Transcription factor binding predictions using TRAP for the analysis of ChIP-seq data and regulatory SNPs (Q34066561)

30 July 2017

title

Transcription factor binding predictions using TRAP for the analysis of ChIP-seq data and regulatory SNPs (English)

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30 July 2017

Andrew Hufton

2

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Thomas Manke

Thomas Manke

7

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Matthias Heinig

Matthias Heinig

3

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Morgane Thomas-Chollier

Morgane Thomas-Chollier

1

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Martin Vingron

8

Martin Vingron

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30 July 2017

Sean O'Keeffe

4

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30 July 2017

Nassim El Masri

5

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30 July 2017

Helge G Roider

6

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30 July 2017

publication date

3 November 2011

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30 July 2017

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30 July 2017

volume

6

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30 July 2017

issue

12

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30 July 2017

page(s)

1860-1869

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Applied bioinformatics for the identification of regulatory elements

30 July 2017

cites work

1 reference

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Identifying DNA and protein patterns with statistically significant alignments of multiple sequences

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Theoretical and empirical quality assessment of transcription factor-binding motifs

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Predicting transcription factor affinities to DNA from a biophysical model

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https://api.crossref.org/works/10.1038%2FNPROT.2011.409

Statistical modeling of transcription factor binding affinities predicts regulatory interactions

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https://api.crossref.org/works/10.1038%2FNPROT.2011.409

Functional analysis and identification of cis-regulatory elements of human chromosome 21 gene promoters

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1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2011.409

PASTAA: identifying transcription factors associated with sets of co-regulated genes

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Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data

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Quantifying the effect of sequence variation on regulatory interactions

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TOUCAN 2: the all-inclusive open source workbench for regulatory sequence analysis.

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oPOSSUM: identification of over-represented transcription factor binding sites in co-expressed genes

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PAP: a comprehensive workbench for mammalian transcriptional regulatory sequence analysis

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Using RSAT oligo-analysis and dyad-analysis tools to discover regulatory signals in nucleic sequences

21 January 2018

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Paracrine control of oligodendrocyte differentiation by SRF-directed neuronal gene expression

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A genome-wide association study identifies GLT6D1 as a susceptibility locus for periodontitis

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Genomic determination of the glucocorticoid response reveals unexpected mechanisms of gene regulation

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Selective Glucocorticoid Receptor modulators

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Deeply conserved chordate noncoding sequences preserve genome synteny but do not drive gene duplicate retention

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Regulatory sequence analysis tools

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Glucocorticoid receptor, C/EBP, HNF3, and protein kinase A coordinately activate the glucocorticoid response unit of the carbamoylphosphate synthetase I gene

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A regulatory SNP causes a human genetic disease by creating a new transcriptional promoter

21 January 2018

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On the power of profiles for transcription factor binding site detection.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2011.409

31 March 2020

Identifiers

DOI

10.1038/NPROT.2011.409

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Dimensions Publication ID

30 July 2017

1008025323

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1 reference