(Q30562517)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22955978%20AND%20SRC:MED&resulttype=core&format=json

12 February 2020

title

Understanding transcriptional regulation by integrative analysis of transcription factor binding data (English)

1 reference

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12 February 2020

6

1 reference

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12 February 2020

Kevin Y Yip

5

1 reference

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12 February 2020

Xianjun Dong

8

1 reference

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12 February 2020

Sarah Djebali

9

1 reference

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12 February 2020

Piero Carninci

12

1 reference

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12 February 2020

Timo Lassmann

13

1 reference

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12 February 2020

Thomas R. Gingeras

14

1 reference

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12 February 2020

Ewan Birney

16

1 reference

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12 February 2020

19

Mark Gerstein

1 reference

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12 February 2020

18

Michael Snyder

1 reference

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12 February 2020

Roderic Guigó i Serra

15

object named as

Roderic Guigó

1 reference

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12 February 2020

10

Yijun Ruan

1 reference

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12 February 2020

7

Koon-Kiu Yan

1 reference

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12 February 2020

11

Carrie A Davis

1 reference

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12 February 2020

author name string

Chao Cheng

1

1 reference

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12 February 2020

Roger Alexander

2

1 reference

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12 February 2020

Renqiang Min

3

1 reference

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12 February 2020

Jing Leng

4

1 reference

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12 February 2020

Zhiping Weng

17

1 reference

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12 February 2020

publication date

1 September 2012

1 reference

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12 February 2020

1 reference

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12 February 2020

volume

22

1 reference

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12 February 2020

issue

9

1 reference

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12 February 2020

page(s)

1658-1667

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22955978%20AND%20SRC:MED&resulttype=core&format=json

GENCODE: the reference human genome annotation for The ENCODE Project

12 February 2020

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Architecture of the human regulatory network derived from ENCODE data

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

An integrated encyclopedia of DNA elements in the human genome

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Modeling gene expression using chromatin features in various cellular contexts

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Genome-wide protein-DNA binding dynamics suggest a molecular clutch for transcription factor function

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

TIP: a probabilistic method for identifying transcription factor target genes from ChIP-seq binding profiles

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Animal transcription networks as highly connected, quantitative continua

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Modeling the relative relationship of transcription factor binding and histone modifications to gene expression levels in mouse embryonic stem cells

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Control of embryonic stem cell lineage commitment by core promoter factor, TAF3.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Dynamic exchange at regulatory elements during chromatin remodeling underlies assisted loading mechanism

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

CpG islands and the regulation of transcription

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

A genome-wide study of DNA methylation patterns and gene expression levels in multiple human and chimpanzee tissues.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

A statistical framework for modeling gene expression using chromatin features and application to modENCODE datasets

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Sequence features that drive human promoter function and tissue specificity

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Exploiting the determinants of stochastic gene expression in Saccharomyces cerevisiae for genome-wide prediction of expression noise

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Transcriptional activity affects the H3K4me3 level and distribution in the coding region

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Differential chromatin marking of introns and expressed exons by H3K36me3.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

RNA-Seq: a revolutionary tool for transcriptomics

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Unraveling transcriptional regulatory programs by integrative analysis of microarray and transcription factor binding data

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

The functional consequences of alternative promoter use in mammalian genomes

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

A high-resolution atlas of nucleosome occupancy in yeast

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

The molecular basis of eukaryotic transcription

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Fusion transcripts and transcribed retrotransposed loci discovered through comprehensive transcriptome analysis using Paired-End diTags (PETs)

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

The landscape of histone modifications across 1% of the human genome in five human cell lines

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Genome-wide mapping of in vivo protein-DNA interactions

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

The role of chromatin during transcription

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Chromatin modifications and their function

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) isolates active regulatory elements from human chromatin

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Identifying gene regulatory elements by genomic microarray mapping of DNaseI hypersensitive sites

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Statistical methods for identifying yeast cell cycle transcription factors

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Structure and evolution of transcriptional regulatory networks

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Regulation of RNA polymerase II transcription by sequence-specific DNA binding factors

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Cap analysis gene expression for high-throughput analysis of transcriptional starting point and identification of promoter usage

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

The evolution of transcriptional regulation in eukaryotes

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Integrating regulatory motif discovery and genome-wide expression analysis

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Cooperation between complexes that regulate chromatin structure and transcription

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Genome-wide location and function of DNA binding proteins

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Transcription of eukaryotic protein-coding genes

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

CpG methylation as a mechanism for the regulation of E2F activity

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Isolation and characterization of cDNAs corresponding to an additional member of the human histone deacetylase gene family

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

The neuron-restrictive silencer factor (NRSF): a coordinate repressor of multiple neuron-specific genes

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Quantitative monitoring of gene expression patterns with a complementary DNA microarray

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Transcriptional regulation in mammalian cells by sequence-specific DNA binding proteins

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Statistical assessment of the global regulatory role of histone acetylation in Saccharomyces cerevisiae.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Genome-scale mapping of DNase I sensitivity in vivo using tiling DNA microarrays

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Mapping global histone acetylation patterns to gene expression

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

Genomic analysis of gene expression relationships in transcriptional regulatory networks

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3431483

26 November 2018

Identifiers

DOI

10.1101/GR.136838.111

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22955978%20AND%20SRC:MED&resulttype=core&format=json

12 February 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22955978%20AND%20SRC:MED&resulttype=core&format=json

12 February 2020

PubMed publication ID

22955978

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22955978%20AND%20SRC:MED&resulttype=core&format=json