Uncovering transcription factor modules using one- and three-dimensional analyses (Q26862955)

P. J. Farnham

series ordinal

2

1 reference

V. X. Jin

series ordinal

3

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language of work or name

1 reference

7 September 2012

1 reference

Journal of Biological Chemistry

published in

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volume

287

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issue

37

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page(s)

30914-21

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Cistrome: an integrative platform for transcriptional regulation studies

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21 March 2017

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Initial sequencing and analysis of the human genome

21 March 2017

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The Sequence of the Human Genome

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Comparative analysis of the ternary complex factors Elk-1, SAP-1a and SAP-2 (ERP/NET)

21 March 2017

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High-resolution profiling of histone methylations in the human genome

21 March 2017

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Interactions of the Mcm1 MADS box protein with cofactors that regulate mating in yeast

21 March 2017

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Genome-wide location and function of DNA binding proteins

21 March 2017

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Comprehensive mapping of long-range interactions reveals folding principles of the human genome

21 March 2017

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21 March 2017

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Capturing chromosome conformation

21 March 2017

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PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls

21 March 2017

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21 March 2017

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Detection of in vivo protein-DNA interactions using DamID in mammalian cells

21 March 2017

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Chromosome Conformation Capture Carbon Copy (5C): a massively parallel solution for mapping interactions between genomic elements

21 March 2017

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21 March 2017

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An oestrogen-receptor-α-bound human chromatin interactome

21 March 2017

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

7 April 2017

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Genome-wide mapping of in vivo protein-DNA interactions

7 April 2017

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Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF

7 April 2017

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Cofactor dynamics and sufficiency in estrogen receptor-regulated transcription

7 April 2017

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ChIP-seq: advantages and challenges of a maturing technology

7 April 2017

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Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing

7 April 2017

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A high-resolution map of active promoters in the human genome

7 April 2017

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Estrogen receptor-alpha directs ordered, cyclical, and combinatorial recruitment of cofactors on a natural target promoter

7 April 2017

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TRANSFAC: an integrated system for gene expression regulation

7 April 2017

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A census of human transcription factors: function, expression and evolution

7 April 2017

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Integration of Hi-C and ChIP-seq data reveals distinct types of chromatin linkages

7 April 2017

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Using ChIP-seq technology to generate high-resolution profiles of histone modifications

28 September 2017

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CTCF-mediated functional chromatin interactome in pluripotent cells

28 September 2017

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Phospho-MED1-enhanced UBE2C locus looping drives castration-resistant prostate cancer growth

28 September 2017

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Integrative model of genomic factors for determining binding site selection by estrogen receptor-α

28 September 2017

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W-ChIPeaks: a comprehensive web application tool for processing ChIP-chip and ChIP-seq data

28 September 2017

1 reference

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Intra- and inter-chromosomal interactions correlate with CTCF binding genome wide.

28 September 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438924

ChIP-Seq using high-throughput DNA sequencing for genome-wide identification of transcription factor binding sites

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438924

Systematic identification of conserved motif modules in the human genome

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438924

Genomics tools for unraveling chromosome architecture

28 September 2017

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Using ChIP-seq technology to identify targets of zinc finger transcription factors

28 September 2017

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Estrogen-mediated epigenetic repression of large chromosomal regions through DNA looping

28 September 2017

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Sole-Search: an integrated analysis program for peak detection and functional annotation using ChIP-seq data

28 September 2017

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A wave of nascent transcription on activated human genes

28 September 2017

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Chromosome crosstalk in three dimensions.

28 September 2017

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Transcription factories: gene expression in unions?

28 September 2017

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A clustering approach for identification of enriched domains from histone modification ChIP-Seq data

28 September 2017

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An integrated software system for analyzing ChIP-chip and ChIP-seq data

28 September 2017

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Modeling ChIP sequencing in silico with applications

28 September 2017

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Genome-wide identification of in vivo protein-DNA binding sites from ChIP-Seq data

28 September 2017

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28 September 2017

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Myc dynamically and preferentially relocates to a transcription factory occupied by Igh

28 September 2017

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28 September 2017

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28 September 2017

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Circular chromosome conformation capture (4C) uncovers extensive networks of epigenetically regulated intra- and interchromosomal interactions.

28 September 2017

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Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C).

28 September 2017

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Unbiased location analysis of E2F1-binding sites suggests a widespread role for E2F1 in the human genome

28 September 2017

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Evaluation of regulatory potential and conservation scores for detecting cis-regulatory modules in aligned mammalian genome sequences

28 September 2017

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

28 September 2017

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cis-Regulatory control circuits in development

28 September 2017

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High-throughput screening of chromatin immunoprecipitates using CpG-island microarrays

28 September 2017

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Characterizing the physical genome

28 September 2017

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Identification of unknown target genes of human transcription factors using chromatin immunoprecipitation

28 September 2017

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Structure and function of the interferon-beta enhanceosome

28 September 2017

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Thousands of Cis-Regulatory Sequence Combinations Are Shared by Arabidopsis and Poplar

28 September 2017

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Genome-wide computational prediction of transcriptional regulatory modules reveals new insights into human gene expression

31 May 2018

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CTCF mediates interchromosomal colocalization between Igf2/H19 and Wsb1/Nf1.

31 May 2018

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PICS: probabilistic inference for ChIP-seq

21 January 2018

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Probabilistic modeling of Hi-C contact maps eliminates systematic biases to characterize global chromosomal architecture

21 January 2018

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21 January 2018

Identifiers

DOI

10.1074/JBC.R111.309229

0 references

1 reference

PubMed publication ID

22952238

1 reference