMC article.
Inferring spatial transcriptomics markers from whole slide images to characterize metastasis-related spatial heterogeneity of colorectal tumors: A pilot study.
Fatemi M, Feng E, Sharma C, Azher Z, Goel T, Ramwala O, Palisoul SM, Barney RE, Perreard L, Kolling FW, Salas LA, Christensen BC, Tsongalis GJ, Vaickus LJ, Levy JJ. Fatemi M, et al. Among authors: perreard l. J Pathol Inform. 2023 Mar 29;14:100308. doi: 10.1016/j.jpi.2023.100308. eCollection 2023. J Pathol Inform. 2023. PMID: 37114077 Free PMC article.
17 results