| 1 | CoBRA: Containerized Bioinformatics Workflow for Reproducible Ch IP/ATAC-seq Analysis显示文摘Chromatin immunoprecipitation sequencing(Ch IP-seq)and the Assay for Transposase-Accessible Chromatin with high-throughput sequencing(ATAC-seq)have become essential technologies to effectively measure protein–DNA interactions and chromatin accessibility.However,there is a need for a scalable and reproducible pipeline that incorporates proper normalization between samples,correction of copy number variations,and integration of new downstream analysis tools.Here we present Containerized Bioinformatics workflow for Reproducible Ch IP/ATAC-seq Analysis(Co BRA),a modularized computational workflow which quantifies Ch IP-seq and ATAC-seq peak regions and performs unsupervised and supervised analyses.Co BRA provides a comprehensive state-of-the-art Ch IP-seq and ATAC-seq analysis pipeline that can be used by scientists with limited computational experience.This enables researchers to gain rapid insight into protein–DNA interactions and chromatin accessibility through sample clustering,differential peak calling,motif enrichment,comparison of sites to a reference database,and pathway analysis.Co BRA is publicly available online at http://gffzzdf4c9811637e4d7esqxxxk6b5pkub6ncq.ffgz.tsg.suse.edu.cn/cfce/cobra. | Xintao Qiu Avery S.Feit Ariel Feiglin Yingtian Xie Nikolas Kesten Len Taing Joseph Perkins Shengqing Gu Yihao Li Paloma Cejas Ningxuan Zhou Rinath Jeselsohn Myles Brown XShirley Liu Henry W.Long | 2021 | Genomics, Proteomics & Bioinformatics2021，19，4： | 0 |
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