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CompleteMOTIFs

A motif discovery platform developed to help biologists to find novel as well as known motifs in their peak datasets from transcription factor (TF) binding experiments such as ChIP-seq and ChIP-chip. The pipeline annotates genomic regions (or peaks) with information from RefSeq and Ensembl genes, conservation scores, repeating sequence elements and GO terms. Boolean operations are provided to combine results from multiple TF-binding experiments. Three widely used de novo motif discovery tools, MEME, Weeder and ChIPMunk, and a scanning tool for known motifs, Patser, are incorporated in the pipeline.

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CompleteMOTIFs classification

CompleteMOTIFs specifications

Interface:
Web user interface
Input format:
FASTA, BED, GFF
Stability:
Stable
Restrictions to use:
Academic or non-commercial use
Computer skills:
Basic
Maintained:
Yes

CompleteMOTIFs distribution

CompleteMOTIFs support

Maintainer

  • Sek Won Kong <>

Credits

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Publications

Institution(s)

Children's Hospital Informatics Program at the Harvard-MIT, Division of Health Sciences and Technology, Department of Medicine, Children's Hospital Boston, Boston, MA, USA

Link to literature

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