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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: christensen bc. Brief Bioinform. 2024 Sep 23;25(6):bbae476. doi: 10.1093/bib/bbae476. Brief Bioinform. 2024. PMID: 39367648 Free PMC article.
Tumor type and cell type-specific gene expression alterations in diverse pediatric central nervous system tumors identified using single nuclei RNA-seq.
Lee MK, Azizgolshani N, Shapiro JA, Nguyen LN, Kolling FW, Zanazzi GJ, Frost HR, Christensen BC. Lee MK, et al. Among authors: christensen bc. Res Sq [Preprint]. 2023 Feb 23:rs.3.rs-2517703. doi: 10.21203/rs.3.rs-2517703/v1. Res Sq. 2023. Update in: Nat Commun. 2024 Apr 30;15(1):3634. doi: 10.1038/s41467-024-47712-8. PMID: 36865335 Free PMC article. Updated. Preprint.
Identification of Spatial Proteomic Signatures of Colon Tumor Metastasis: A Digital Spatial Profiling Approach.
Levy JJ, Zavras JP, Veziroglu EM, Nasir-Moin M, Kolling FW, Christensen BC, Salas LA, Barney RE, Palisoul SM, Ren B, Liu X, Kerr DA, Pointer KB, Tsongalis GJ, Vaickus LJ. Levy JJ, et al. Among authors: christensen bc. Am J Pathol. 2023 Jun;193(6):778-795. doi: 10.1016/j.ajpath.2023.02.020. Epub 2023 Apr 8. Am J Pathol. 2023. PMID: 37037284 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: christensen bc. 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.
Examining longitudinal markers of bladder cancer recurrence through a semiautonomous machine learning system for quantifying specimen atypia from urine cytology.
Levy JJ, Chan N, Marotti JD, Rodrigues NJ, Ismail AAO, Kerr DA, Gutmann EJ, Glass RE, Dodge CP, Suriawinata AA, Christensen BC, Liu X, Vaickus LJ. Levy JJ, et al. Among authors: christensen bc. Cancer Cytopathol. 2023 Sep;131(9):561-573. doi: 10.1002/cncy.22725. Epub 2023 Jun 26. Cancer Cytopathol. 2023. PMID: 37358142 Free PMC article.
A deep learning algorithm to detect cutaneous squamous cell carcinoma on frozen sections in Mohs micrographic surgery: A retrospective assessment.
Davis MJ, Srinivasan G, Chacko R, Chen S, Suvarna A, Vaickus LJ, Torres VC, Hodge S, Chen EY, Preum S, Samkoe KS, Christensen BC, LeBoeuf MR, Levy JJ. Davis MJ, et al. Among authors: christensen bc. Exp Dermatol. 2024 Jan;33(1):e14949. doi: 10.1111/exd.14949. Epub 2023 Oct 21. Exp Dermatol. 2024. PMID: 37864429
246 results