C. elegans v4 database

The C. elegans v4 database is based on the WS170 of the C. elegans genome. Motifs were generated in the upstream regions of C. elegans transcripts and their orthologues in C. briggsae, C. remanei, C. brenneri, C. japonica, Pristionchus pacificus, Brugia malayi, and Trichinella spiralis. All orthologue predictions were made using WABA, and only transcripts with at least 3 orthologues were used in this analysis - 3847 transcripts in total. All motifs were generated using MotifSampler.

Annotation: 17740 motifs have been annotated with TRANSFAC models at a p-value threshold 1e-05; 23331 motifs have been annotated with JASPAR models at a p-value threshold of 1e-04; 7449 motifs have been annotated with models based on experimentally proven C. elegans TFBS from the ORegAnno database at a p-value threshold of 1.5e-04.

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