From the website: "Homer includes several motif databases that are used to help annotate results and conduct searches for known motifs. HOMER contains a custom motif database based on independent analysis of mostly ChIP-Seq data sets which is heavily utilized in the software." See http://homer.salk.edu/homer/motif/motifDatabase.html for more information on how these files were generated, and Homer's sources.
MotifDb object of length 247; to access metadata
Name provided HOMER
Factor Name provided by HOMER
Symbol provided by HOMER
Entrez gene id for the transcription factor
UNIPROT id for the transcription factor
Consensus sequence for the motif
DBD provided by HOMER
The Celltype, IP, Assay, and GEO id if applicable for the motif
Source for more details
Heinz S, Benner C, Spann N, Bertolino E et al. (2010 May 28) Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities. Mol Cell, 38(4):576-589. PMID: 20513432
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