Introduction

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 multi-replicate experiments. Application of meRanTK to RNA-BSseq or Aza-IP data produces accurate results in standard compliant formats.meRanTK, source code and test data are released under the GNU GPLv3+ license and are available at http://icbi.at/software/meRanTK/ CONTACT: dietmar.rieder@i-med.ac.at.

Publications

  1. meRanTK: methylated RNA analysis ToolKit.
    Cite this
    Rieder D, Amort T, Kugler E, Lusser A, Trajanoski Z, 2016-03-01 - Bioinformatics (Oxford, England)

Credits

  1. Dietmar Rieder
    Developer

  2. Thomas Amort
    Developer

    Division of Molecular Biology, Biocenter, Austria

  3. Elisabeth Kugler
    Developer

  4. Alexandra Lusser
    Developer

    Division of Molecular Biology, Biocenter, Austria

  5. Zlatko Trajanoski
    Investigator

Community Ratings

UsabilityEfficiencyReliabilityRated By
0 user
Sign in to rate
Summary
AccessionBT001362
Tool TypeApplication
Category
PlatformsLinux/Unix
TechnologiesPerl
User InterfaceTerminal Command Line
Download Count0
Submitted ByZlatko Trajanoski