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. 2014 Dec 5;15(12):551. doi: 10.1186/s13059-014-0551-7

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© Wang et al.; licensee BioMed Central Ltd. 2014

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Identification and validation of splicing changes in EJC KD cells. (A) Venn diagrams showing the overlap between significant splicing events (cassette exons) identified with MISO and DiffSplice (left panels), using a threshold of 0.1 for ΔΨ. Correlation between the ΔΨ values predicted by MISO and DiffSplice are shown on the right, and Pearson’s correlation coefficient (r²) is indicated. (B,C) RT-PCR validation of two alternative exons (B) and one constitutive exon (C) in EJC and Upf1 KD cells. MRPL3 is predicted to increase in exon skipping (ΔΨ >0.1) in EJC KD whereas C20orf7 is predicted to increase in exon inclusion (ΔΨ <0.1) in EJC KD. KPNA1 is predicted to increase in exon skipping (ΔΨ >0.1) in EJC KD. The quantification of triplicate experiments are shown below as mean ± SD. ***P <0.001, one-way ANOVA.