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A workflow for the de novo pattern discovery of chromatin modifications using ARM
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The discovery of de novo global CCMPs, given a chromatin modification matrix for a set of promoters or a set of gene bodies, was used to identify frequent combinatorial patterns, which is a typical application of ARM. The pattern discovery procedure included adaption of ARM and interpretation of the patterns discovered. The procedure comprised the following steps: pre-processing and discretization, ARM rule generation, clustering of association rules for visualization, refinement of the patterns (Fig. 1), and interpretation of the patterns.
Copyright and License information: The Author(s). ©2016
Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
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