ChIP-seq: using high-throughput sequencing to discover protein-DNA interactions (Q33416643)

26 July 2017

title

ChIP-seq: using high-throughput sequencing to discover protein-DNA interactions (English)

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high-throughput sequencing

26 July 2017

main subject

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6

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26 July 2017

James Hadfield

5

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Michael D. Wilson

object named as

Michael D Wilson

2

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author name string

Dominic Schmidt

1

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26 July 2017

Christiana Spyrou

3

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26 July 2017

Gordon D Brown

4

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26 July 2017

publication date

9 March 2009

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26 July 2017

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26 July 2017

volume

48

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26 July 2017

issue

3

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26 July 2017

page(s)

240-248

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Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data

26 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=4052679

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

14 July 2018

1 reference

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Empirical methods for controlling false positives and estimating confidence in ChIP-Seq peaks

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4052679

A large genome center's improvements to the Illumina sequencing system

14 July 2018

1 reference

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Design and analysis of ChIP-seq experiments for DNA-binding proteins

14 July 2018

1 reference

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Genome-scale validation of deep-sequencing libraries

14 July 2018

1 reference

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Accurate whole human genome sequencing using reversible terminator chemistry

14 July 2018

1 reference

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Probabilistic base calling of Solexa sequencing data

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4052679

E2F in vivo binding specificity: comparison of consensus versus nonconsensus binding sites

14 July 2018

1 reference

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Model-based analysis of ChIP-Seq (MACS)

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4052679

Species-specific transcription in mice carrying human chromosome 21

14 July 2018

1 reference

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Applications of next-generation sequencing technologies in functional genomics

14 July 2018

1 reference

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

14 July 2018

1 reference

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Evolution of the mammalian transcription factor binding repertoire via transposable elements

14 July 2018

1 reference

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Alta-Cyclic: a self-optimizing base caller for next-generation sequencing

14 July 2018

1 reference

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FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology

14 July 2018

1 reference

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Mapping and quantifying mammalian transcriptomes by RNA-Seq

14 July 2018

1 reference

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Genome-scale ChIP-chip analysis using 10,000 human cells

14 July 2018

1 reference

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Sequence census methods for functional genomics

14 July 2018

1 reference

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From micrograms to picograms: quantitative PCR reduces the material demands of high-throughput sequencing

14 July 2018

1 reference

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Divergence of transcription factor binding sites across related yeast species

14 July 2018

1 reference

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Genome-wide maps of chromatin state in pluripotent and lineage-committed cells

14 July 2018

1 reference

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

14 July 2018

1 reference

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Genome-wide mapping of in vivo protein-DNA interactions

14 July 2018

1 reference

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Tissue-specific transcriptional regulation has diverged significantly between human and mouse

14 July 2018

1 reference

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High-resolution profiling of histone methylations in the human genome

14 July 2018

1 reference

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Chromatin immunoprecipitation and microarray-based analysis of protein location

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4052679

Analysis of the vertebrate insulator protein CTCF-binding sites in the human genome

14 July 2018

1 reference

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Locating mammalian transcription factor binding sites: a survey of computational and experimental techniques

14 July 2018

1 reference

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Epigenetic characterization of the early embryo with a chromatin immunoprecipitation protocol applicable to small cell populations

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4052679

Genome-wide analysis of protein-DNA interactions

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4052679

Chromosome-wide mapping of estrogen receptor binding reveals long-range regulation requiring the forkhead protein FoxA1

14 July 2018

1 reference

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Unbiased mapping of transcription factor binding sites along human chromosomes 21 and 22 points to widespread regulation of noncoding RNAs

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4052679

Immunoprecipitation of native chromatin: NChIP.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4052679

Genome-wide location and function of DNA binding proteins

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4052679

Mapping chromosomal proteins in vivo by formaldehyde-crosslinked-chromatin immunoprecipitation

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4052679

In vivo footprinting of a muscle specific enhancer by ligation mediated PCR.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4052679

Mapping protein-DNA interactions in vivo with formaldehyde: evidence that histone H4 is retained on a highly transcribed gene

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4052679

Rapid whole-genome mutational profiling using next-generation sequencing technologies

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4052679

10.1016/J.YMETH.2009.03.001

31 October 2018

Identifiers

DOI

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26 July 2017

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26 July 2017

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