ChIPseek utilizes HOMER to identify motifs.
User should specify the range of nucleotides around the center of peaks for motif identification.
ChIPseek provides several options based on the suggestions from user manual of HOMER.
±25bp for establishing the primary motif bound by a given transcription factor
±100bp for establishing the primary and co-enriched motif bound by a given transcription factor
±250bp/±500bp for dentifying board range epigenetic marks such as histone marks or DNA methylation region
(For more detailed description, please refer to the HOMER user manual
ChIPseek list motif identification results in a table which includes:
*User can link to the original HOMER output for more detailed detection information.
- 1) Rank
- 2) Motif (Sequence logo)
- 3) P value
- 4) Best Match/Details
- 5) Motif file