(Q59340596)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30428853%20AND%20SRC:MED&resulttype=core&format=json

3 May 2020

title

Empirical assessment of the impact of sample number and read depth on RNA-Seq analysis workflow performance (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30428853%20AND%20SRC:MED&resulttype=core&format=json

3 May 2020

0 references

1 reference

1 reference

1 reference

1 reference

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30428853%20AND%20SRC:MED&resulttype=core&format=json

3 May 2020

Charles C. Kim

series ordinal

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30428853%20AND%20SRC:MED&resulttype=core&format=json

3 May 2020

author name string

Alyssa Baccarella

series ordinal

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30428853%20AND%20SRC:MED&resulttype=core&format=json

3 May 2020

Jay Z Parrish

series ordinal

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30428853%20AND%20SRC:MED&resulttype=core&format=json

3 May 2020

language of work or name

English

0 references

publication date

14 November 2018

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30428853%20AND%20SRC:MED&resulttype=core&format=json

3 May 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30428853%20AND%20SRC:MED&resulttype=core&format=json

3 May 2020

volume

19

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30428853%20AND%20SRC:MED&resulttype=core&format=json

3 May 2020

issue

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30428853%20AND%20SRC:MED&resulttype=core&format=json

3 May 2020

page(s)

423

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30428853%20AND%20SRC:MED&resulttype=core&format=json

describes a project that uses

3 May 2020

limma

limma

2 references

22 June 2022

https://europepmc.org/article/PMC/6234607

inferred from PubMed Central ID database lookup

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

DESeq2

DESeq2

1 reference

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

edgeR

edgeR

1 reference

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

tximport

tximport

1 reference

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

exact match

https://scigraph.springernature.com/pub.10.1186/s12859-018-2445-2

0 references

cites work

Significance analysis of microarrays applied to the ionizing radiation response

1 reference

12 December 2020

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

1 reference

12 December 2020

ShortRead: a bioconductor package for input, quality assessment and exploration of high-throughput sequence data

1 reference

12 December 2020

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

1 reference

12 December 2020

Comparison of gene expression profiles between human and mouse monocyte subsets

1 reference

12 December 2020

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

1 reference

12 December 2020

Nomenclature of monocytes and dendritic cells in blood.

1 reference

12 December 2020

From RNA-seq reads to differential expression results

1 reference

12 December 2020

Low-coverage sequencing: implications for design of complex trait association studies

1 reference

12 December 2020

Gene expression profiling reveals the defining features of the classical, intermediate, and nonclassical human monocyte subsets.

1 reference

12 December 2020

Differential expression in RNA-seq: a matter of depth

1 reference

12 December 2020

Finding consistent patterns: a nonparametric approach for identifying differential expression in RNA-Seq data

1 reference

12 December 2020

Transcript profiling of CD16-positive monocytes reveals a unique molecular fingerprint.

1 reference

12 December 2020

Human tissues contain CD141hi cross-presenting dendritic cells with functional homology to mouse CD103+ nonlymphoid dendritic cells

1 reference

12 December 2020

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

1 reference

12 December 2020

STAR: ultrafast universal RNA-seq aligner

1 reference

12 December 2020

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

1 reference

12 December 2020

Evaluating the impact of sequencing depth on transcriptome profiling in human adipose

1 reference

12 December 2020

General power and sample size calculations for high-dimensional genomic data

1 reference

12 December 2020

Calculating sample size estimates for RNA sequencing data.

1 reference

12 December 2020

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

1 reference

12 December 2020

Comparison of software packages for detecting differential expression in RNA-seq studies

1 reference

12 December 2020

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

1 reference

12 December 2020

A comparative study of techniques for differential expression analysis on RNA-Seq data

1 reference

12 December 2020

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

1 reference

12 December 2020

RNA-Seq gene profiling--a systematic empirical comparison

1 reference

12 December 2020

PROPER: comprehensive power evaluation for differential expression using RNA-seq

1 reference

12 December 2020

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

1 reference

12 December 2020

limma powers differential expression analyses for RNA-sequencing and microarray studies

1 reference

12 December 2020

StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

1 reference

12 December 2020

HISAT: a fast spliced aligner with low memory requirements

1 reference

12 December 2020

Data quality aware analysis of differential expression in RNA-seq with NOISeq R/Bioc package

1 reference

12 December 2020

Comparison of normalization and differential expression analyses using RNA-Seq data from 726 individual Drosophila melanogaster

1 reference

12 December 2020

Differential analyses for RNA-seq: transcript-level estimates improve gene-level inferences

1 reference

12 December 2020

How many biological replicates are needed in an RNA-seq experiment and which differential expression tool should you use?

1 reference

12 December 2020

Sample size calculation while controlling false discovery rate for differential expression analysis with RNA-sequencing experiments

1 reference

12 December 2020

Near-optimal probabilistic RNA-seq quantification

1 reference

12 December 2020

A benchmark for RNA-seq quantification pipelines

1 reference

12 December 2020

Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown

1 reference

12 December 2020

Empirical assessment of analysis workflows for differential expression analysis of human samples using RNA-Seq

1 reference

12 December 2020

Feasibility of sample size calculation for RNA-seq studies

1 reference

12 December 2020

Salmon provides fast and bias-aware quantification of transcript expression

1 reference

12 December 2020

Transcriptome landscape of human primary monocytes at different sequencing depth

1 reference

12 December 2020

A benchmarking of workflows for detecting differential splicing and differential expression at isoform level in human RNA-seq studies.

1 reference

12 December 2020

10.1186/S12859-018-2445-2

Identifiers

DOI

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30428853%20AND%20SRC:MED&resulttype=core&format=json

journals/bmcbi/BaccarellaWPK18

3 May 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:30428853%20AND%20SRC:MED&resulttype=core&format=json

3 May 2020

1 reference