An initial game-theoretic assessment of enhanced tissue preparation and imaging protocols for improved deep learning inference of spatial transcriptomics from tissue morphology.

Autor: Fatemi MY; Department of Computer Science, University of Virginia, Charlottesville, VA 22903, USA., Lu Y; Emerging Diagnostic and Investigative Technologies, Department of Pathology and Laboratory Medicine, Dartmouth Health, Lebanon, NH 03766, USA., Diallo AB; Emerging Diagnostic and Investigative Technologies, Department of Pathology and Laboratory Medicine, Dartmouth Health, Lebanon, NH 03766, USA.; Department of Epidemiology, Dartmouth College Geisel School of Medicine, Hanover, NH 03756, USA.; Program in Quantitative Biomedical Sciences, Dartmouth College Geisel School of Medicine, Hanover, NH 03756, USA., Srinivasan G; Emerging Diagnostic and Investigative Technologies, Department of Pathology and Laboratory Medicine, Dartmouth Health, Lebanon, NH 03766, USA., Azher ZL; Thomas Jefferson High School for Science and Technology, Alexandria, VA 22312, USA., Christensen BC; Department of Epidemiology, Dartmouth College Geisel School of Medicine, Hanover, NH 03756, USA., Salas LA; Department of Epidemiology, Dartmouth College Geisel School of Medicine, Hanover, NH 03756, USA., Tsongalis GJ; Emerging Diagnostic and Investigative Technologies, Department of Pathology and Laboratory Medicine, Dartmouth Health, Lebanon, NH 03766, USA., Palisoul SM; Emerging Diagnostic and Investigative Technologies, Department of Pathology and Laboratory Medicine, Dartmouth Health, Lebanon, NH 03766, USA., Perreard L; Genomics Shared Resource, Dartmouth Cancer Center, Lebanon, NH 03756, USA., Kolling FW 4th; Genomics Shared Resource, Dartmouth Cancer Center, Lebanon, NH 03756, USA., Vaickus LJ; Emerging Diagnostic and Investigative Technologies, Department of Pathology and Laboratory Medicine, Dartmouth Health, Lebanon, NH 03766, USA., Levy JJ; Emerging Diagnostic and Investigative Technologies, Department of Pathology and Laboratory Medicine, Dartmouth Health, Lebanon, NH 03766, USA.; Department of Epidemiology, Dartmouth College Geisel School of Medicine, Hanover, NH 03756, USA.; Program in Quantitative Biomedical Sciences, Dartmouth College Geisel School of Medicine, Hanover, NH 03756, USA.; Department of Dermatology, Dartmouth Health, Lebanon, NH 03756, USA.; Department of Pathology and Laboratory Medicine, Cedars Sinai Medical Center, Los Angeles, CA 90048, USA.; Department of Computational Biomedicine, Cedars Sinai Medical Center, Los Angeles, CA 90048, USA.

Publikováno v: Briefings in bioinformatics [Brief Bioinform] 2024 Sep 23; Vol. 25 (6).

Potential to Enhance Large Scale Molecular Assessments of Skin Photoaging through Virtual Inference of Spatial Transcriptomics from Routine Staining.

Autor: Srinivasan G; Department of Pathology and Laboratory Medicine, Dartmouth Hitchcock Medical Center, Lebanon, NH 03756, USA, gokul.srinivasan.23@dartmouth.edu., Davis MJ, LeBoeuf MR, Fatemi M, Azher ZL, Lu Y, Diallo AB, Saldias Montivero MK, Kolling FW, Perrard L, Salas LA, Christensen BC, Palys TJ, Karagas MR, Palisoul SM, Tsongalis GJ, Vaickus LJ, Preum SM, Levy JJ

Publikováno v: Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing [Pac Symp Biocomput] 2024; Vol. 29, pp. 477-491.

Feasibility of Inferring Spatial Transcriptomics from Single-Cell Histological Patterns for Studying Colon Cancer Tumor Heterogeneity.

Autor: 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

Publikováno v: MedRxiv : the preprint server for health sciences [medRxiv] 2023 Oct 09. Date of Electronic Publication: 2023 Oct 09.