2024
Less-is-more: selecting transcription factor binding regions informative for motif inference
Xu J, Gao J, Ni P, Gerstein M. Less-is-more: selecting transcription factor binding regions informative for motif inference. Nucleic Acids Research 2024, 52: e20-e20. PMID: 38214231, PMCID: PMC10899791, DOI: 10.1093/nar/gkad1240.Peer-Reviewed Original ResearchMeSH KeywordsBinding SitesChromatin ImmunoprecipitationGenomicsNucleotide MotifsProtein BindingTranscription FactorsConceptsChIP-seq signalsChIP-seqGenomic regionsMotif inferenceTranscription factorsTargeting motifTranscription factor binding regionsChIP-seq datasetsNon-specific interactionsC-scoreDNA motifsBinding regionMotifTranscriptionTF signalingAccurate inferenceStronger signalSignalDNARegionTargetInteraction
2009
PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls
Rozowsky J, Euskirchen G, Auerbach RK, Zhang ZD, Gibson T, Bjornson R, Carriero N, Snyder M, Gerstein MB. PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls. Nature Biotechnology 2009, 27: 66-75. PMID: 19122651, PMCID: PMC2924752, DOI: 10.1038/nbt.1518.Peer-Reviewed Original Research