motifbreakR (version 1.2.2)

motifbreakR_motif: MotifDb object containing motif information from the motif databases of HOCOMOCO, Homer, FactorBook and ENCODE

Description

This object contains all the MotifList-class objects that were generated for this package. See the individual help sections for hocomoco, homer, factorbook, and encodemotif, for how the data is formatted.

Usage

motifbreakR_motif

Value

• MotifList-class object

format

MotifDb object of length 2816; to access metadata use mcols(motifbreakR_motif)

source

Kulakovskiy,I.V., Medvedeva,Y.A., Schaefer,U., Kasianov,A.S., Vorontsov,I.E., Bajic,V.B. and Makeev,V.J. (2013) HOCOMOCO: a comprehensive collection of human transcription factor binding sites models. Nucleic Acids Research, 41, D195--D202.

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: http://www.ncbi.nlm.nih.gov/sites/entrez?Db=Pubmed&term=20513432[UID]{20513432}

J Wang, J Zhuang, S Iyer, XY Lin, et al. (2012) Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors. Genome Research, 22 (9), 1798-1812, doi:10.1101/gr.139105.112

Pouya Kheradpour and Manolis Kellis (2013 December 13) Systematic discovery and characterization of regulatory motifs in ENCODE TF binding experiments. Nucleic Acids Research, doi:10.1093/nar/gkt1249

Details

Load with data(motifbreakR_motif)

See Also

hocomoco, homer, factorbook, and encodemotif

Examples

data(motifbreakR_motif)
motifbreakR_motif