Hypoxia-dependent alternative splicing programs are highly cell type-specific. (A) Percentage of significantly altered splicing events (|ΔPSI| ≥ 10%, FDR < 0.05) in A549 and MCF-7 cells. Different event types are color coded. (CE) Cassette exon, (MXE) mutually exclusive exons, (A5SS) alternative 5′ splice site, (A3SS) alternative 3′ splice site, (RI) retained intron. (B) Percentage of inclusion and skipping for different event types in A549 and MCF-7 cells. (C) Venn diagram showing the overlap of alternative splicing events in A549 and MCF-7 cells in response to hypoxia. Not significant (Fisher's exact test, one-tailed). The number in brackets refers to AS events regulated in the same direction. (D) Scatter plot comparing the ΔPSI of shared alternative splicing events in A549 and MCF-7 cells. Pearson correlation coefficient and associated P-value are given. (E) RT-PCR of CENPE exon 17 after hypoxia treatment in A549 and MCF-7 cells. The short (118 bp) and long (192 bp) PCR products correspond to exon 17 exclusion and inclusion, respectively. n = 2. (N) Normoxia, (H) hypoxia, (M) size marker.
