Extended Data Fig. 1: Multi-site, multi-modal profiling of malignant cells and the TME.
From: Ovarian cancer mutational processes drive site-specific immune evasion
a, Schematic of the MSK SPECTRUM specimen collection workflow including surgery, single-cell suspensions for scRNA-seq and biobanking of snap-frozen and FFPE samples. b, Cohort overview. Top panel, Oncoprint of selected somatic and germline mutations per patient and cohort-wide prevalence. Single nucleotide variants (SNVs), indels and fusions shown are detected by targeted panel sequencing (MSK-IMPACT). Focal amplifications and deletions are detected by whole-genome sequencing (WGS). Patient data include mutational signature subtype, patient age, staging following FIGO Ovarian Cancer Staging guidelines, and type of surgical procedure. Bottom panel, Sample and data inventory indicating number of co-registered multi-site datasets: single-cell RNA sequencing, H&E whole-slide images, multiplexed immunofluorescence, WGS and MSK-IMPACT.
