NPEBseq: nonparametric empirical bayesian-based procedure for differential expression analysis of RNA-seq data (Q30663634)

18 August 2017

NPEBseq: nonparametric empirical bayesian-based procedure for differential expression analysis of RNA-seq data (English)

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18 August 2017

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1 reference

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Yingtao Bi

1

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PMCID

3765716

18 August 2017

Ramana V Davuluri

series ordinal

2

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18 August 2017

27 August 2013

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18 August 2017

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18 August 2017

14

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18 August 2017

262

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Creative Commons Attribution 2.0 Generic

18 August 2017

start time

27 August 2013

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April 2022 Public Data File from Crossref

copyright status

copyrighted

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April 2022 Public Data File from Crossref

describes a project that uses

DESeq2

object named as

DESeq

1 reference

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

DESeq2

0 references

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.10.1186/1471-2105-14-262

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cites work

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

14 July 2018

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A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis

14 July 2018

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GFOLD: a generalized fold change for ranking differentially expressed genes from RNA-seq data

14 July 2018

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Alternative transcription and alternative splicing in cancer

14 July 2018

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Comprehensive molecular characterization of human colon and rectal cancer

14 July 2018

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Detecting differential usage of exons from RNA-seq data

14 July 2018

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Identifying differentially expressed transcripts from RNA-seq data with biological variation

14 July 2018

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A normalization strategy for comparing tag count data

14 July 2018

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Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

14 July 2018

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

14 July 2018

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GC-content normalization for RNA-Seq data

14 July 2018

1 reference

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Normalization, testing, and false discovery rate estimation for RNA-sequencing data

14 July 2018

1 reference

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Differential expression in RNA-seq: a matter of depth

14 July 2018

1 reference

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IsoformEx: isoform level gene expression estimation using weighted non-negative least squares from mRNA-Seq data

14 July 2018

1 reference

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Alternative transcription exceeds alternative splicing in generating the transcriptome diversity of cerebellar development

14 July 2018

1 reference

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RNA-seq: technical variability and sampling.

14 July 2018

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

14 July 2018

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From RNA-seq reads to differential expression results

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3765716

Differential expression analysis for sequence count 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=3765716

Conservation of an RNA regulatory map between Drosophila and mammals

14 July 2018

1 reference

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

14 July 2018

1 reference

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A two-parameter generalized Poisson model to improve the analysis of RNA-seq data

14 July 2018

1 reference

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

14 July 2018

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Analyzing 'omics data using hierarchical models

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3765716

Transcriptome genetics using second generation sequencing in a Caucasian population

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3765716

A scaling normalization method for differential expression analysis of RNA-seq 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=3765716

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

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3765716

RNA-Seq gene expression estimation with read mapping uncertainty

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3765716

edgeR: a Bioconductor package for differential expression analysis of digital gene expression 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=3765716

Methods for analyzing deep sequencing expression data: constructing the human and mouse promoterome with deepCAGE 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=3765716

A hierarchical Bayesian model for comparing transcriptomes at the individual transcript isoform level

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3765716

Transcript length bias in RNA-seq data confounds systems biology

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3765716

Statistical inferences for isoform expression in RNA-Seq

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3765716

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

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3765716

Analyzing real-time PCR data by the comparative C(T) method

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3765716

Mapping and quantifying mammalian transcriptomes by RNA-Seq

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3765716

Moderated statistical tests for assessing differences in tag abundance

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3765716

The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3765716

BioMart and Bioconductor: a powerful link between biological databases and microarray data analysis

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3765716

Bioconductor: open software development for computational biology and bioinformatics

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3765716

Comprehensive genomic characterization of squamous cell lung cancers

14 July 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2F1471-2105-14-262

Evaluation of DNA microarray results with quantitative gene expression platforms

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2F1471-2105-14-262

21 January 2018

Identifiers

DOI

10.1186/1471-2105-14-262

1 reference

18 August 2017

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

1039605198

0 references

Fatcat ID

release_ieqyg5zmobev3nyxvdsxozupta

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/ieqyg5zmobev3nyxvdsxozupta

mapped directly with Wikidata item

24 November 2022

based on heuristic

PMCID

3765716

1 reference

18 August 2017

1 reference

PMCID

3765716