Journal
BIOINFORMATICS
Volume 32, Issue 5, Pages 782-785Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btv647
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Funding
- Austrian Science Fund (FWF) [P27024-BBL]
- Austrian Science Fund (FWF) [P27024] Funding Source: Austrian Science Fund (FWF)
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The significance and function of posttranscriptional cytosine methylation in poly(A) RNA attracts great interest but is still poorly understood. High-throughput sequencing of RNA treated with bisulfite (RNA-BSseq) or subjected to enrichment techniques like Aza-IP or miCLIP enables transcriptome wide studies of this particular modification at single base pair resolution. However, to date, there are no specialized software tools available for the analysis of RNA-BSseq or Aza-IP data. Therefore, we developed meRanTK, the first publicly available tool kit which addresses the special demands of high-throughput RNA cytosine methylation data analysis. It provides fast and easy to use splice-aware bisulfite sequencing read mapping, comprehensive methylation calling and identification of differentially methylated cytosines by statistical analysis of single-and multireplicate experiments. Application of meRanTK to RNA-BSseq or Aza-IP data produces accurate results in standard compliant formats.
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