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Related Experiment Video

Updated: Oct 6, 2025

Targeted DNA Methylation Analysis by Next-generation Sequencing

Targeted DNA Methylation Analysis by Next-generation Sequencing

Published on: February 24, 2015

MeRIPseqPipe: an integrated analysis pipeline for MeRIP-seq data based on Nextflow.

Xiaoqiong Bao¹, Kaiyu Zhu¹, Xuefei Liu¹

¹State Key Laboratory of Oncology in South China, Cancer Center, Collaborative Innovation Center for Cancer Medicine, School of Life Sciences, Sun Yat-sen University, Guangzhou 510060, China.

Bioinformatics (Oxford, England)

|January 13, 2022

Summary

This summary is machine-generated.

MeRIPseqPipe offers a user-friendly, automated pipeline for comprehensive N6-methyladenosine RNA immunoprecipitation sequencing (MeRIP-seq) data analysis. This scalable solution ensures reproducible results for large-scale sample processing, generating detailed visualization reports.

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Published on: August 21, 2019

Area of Science:

Bioinformatics
Computational Biology
Genomics

Background:

RNA modifications play crucial roles in gene regulation.
N6-methyladenosine (m6A) is the most abundant internal mRNA modification.
Analyzing MeRIP-seq data requires robust and scalable computational tools.

Purpose of the Study:

To develop an integrated and automated pipeline for in-depth MeRIP-seq data analysis.
To provide a user-friendly solution for both basic and downstream analysis of MeRIP-seq data.
To ensure high reproducibility and scalability for analyzing large numbers of samples.

Main Methods:

The MeRIPseqPipe pipeline is implemented using Nextflow with Docker support.
It integrates multiple functional analysis modules for comprehensive data processing.
The pipeline is designed for efficient analysis of numerous samples via a simple command-line interface.

Main Results:

MeRIPseqPipe provides a structured output directory for each analysis step.
The pipeline generates visualization reports with tables and plots in HTML format.
It ensures high reproducibility and scalability for MeRIP-seq data analysis.

Conclusions:

MeRIPseqPipe offers a powerful and accessible solution for MeRIP-seq data mining.
The pipeline facilitates in-depth functional analysis and visualization of m6A modification data.
Its design supports efficient processing of large-scale MeRIP-seq experiments.