GESS (graph-based exon-skipping scanner) is a novel computational method for de novo detection of skipping event sites from raw RNA-seq reads without prior knowledge of gene annotations, as well as for determining the dominant isoform generated from such sites.
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Ye Z, Chen Z, Lan X, Hara S, Sunkel B, Huang TH, Elnitski L, Wang Q, Jin VX.
Computational analysis reveals a correlation of exon-skipping events with splicing, transcription and epigenetic factors.
Nucleic Acids Res. 2014 Mar 1;42(5):2856-69.