A flexible count data model to fit the wide diversity of expression profiles arising from extensively replicated RNA-seq experiments. (Q30662709)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23965047%20AND%20SRC:MED&resulttype=core&format=json

7 March 2020

title

A flexible count data model to fit the wide diversity of expression profiles arising from extensively replicated RNA-seq experiments (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23965047%20AND%20SRC:MED&resulttype=core&format=json

7 March 2020

0 references

1 reference

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2

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7 March 2020

Robert Castelo

series ordinal

4

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23965047%20AND%20SRC:MED&resulttype=core&format=json

7 March 2020

1

Mikel Esnaola

1 reference

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7 March 2020

author name string

David Gonzalez

series ordinal

3

1 reference

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7 March 2020

Juan R Gonzalez

series ordinal

5

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publication date

21 August 2013

1 reference

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7 March 2020

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7 March 2020

volume

14

1 reference

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7 March 2020

page(s)

254

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23965047%20AND%20SRC:MED&resulttype=core&format=json

describes a project that uses

7 March 2020

limma

object named as

limma

2 references

22 June 2022

https://europepmc.org/article/PMC/3849762

based on heuristic

inferred from PubMed Central ID database lookup

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

DESeq2

object named as

DESeq

1 reference

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

edgeR

object named as

edgeR

1 reference

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

exact match

https://scigraph.springernature.com/pub.10.1186/1471-2105-14-254

0 references

cites work

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Detecting differential expression in RNA-sequence data using quasi-likelihood with shrunken dispersion estimates

20 June 2018

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The GEM mapper: fast, accurate and versatile alignment by filtration

20 June 2018

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A new shrinkage estimator for dispersion improves differential expression detection in RNA-seq data

20 June 2018

1 reference

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Bayesian analysis of RNA sequencing data by estimating multiple shrinkage priors.

20 June 2018

1 reference

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Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation

20 June 2018

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Removing technical variability in RNA-seq data using conditional quantile normalization

20 June 2018

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GC-content normalization for RNA-Seq data

20 June 2018

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Sequencing technology does not eliminate biological variability

20 June 2018

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The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes

20 June 2018

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Differential expression analysis for sequence count data

20 June 2018

1 reference

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baySeq: empirical Bayesian methods for identifying differential expression in sequence count data

20 June 2018

1 reference

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Understanding mechanisms underlying human gene expression variation with RNA sequencing

20 June 2018

1 reference

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A scaling normalization method for differential expression analysis of RNA-seq 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=3849762

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

20 June 2018

1 reference

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

20 June 2018

1 reference

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Mapping and quantifying mammalian transcriptomes by RNA-Seq

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3849762

Capturing heterogeneity in gene expression studies by surrogate variable 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=3849762

Small-sample estimation of negative binomial dispersion, with applications to SAGE 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=3849762

A genome-wide approach to identify genetic variants that contribute to etoposide-induced cytotoxicity.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3849762

GENCODE: producing a reference annotation for ENCODE

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3849762

Linear models and empirical bayes methods for assessing differential expression in microarray experiments

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3849762

Dosage compensation of the active X chromosome in mammals

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3849762

X-inactivation profile reveals extensive variability in X-linked gene expression in females

20 June 2018

1 reference

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Bioconductor: open software development for computational biology and bioinformatics

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3849762

Statistical significance for genomewide studies

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3849762

Human housekeeping genes are compact

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3849762

The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3849762

Analysis of overdispersed count data by mixtures of Poisson variables and Poisson processes

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3849762

20 June 2018

Identifiers

DOI

10.1186/1471-2105-14-254

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23965047%20AND%20SRC:MED&resulttype=core&format=json

journals/bmcbi/EsnaolaPGCG13

7 March 2020

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23965047%20AND%20SRC:MED&resulttype=core&format=json

7 March 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23965047%20AND%20SRC:MED&resulttype=core&format=json