SORBET: Automated cell-neighborhood analysis of spatial transcriptomics or proteomics for interpretable sample classification via GNN

• Published in: bioRxiv
• Main Authors: Shimonov, Shay, Cunningham, Joseph M, Talmon, Ronen, Aizenbud, Lilach, Desai, Shruti J, Rimm, David, Schalper, Kurt, Kluger, Harriet, Kluger, Yuval
• Format: Journal Article Paper
• Language: English
• Published: United States Cold Spring Harbor Laboratory Press 01.01.2024
• Subjects: Data acquisition; Deep learning; Immunotherapy; Neural networks; Phenotypes; Proteomics; Transcriptomics

Spatially resolved transcriptomics or proteomics data have the potential to contribute fundamental insights into the mechanisms underlying physiologic and pathological processes. However, analysis of these data capable of relating spatial information, multiplexed markers, and their observed phenotyp...