rMATS is a tool to detect major differential alternative splicing types in RNA-seq data with replicates. The rMATS algorithm can use both paired and unpaired reads and computes p-values and false discovery rates based on a user-defined threshold.
Alternative name: MATS.
Gene expression; Transcriptomics
Shen S, Park JW, Lu ZX, Lin L, Henry MD, Wu YN, Zhou Q, Xing Y "rMATS: robust and flexible detection of differential alternative splicing from replicate RNA-Seq data." Proc Natl Acad Sci U S A. 2014 Dec 23;111(51):E5593-601. 10.1073/pnas.1419161111. Epub 2014 Dec 5. https://doi.org/10.1073/pnas.1419161111
PMID: 25480548
PMCID: PMC4280593
Park JW, Tokheim C, Shen S, Xing Y "Identifying differential alternative splicing events from RNA sequencing data using RNASeq-MATS." Methods Mol Biol. 2013;1038:171-9. https://doi.org/10.1007/978-1-62703-514-9_10
PMID: 23872975
Shen S, Park JW, Huang J, Dittmar KA, Lu ZX, Zhou Q, Carstens RP, Xing Y "MATS: a Bayesian framework for flexible detection of differential alternative splicing from RNA-Seq data." Nucleic Acids Res. 2012 Apr;40(8):e61. https://doi.org/10.1093/nar/gkr1291
PMID: 22266656
PMCID: PMC3333886
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