DMRL: A versatile Python tool to assess DNA methylation variation and identify DMRs - Wen-Wei Liao

DMRL: A versatile Python tool to assess DNA methylation variation and identify DMRs

Wen-Wei Liao /English

DNA methylation plays critical roles in transcriptional regulation, development, X-chromosome inactivation, and chromatin remodelling. Sodium bisulfite converts unmethylated cytosines to uracils, but 5-methylcytosines remain unconverted. After PCR amplification, unmethylated cytosines appear as thymines and methylated cytosines appear as cytosines. Bisulfite treatment coupled with high-throughput DNA sequencing technologies, it’s now available to perform genome-wide measurements of DNA methylation at single-base resolution. Analysis of genome-wide methylation data starts with alignment of bisulfite-converted reads. After alignment, statistical methods are employed to identify differentially methylated regions (DMRs) between samples. Existing work mainly focused on the alignment (such as BS-Seeker2, Bismark, BSMAP, etc.) but methods for post-alignment analysis are limited. However, DMRs have important implications for gene regulation. Therefore, genome-wide mapping of DMRs across various samples is important in revealing the impact of epigenetic modifications on heritable phenotypic variation. Here we present a versatile Python tool, Differentially Methylated Region Locator (DMRL), to assess DNA methylation variation and identify DMRs from genome-wide methylation profiles.

About Speaker

Profile picture
Wen-Wei Liao is a bioinformatician focuses on the development of Python tools to analyze genomic and epigenomic data. He's currently a research assistant in Pao-Yang Chen's lab at Academia Sinica.



Personal Link





Pao-Yang Chen's Lab, Academia Sinica

Job title

Research Assistant

HDE, Inc. mongodb Google

Tagtoo Vpon Github Github Github

Quanta Research Institute

AcoMo Technology

CLBC KKTIX QSearch Python Software Foundation Open Source Software Foundry LIVEhouse.in Young Optics Wolf Tea

QSearch Business Next Vpon Inside 硬塞的 DIGITIMES INNOMAMBO 創新曼波

Built with Django and Mezzanine by PyCon Taiwan

Hosting provided by StreetVoice.

Bugs or wheels? Feedback and support here.

More on contact organizers@pycon.tw