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OPENANNO

SC Shengquan Chen
GY Guanao Yan
WZ Wenyu Zhang
JL Jinzhao Li
RJ Rui Jiang
ZL Zhixiang Lin
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The webserver OPENANNO31 provides a convenient and straightforward approach to construct the reference. OPENANNO can annotate chromatin accessibility of arbitrary genomic regions by the normalized number of reads that fall into the regions using BAM files, or the normalized number of peaks that overlap with the regions using BED files. After submitting the peak file in scCAS data to the webserver, OPENANNO computes the accessibility of the single-cell peaks across 199 cell lines, 48 tissues, and 11 systems based on 871 DNase-seq samples from ENCODE. When more than 30 bulk samples are used to construct the reference, we retained the loading matrix of the first 30 PCs learned from the reference data when implementing RA3.

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