Figure 2. Workflow of MethMotif Batch Query

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Figure 2. Workflow of MethMotif Batch Query Figure 2. Workflow of MethMotif Batch Query. MethMotif Batch Query is available via the MethMotif website, which allows users to study the occurrences of TFBSs along with DNA methylation states in a given list of genomic loci. Users can upload the coordinates of the regions of their interest in BED format (A). MethMotif database will be queried (B) and the presence of TFBSs together with respective DNA methylation levels is then analysed using the MethMotif Enrichment Tool (C) in the given regions. If loci from the input regions overlap with any TFBS present in the MethMotif database, the Batch Query tool will output these overlapped loci along with their respective TFBS DNA methylation information via a beeswarm boxplot (where each dot represents the methylation level of a CpG site within the TFBS) and a MethMotif logo generated de novo(D). From: MethMotif: an integrative cell specific database of transcription factor binding motifs coupled with DNA methylation profiles Nucleic Acids Res. Published online October 31, 2018. doi:10.1093/nar/gky1005 Nucleic Acids Res | © The Author(s) 2018. Published by Oxford University Press on behalf of Nucleic Acids Research.This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com 1