(Q34349554)

1 August 2017

title

The Triform algorithm: improved sensitivity and specificity in ChIP-Seq peak finding (English)

1 reference

1 August 2017

4

Finn Drabløs

1 reference

1 August 2017

Karl Kornacker

1

1 reference

1 August 2017

Morten Beck Rye

series ordinal

2

1 reference

1 August 2017

Tony Håndstad

series ordinal

3

1 reference

1 August 2017

publication date

24 July 2012

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1 August 2017

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1 August 2017

volume

13

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1 August 2017

page(s)

176

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Selective changes of retroelement expression in human prostate cancer

1 August 2017

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6 July 2018

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6 July 2018

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Shape-based peak identification for ChIP-Seq

6 July 2018

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

6 July 2018

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Evaluation of algorithm performance in ChIP-seq peak detection

6 July 2018

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MER41 repeat sequences contain inducible STAT1 binding sites

6 July 2018

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6 July 2018

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A signal-noise model for significance analysis of ChIP-seq with negative control

6 July 2018

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6 July 2018

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A practical comparison of methods for detecting transcription factor binding sites in ChIP-seq experiments

6 July 2018

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6 July 2018

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6 July 2018

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ChIP-seq: advantages and challenges of a maturing technology

6 July 2018

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Elucidation of the ELK1 target gene network reveals a role in the coordinate regulation of core components of the gene regulation machinery

6 July 2018

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6 July 2018

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c-Myc accelerates S-phase and requires WRN to avoid replication stress

6 July 2018

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Measuring spatial preferences at fine-scale resolution identifies known and novel cis-regulatory element candidates and functional motif-pair relationships

6 July 2018

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Regulation by c-Myc of ncRNA expression

6 July 2018

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Genomic location analysis by ChIP-Seq

6 July 2018

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

6 July 2018

1 reference

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

6 July 2018

1 reference

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Model-based analysis of ChIP-Seq (MACS)

6 July 2018

1 reference

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

6 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

6 July 2018

1 reference

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Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3480842

Genome-wide mapping of in vivo protein-DNA interactions

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3480842

STAMP: a web tool for exploring DNA-binding motif similarities

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3480842

At least 50% of human-specific HERV-K (HML-2) long terminal repeats serve in vivo as active promoters for host nonrepetitive DNA transcription

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3480842

TRANSFAC and its module TRANSCompel: transcriptional gene regulation in eukaryotes

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3480842

Defining the mammalian CArGome

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3480842

T-Reg Comparator: an analysis tool for the comparison of position weight matrices

6 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3480842

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6 July 2018

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Genome-wide analysis of repressor element 1 silencing transcription factor/neuron-restrictive silencing factor (REST/NRSF) target genes

6 July 2018

1 reference

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Identification of a functional serum response element in the HTLV-I LTR.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3480842

Retrotransposon-derived elements in the mammalian genome: a potential source of disease

6 July 2018

1 reference

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6 July 2018

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6 July 2018

1 reference

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Identification of proteins that interact with NF-YA

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3480842

Identifying DNA and protein patterns with statistically significant alignments of multiple sequences

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3480842

Neuronal expression of zinc finger transcription factor REST/NRSF/XBR gene

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3480842

Co-occurrence of CArG boxes and TCF sites within viral genomes.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3480842

Max: functional domains and interaction with c-Myc

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3480842

CArG, CCAAT, and CCAAT-like protein binding sites in avian retrovirus long terminal repeat enhancers

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3480842

Rapid innovation in ChIP-seq peak-calling algorithms is outdistancing benchmarking efforts.

6 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-13-176

PICS: probabilistic inference for ChIP-seq.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-13-176

A role for Myc in facilitating transcription activation by E2F1.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-13-176

Derepression of an endogenous long terminal repeat activates the CSF1R proto-oncogene in human lymphoma.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-13-176

21 January 2018

Identifiers

DOI

10.1186/1471-2105-13-176

1 reference

journals/bmcbi/KornackerRHD12

1 August 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

0 references

1 reference

1 August 2017

1 reference