ROTS: An R package for reproducibility-optimized statistical testing (Q36380107)

13 August 2017

ROTS: An R package for reproducibility-optimized statistical testing (English)

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13 August 2017

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5

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542205%20AND%20SRC:MED&resulttype=core&format=json

11 June 2020

Tomi Suomi

1

1 reference

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11 June 2020

Fatemeh Seyednasrollah

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11 June 2020

Thomas Faux

4

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11 June 2020

author name string

Maria K Jaakkola

3

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11 June 2020

publication date

25 May 2017

1 reference

PLOS Computational Biology

13 August 2017

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542205%20AND%20SRC:MED&resulttype=core&format=json

11 June 2020

volume

13

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11 June 2020

issue

5

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11 June 2020

page(s)

e1005562

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Creative Commons Attribution 4.0 International

11 June 2020

copyright license

start time

25 May 2017

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

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describes a project that uses

1 reference

edgeR

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

limma

object named as

Limma

1 reference

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

cites work

Comparison of methods to detect differentially expressed genes between single-cell populations.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

The heterogeneity of human CD127(+) innate lymphoid cells revealed by single-cell RNA sequencing

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

Optimization of Statistical Methods Impact on Quantitative Proteomics Data

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

Extending the limits of quantitative proteome profiling with data-independent acquisition and application to acetaminophen-treated three-dimensional liver microtissues.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

Bayesian approach to single-cell differential expression analysis

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

voom: Precision weights unlock linear model analysis tools for RNA-seq read counts

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

Synthetic spike-in standards for RNA-seq experiments

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

Differential expression analysis for sequence count data

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

Repeatability and reproducibility in proteomic identifications by liquid chromatography-tandem mass spectrometry

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

Interlaboratory study characterizing a yeast performance standard for benchmarking LC-MS platform performance.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

Performance metrics for liquid chromatography-tandem mass spectrometry systems in proteomics analyses

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

Empirical evaluation of data transformations and ranking statistics for microarray analysis.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

Rank products: a simple, yet powerful, new method to detect differentially regulated genes in replicated microarray experiments

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

Significance analysis of microarrays applied to the ionizing radiation response

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

ROTS: reproducible RNA-seq biomarker detector-prognostic markers for clear cell renal cell cancer

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

Reproducibility-optimized test statistic for ranking genes in microarray studies

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

A theoretical analysis of gene selection.

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5470739

10.1371/JOURNAL.PCBI.1005562

21 September 2018

Identifiers

DOI

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542205%20AND%20SRC:MED&resulttype=core&format=json

journals/ploscb/SuomiSJFE17

11 June 2020

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542205%20AND%20SRC:MED&resulttype=core&format=json

11 June 2020

1 reference