Fig. 5: ALAN nominates secreted protein RSPO2 as potential resistant gene via association with ERAE in advanced prostate tissue.
From: ALAN is a computational approach that interprets genomic findings in the context of tumor ecosystems
a The gene overlap of ERAE (blue) and ACAE (orange) with the Surfaceome are depicted using Venn Diagrams where the number of genes in each group (n) and the number of overlapping genes are depicted. b The gene overlap of ERAE (blue) and ACAE (orange) with the Secretome are depicted using Venn Diagrams where the number of genes in each group (n) and the number of overlapping genes are depicted. c UMAP plot depicting ALAN gene ecosystems in which specific gene networks of known biological activity are highlighted. Both the ERAE (blue) and ACAE (orange) are shown as well as the nominated resistant gene RSPO2 (light blue). d The ALAN network correlation of the RSPO2 network with ALAN networks for CDK6 (blue), FGFR (light blue), and LEF1 (purple) is depicted using ALAN cloud plots with linear regression statistics shown. e The ALAN network correlation of the RSPO2 network with the AR (red) ALAN network is depicted using ALAN cloud plots with linear regression statistics shown. f Alteration frequency of RSPO2 amplifications and homozygous deletions in various prostate cancer (PCA) datasets. g Comparison of RSPO2 amplification frequency in primary PCA vs mCRPC patients in MSK2010, DFCI/MSKCC 2018, and GENIE 9.1 datasets.
