Power analysis and sample size estimation for RNA-Seq differential expression (Q34363862)

1 August 2017

title

Power analysis and sample size estimation for RNA-Seq differential expression (English)

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1 August 2017

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Travers Ching

1

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1 August 2017

Sijia Huang

series ordinal

2

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1 August 2017

Lana X Garmire

series ordinal

3

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1 August 2017

language of work or name

English

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publication date

22 September 2014

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1 August 2017

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1 August 2017

volume

20

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1 August 2017

issue

11

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1 August 2017

page(s)

1684-1696

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Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

1 August 2017

cites work

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RNA-seq differential expression studies: more sequence or more replication?

6 July 2018

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Sample size calculation based on exact test for assessing differential expression analysis in RNA-seq data

6 July 2018

1 reference

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Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data

6 July 2018

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Calculating sample size estimates for RNA sequencing data.

6 July 2018

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Identification of genes critical for resistance to infection by West Nile virus using RNA-Seq analysis

6 July 2018

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Data-based filtering for replicated high-throughput transcriptome sequencing experiments

6 July 2018

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Shrinkage estimation of dispersion in Negative Binomial models for RNA-seq experiments with small sample size

6 July 2018

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A comparison of methods for differential expression analysis of RNA-seq data

6 July 2018

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6 July 2018

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Scotty: a web tool for designing RNA-Seq experiments to measure differential gene expression

6 July 2018

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

6 July 2018

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Challenges and strategies in transcriptome assembly and differential gene expression quantification. A comprehensive in silico assessment of RNA-seq experiments

6 July 2018

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Efficient experimental design and analysis strategies for the detection of differential expression using RNA-Sequencing

6 July 2018

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A comprehensive comparison of RNA-Seq-based transcriptome analysis from reads to differential gene expression and cross-comparison with microarrays: a case study in Saccharomyces cerevisiae

6 July 2018

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An accurate paired sample test for count data

6 July 2018

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Statistical methods on detecting differentially expressed genes for RNA-seq data

6 July 2018

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

6 July 2018

1 reference

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A comparison of statistical methods for detecting differentially expressed genes from RNA-seq data

6 July 2018

1 reference

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An RNA-Seq strategy to detect the complete coding and non-coding transcriptome including full-length imprinted macro ncRNAs

6 July 2018

1 reference

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ReCount: a multi-experiment resource of analysis-ready RNA-seq gene count datasets

6 July 2018

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A global clustering algorithm to identify long intergenic non-coding RNA--with applications in mouse macrophages

6 July 2018

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Differential expression in RNA-seq: a matter of depth

6 July 2018

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Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses

6 July 2018

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TopHat-Fusion: an algorithm for discovery of novel fusion transcripts

6 July 2018

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RNA-seq: technical variability and sampling.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4201821

Evaluating gene expression in C57BL/6J and DBA/2J mouse striatum using RNA-Seq and microarrays

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4201821

Differential expression analysis for sequence count data

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4201821

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4201821

Understanding mechanisms underlying human gene expression variation with RNA sequencing

6 July 2018

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Transcriptome genetics using second generation sequencing in a Caucasian population

6 July 2018

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

6 July 2018

1 reference

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Tumor transcriptome sequencing reveals allelic expression imbalances associated with copy number alterations

6 July 2018

1 reference

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

6 July 2018

1 reference

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

6 July 2018

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4201821

TopHat: discovering splice junctions with RNA-Seq

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4201821

Statistical inferences for isoform expression in RNA-Seq

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4201821

Inferences and Power Analysis Concerning Two Negative Binomial Distributions with An Application to MRI Lesion Counts Data

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4201821

RNA-Seq: a revolutionary tool for transcriptomics

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4201821

Profiling the HeLa S3 transcriptome using randomly primed cDNA and massively parallel short-read sequencing

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4201821

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4201821

Moderated statistical tests for assessing differences in tag abundance

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4201821

The limit fold change model: a practical approach for selecting differentially expressed genes from microarray data

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4201821

6 July 2018

Identifiers

DOI

10.1261/RNA.046011.114

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1 August 2017

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1 August 2017

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