TRESS

The software tool 'TRESS' addresses the analysis of mRNA epigenetic modifications using MeRIP-seq data. It introduces a statistical method based on an empirical Bayesian hierarchical model designed to identify modification regions while accommodating various sources of variation across replicates. The approach employs shrinkage estimation, leveraging information from transcriptome-wide data to enhance parameter stability.

Topic

Epigenetics;Gene transcripts;RNA immunoprecipitation;Methylated DNA immunoprecipitation;RNA-Seq

Detail

  • Operation: Peak calling;Gene expression profiling;Methylation calling

  • Software interface: Library

  • Language: R

  • License: The GNU General Public License v3.0

  • Cost: Free

  • Version name: 1.8.0

  • Credit: National Institute of Health (NIH).

  • Input: -

  • Output: -

  • Contact: Zhenxing Guo guozhenxing@cuhk.edu.cn

  • Collection: -

  • Maturity: Stabel

Publications

  • Detecting m6A methylation regions from Methylated RNA Immunoprecipitation Sequencing.
  • Guo Z, et al. Detecting m6A methylation regions from Methylated RNA Immunoprecipitation Sequencing. Detecting m6A methylation regions from Methylated RNA Immunoprecipitation Sequencing. 2021; 37:2818-2824. doi: 10.1093/bioinformatics/btab181
  • https://doi.org/10.1093/BIOINFORMATICS/BTAB181
  • PMID: 33724304
  • PMC: PMC9991887

Download and documentation

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