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The PWMs of these boxes and binding sites were compiled by merging non-redundant information gathered from the biological literature, Transfac database [ 25], and the ab-initio motif discovery analysis we conducted earlier [ 24].
For more information, please refer to our related work [ 27] and its supplement 2. A set of forward predicted TF-gene regulatory relationships were compiled by merging records from UCSC (http://genome.ucsc.edu/) and TRED (http://rulai.cshl.edu/TRED/), which included 130,338 binary tuples involving 214 human TFs and 16,534 targets.
Similar(58)
A complete domain architecture was compiled for each protein by merging these two approaches (Additional file 2).
The dataset was assembled and manually curated by Cui et al. by merging the interactions compiled in different databases, followed by validation of each interaction by accurate revision of the literature.
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Compiled by Gemma Bowes.
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