Abstract
To empower experimentalists with a means for fast and comprehensive chromatin immunoprecipitation sequencing (ChIP-seq) data analyses, we introduce an integrated computational environment, EaSeq. The software combines the exploratory power of genome browsers with an extensive set of interactive and user-friendly tools for genome-wide abstraction and visualization. It enables experimentalists to easily extract information and generate hypotheses from their own data and public genome-wide datasets. For demonstration purposes, we performed meta-analyses of public Polycomb ChIP-seq data and established a new screening approach to analyze more than 900 datasets from mouse embryonic stem cells for factors potentially associated with Polycomb recruitment. EaSeq, which is freely available and works on a standard personal computer, can substantially increase the throughput of many analysis workflows, facilitate transparency and reproducibility by automatically documenting and organizing analyses, and enable a broader group of scientists to gain insights from ChIP-seq data.
| Originalsprog | Engelsk |
|---|---|
| Tidsskrift | Nature Structural and Molecular Biology |
| Vol/bind | 23 |
| Udgave nummer | 4 |
| Sider (fra-til) | 349-57 |
| Antal sider | 9 |
| ISSN | 1545-9993 |
| DOI | |
| Status | Udgivet - 5 apr. 2016 |