Extended Data Fig. 3: SMNDC1 poison exon inclusion in cancer. | Nature Genetics

Extended Data Fig. 3: SMNDC1 poison exon inclusion in cancer.

From: RNA isoform screens uncover the essentiality and tumor-suppressor activity of ultraconserved poison exons

Extended Data Fig. 3

a, As Fig. 2c, but for all TCGA cohorts analyzed in Fig. 2d. p computed with two-sided Mann-Whitney U test. Hinges, notches, and whiskers indicate 25th/75th percentiles, 95% confidence interval, and most extreme datapoints within 1.5X interquartile range from hinge. Sample sizes are BLCA: n = 338; BRCA: n = 1089; COAD: n = 451; ESCA: n = 180; HNSC: n = 40; KICH: n = 62; KIRC: n = 430; KIRP: n = 262; LIHC: n = 350; LUAD: n = 502; LUSC: n = 447; PRAD: n = 481; STAD: n = 30; THCA: n = 362. b, Overall survival of lung adenocarcinoma (LUAD) patients, where patients were stratified according to the relative inclusion of the SMNDC1 poison exon. High poison exon, top tercile of samples; low poison exon, bottom tercile of samples. p computed with a two-sided logrank test. n = 237 (low) and 132 (high) samples. The uneven sample allocation arises from edge effects at the boundaries of terciles (MISO only estimates exon inclusion to two significant digits). c, As (b), but for SMNDC1 gene expression. High expression, top tercile of samples; low expression, bottom tercile of samples. p computed with a two-sided logrank test. n = 169 (low) and 174 (high) samples.

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