(Q33703447)

28 July 2017

title

Identification of context-dependent motifs by contrasting ChIP binding data (English)

1 reference

28 July 2017

2

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28 July 2017

Mike J Mason

1

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28 July 2017

Qing Zhou

series ordinal

3

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28 July 2017

language of work or name

English

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publication date

23 September 2010

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28 July 2017

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28 July 2017

volume

26

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28 July 2017

issue

22

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28 July 2017

page(s)

2826-2832

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ChIP-Seq of transcription factors predicts absolute and differential gene expression in embryonic stem cells

28 July 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Exhaustive search for over-represented DNA sequence motifs with CisFinder

21 June 2018

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Interactions between SOX factors and Wnt/beta-catenin signaling in development and disease

21 June 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Chd1 regulates open chromatin and pluripotency of embryonic stem cells

21 June 2018

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Integrating sequence, evolution and functional genomics in regulatory genomics

21 June 2018

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Role of the murine reprogramming factors in the induction of pluripotency

21 June 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Genome-scale study of the importance of binding site context for transcription factor binding and gene regulation

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Connecting microRNA genes to the core transcriptional regulatory circuitry of embryonic stem cells

21 June 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Integration of external signaling pathways with the core transcriptional network in embryonic stem cells

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Tcf3 functions as a steady-state limiter of transcriptional programs of mouse embryonic stem cell self-renewal

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

An extended transcriptional network for pluripotency of embryonic stem cells

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Tcf3 is an integral component of the core regulatory circuitry of embryonic stem cells

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

High-throughput biochemical analysis of in vivo location data reveals novel distinct classes of POU5F1(Oct4)/DNA complexes

21 June 2018

1 reference

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Crystal structure and DNA binding of the homeodomain of the stem cell transcription factor Nanog

21 June 2018

1 reference

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Induced pluripotent stem cell lines derived from human somatic cells

21 June 2018

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A universal framework for regulatory element discovery across all genomes and data types

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Discriminative motif discovery in DNA and protein sequences using the DEME algorithm

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Genome-wide mapping of in vivo protein-DNA interactions

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Deciphering principles of transcription regulation in eukaryotic genomes.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

A survey of motif discovery methods in an integrated framework

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Genome-wide prediction and characterization of interactions between transcription factors in Saccharomyces cerevisiae

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Differential roles for Sox15 and Sox2 in transcriptional control in mouse embryonic stem cells

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Identifying tissue-selective transcription factor binding sites in vertebrate promoters

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

CisModule: de novo discovery of cis-regulatory modules by hierarchical mixture modeling

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Crystal structure of a POU/HMG/DNA ternary complex suggests differential assembly of Oct4 and Sox2 on two enhancers

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

An algorithm for finding protein-DNA binding sites with applications to chromatin-immunoprecipitation microarray experiments

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

BioProspector: discovering conserved DNA motifs in upstream regulatory regions of co-expressed genes.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Synergism with the coactivator OBF-1 (OCA-B, BOB-1) is mediated by a specific POU dimer configuration

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

DNA binding sites: representation and discovery

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Finding DNA regulatory motifs within unaligned noncoding sequences clustered by whole-genome mRNA quantitation

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Sox-4, an Sry-like HMG box protein, is a transcriptional activator in lymphocytes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Detecting subtle sequence signals: a Gibbs sampling strategy for multiple alignment

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Identifying protein-binding sites from unaligned DNA fragments

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2971577

Predicting gene expression from sequence

21 June 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTQ546

Heterogeneity in DNA multiple alignments: modeling, inference, and applications in motif finding

21 January 2018

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https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTQ546

Determination of local statistical significance of patterns in Markov sequences with application to promoter element identification

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTQ546

Finding motifs from all sequences with and without binding sites

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTQ546

10.1093/BIOINFORMATICS/BTQ546

21 January 2018

Identifiers

DOI

1 reference

journals/bioinformatics/MasonPZ10

28 July 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

28 July 2017

1 reference