Fig. 3

CRISPRi screen identifies GC-specific transcript isoforms. a Transcripts with an FDR ≤ 0.1 as determined by MAGeCK analysis were considered significant. Venn diagram showing the transcripts that score in multiple GC cell lines (not including pan-essential genes). Crossed genes exhibit a bidirectional promoter that is shared with a cell-essential gene (Additional file S3). b Heatmap showing GC-essential isoform dependencies. HFE145 is a normal gastric cell line. c–e Violin plots showing sgRNAs targeting CIT, CCNE1 and MTA3. Dots represent individual targeting sgRNAs. f–h H3K4me3 signals in promoter regions of CIT, CCNE1 and MTA3 from GC patient tumour and adjacent normal tissue showing that these essential transcripts are gained in most GC patient samples