Identifying promoter sequence architectures via a chunking-based algorithm using non-negative matrix factorisation
Fig 12
Clusters and architectures identified by seqArchR for CAGE-derived core promoter sequences from cell lines and tissues of H. sapiens.
Sequence clusters arranged by the median interquantile widths (IQW) of CAGE TCs in seqArchR clusters (shortest on top, broadest at the bottom). From left to right: Box and whisker plots of per-cluster IQWs, TPMs, and tissue specificity scores (τ) followed by per-cluster sequence logos, and stacked barplots showing proportion of different genomic annotations. TC, tag clusters. TPM, Tags per million.