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bioRxiv · 10.1101/143263

CAM: A Quality Control Pipeline For MNase-Seq Data

Hu, S.·Chen, X.·Liao, J.·Chen, Y.·Zhao, C.·Zhang, Y.
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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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Hu, S., Chen, X., Liao, J., Chen, Y., Zhao, C., Zhang, Y.. 2017-05-28. CAM: A Quality Control Pipeline For MNase-Seq Data. https://doi.org/10.1101/143263

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