ArticlePloS one2017
CAM: A quality control pipeline for MNase-seq data.
Article in PloS one, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed.
- A Scalable MNase-seq Framework for Reproducible Nucleosome Profiling across Pluripotent Stem Cell and Cardiomyocyte Models.Computational and structural biotechnology journal · 2026Article
- Skeletal muscle differentiation induces wide-ranging nucleosome repositioning in muscle gene promoters.Scientific reports · 2024Article
- Heterochromatin rewiring and domain disruption-mediated chromatin compaction during erythropoiesis.Nature structural & molecular biology · 2023Article
- ATAC-seq exposes differences in chromatin accessibility leading to distinct leaf shapes in mulberry.Plant direct · 2022Article
- NUCOME: A comprehensive database of nucleosome organization referenced landscapes in mammalian genomes.BMC bioinformatics · 2021Article
- Interferon regulatory factor 1 and a variant of heterogeneous nuclear ribonucleoprotein L coordinately silence the gene for adhesion protein CEACAM1.The Journal of biological chemistry · 2018Article
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Authors and funding
6 authors.
Funding
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Abstract
Nucleosome organization affects the accessibility of cis-elements to trans-acting factors. Micrococcal nuclease digestion followed by high-throughput sequencing (MNase-seq) is the most popular technology used to profile nucleosome organization on a genome-wide scale. Evaluating the data quality of MNase-seq data remains challenging, especially in mammalian. There is a strong need for a convenient and comprehensive approach to obtain dedicated quality control (QC) for MNase-seq data analysis. Here we developed CAM, which is a comprehensive QC pipeline for MNase-seq data. The CAM pipeline provides multiple informative QC measurements and nucleosome organization profiles on different potentially functional regions for given MNase-seq data. CAM also includes 268 historical MNase-seq datasets from human and mouse as a reference atlas for unbiased assessment. CAM is freely available at: http://www.tongji.edu.cn/~zhanglab/CAM.
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