(Q34047461)

30 July 2017

title

Pyicos: a versatile toolkit for the analysis of high-throughput sequencing data (English)

1 reference

high-throughput sequencing

30 July 2017

main subject

1 reference

based on heuristic

inferred from title

author

Miguel Beato del Rosal

series ordinal

4

1 reference

30 July 2017

5

1 reference

30 July 2017

Cecilia Ballaré

3

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author name string

Sonja Althammer

series ordinal

1

1 reference

30 July 2017

Juan González-Vallinas

series ordinal

2

1 reference

30 July 2017

language of work or name

English

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publication date

12 October 2011

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30 July 2017

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30 July 2017

volume

27

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30 July 2017

issue

24

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30 July 2017

page(s)

3333-3340

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Creative Commons Attribution-NonCommercial 3.0 Unported

30 July 2017

copyright license

start time

2 October 2016

1 reference

April 2023 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

ChIP-seq analysis reveals distinct H3K27me3 profiles that correlate with transcriptional activity

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A user's guide to the encyclopedia of DNA elements (ENCODE)

5 July 2018

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Four enzymes cooperate to displace histone H1 during the first minute of hormonal gene activation

5 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=3232367

On the future of genomic data

5 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=3232367

From RNA-seq reads to differential expression results

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

Differential expression analysis for sequence count 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=3232367

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

Five-vertebrate ChIP-seq reveals the evolutionary dynamics of transcription factor binding

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

A scaling normalization method for differential expression analysis of RNA-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=3232367

Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

BEDTools: a flexible suite of utilities for comparing genomic features

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

Genome-wide analysis of PTB-RNA interactions reveals a strategy used by the general splicing repressor to modulate exon inclusion or skipping

5 July 2018

1 reference

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edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

5 July 2018

1 reference

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DEGseq: an R package for identifying differentially expressed genes from RNA-seq data

5 July 2018

1 reference

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Computation for ChIP-seq and RNA-seq studies

5 July 2018

1 reference

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ChIP-seq: advantages and challenges of a maturing technology

5 July 2018

1 reference

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CEAS: cis-regulatory element annotation system

5 July 2018

1 reference

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Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression

5 July 2018

1 reference

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

5 July 2018

1 reference

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Transcript length bias in RNA-seq data confounds systems biology

5 July 2018

1 reference

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An RNA code for the FOX2 splicing regulator revealed by mapping RNA-protein interactions in stem cells

5 July 2018

1 reference

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

Transcriptome-wide identification of novel imprinted genes in neonatal mouse brain

5 July 2018

1 reference

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Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing

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

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

HITS-CLIP yields genome-wide insights into brain alternative RNA processing

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

Alternative isoform regulation in human tissue transcriptomes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

Model-based analysis of ChIP-Seq (MACS)

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome

5 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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

Mapping and quantifying mammalian transcriptomes by RNA-Seq

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

Genome-wide mapping of in vivo protein-DNA interactions

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

Comparative genomics modeling of the NRSF/REST repressor network: from single conserved sites to genome-wide repertoire

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

Eaf3 chromodomain interaction with methylated H3-K36 links histone deacetylation to Pol II elongation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

Genome-wide map of nucleosome acetylation and methylation in yeast

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3232367

TRANSFAC retrieval program: a network model database of eukaryotic transcription regulating sequences and proteins

5 July 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTR570

10.1093/BIOINFORMATICS/BTR570

21 January 2018

Identifiers

DOI

1 reference

journals/bioinformatics/AlthammerGBBE11

30 July 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

30 July 2017

1 reference