Fish the ChIPs: a pipeline for automated genomic annotation of ChIP-Seq data. (Q34042235)

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14 February 2020

title

Fish the ChIPs: a pipeline for automated genomic annotation of ChIP-Seq data (English)

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14 February 2020

1

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14 February 2020

Alberto Termanini

series ordinal

2

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14 February 2020

Gioacchino Natoli

series ordinal

4

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3

Saverio Minucci

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14 February 2020

publication date

6 October 2011

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14 February 2020

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14 February 2020

volume

6

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14 February 2020

page(s)

51

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https://scigraph.springernature.com/pub.10.1186/1745-6150-6-51

14 February 2020

exact match

0 references

cites work

An integrated pipeline for the genome-wide analysis of transcription factor binding sites from ChIP-Seq.

1 reference

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On the future of genomic data

5 July 2018

1 reference

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Integrative genomics viewer

5 July 2018

1 reference

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A manually curated ChIP-seq benchmark demonstrates room for improvement in current peak-finder programs.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3201895

The UCSC Genome Browser database: update 2011

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3201895

ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3201895

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3201895

Sense from sequence reads: methods for alignment and assembly

5 July 2018

1 reference

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CEAS: cis-regulatory element annotation system

5 July 2018

1 reference

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Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

5 July 2018

1 reference

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

5 July 2018

1 reference

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CARPET: a web-based package for the analysis of ChIP-chip and expression tiling data

5 July 2018

1 reference

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Model-based analysis of ChIP-Seq (MACS)

5 July 2018

1 reference

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

5 July 2018

1 reference

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High-resolution profiling of histone methylations in the human genome

5 July 2018

1 reference

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5 July 2018

The Staden package, 1998

1 reference

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Identification and characterization of enhancers controlling the inflammatory gene expression program in macrophages.

5 July 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2F1745-6150-6-51

21 January 2018

Identifiers

DOI

10.1186/1745-6150-6-51

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21978789%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

14 February 2020

0 references

1 reference

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14 February 2020

PubMed publication ID

21978789

1 reference