Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors
Chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-seq) has
become the dominant technique for mapping transcription factor (TF) binding regions …
become the dominant technique for mapping transcription factor (TF) binding regions …
[HTML][HTML] Non-targeted transcription factors motifs are a systemic component of ChIP-seq datasets
R Worsley Hunt, WW Wasserman - Genome biology, 2014 - Springer
Background The global effort to annotate the non-coding portion of the human genome
relies heavily on chromatin immunoprecipitation data generated with high-throughput DNA …
relies heavily on chromatin immunoprecipitation data generated with high-throughput DNA …
A map of direct TF–DNA interactions in the human genome
Chromatin immunoprecipitation followed by sequencing (ChIP-seq) is the most popular
assay to identify genomic regions, called ChIP-seq peaks, that are bound in vivo by …
assay to identify genomic regions, called ChIP-seq peaks, that are bound in vivo by …
Inferring transcription factor complexes from ChIP-seq data
T Whitington, MC Frith, J Johnson… - Nucleic acids …, 2011 - academic.oup.com
Chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq) allows
researchers to determine the genome-wide binding locations of individual transcription …
researchers to determine the genome-wide binding locations of individual transcription …
Factorbook. org: a Wiki-based database for transcription factor-binding data generated by the ENCODE consortium
Abstract The Encyclopedia of DNA Elements (ENCODE) consortium aims to identify all
functional elements in the human genome including transcripts, transcriptional regulatory …
functional elements in the human genome including transcripts, transcriptional regulatory …
hTFtarget: a comprehensive database for regulations of human transcription factors and their targets
Transcription factors (TFs) as key regulators play crucial roles in biological processes. The
identification of TF–target regulatory relationships is a key step for revealing functions of TFs …
identification of TF–target regulatory relationships is a key step for revealing functions of TFs …
A widespread role of the motif environment in transcription factor binding across diverse protein families
Transcriptional regulation requires the binding of transcription factors (TFs) to short
sequence-specific DNA motifs, usually located at the gene regulatory regions. Interestingly …
sequence-specific DNA motifs, usually located at the gene regulatory regions. Interestingly …
High-resolution genome-wide in vivo footprinting of diverse transcription factors in human cells
Regulation of gene transcription in diverse cell types is determined largely by varied sets of
cis-elements where transcription factors bind. Here we demonstrate that data from a single …
cis-elements where transcription factors bind. Here we demonstrate that data from a single …
HOCOMOCO: towards a complete collection of transcription factor binding models for human and mouse via large-scale ChIP-Seq analysis
IV Kulakovskiy, IE Vorontsov, IS Yevshin… - Nucleic acids …, 2018 - academic.oup.com
We present a major update of the HOCOMOCO collection that consists of patterns
describing DNA binding specificities for human and mouse transcription factors. In this …
describing DNA binding specificities for human and mouse transcription factors. In this …
Sequence and chromatin determinants of cell-type–specific transcription factor binding
Gene regulatory programs in distinct cell types are maintained in large part through the cell-
type–specific binding of transcription factors (TFs). The determinants of TF binding include …
type–specific binding of transcription factors (TFs). The determinants of TF binding include …
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