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Comprehensive evaluation of RNA-seq quantification methods for linearity
scientific article
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instance of
scholarly article
1 reference
stated in
Europe PubMed Central
PMC publication ID
5374695
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28361706%20AND%20SRC:MED&resulttype=core&format=json
retrieved
14 March 2020
title
Comprehensive evaluation of RNA-seq quantification methods for linearity
(English)
1 reference
stated in
Europe PubMed Central
PMC publication ID
5374695
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28361706%20AND%20SRC:MED&resulttype=core&format=json
retrieved
14 March 2020
main subject
RNA sequencing
0 references
RNA-Seq
1 reference
based on heuristic
inferred from title
author
Zhandong Liu
series ordinal
3
1 reference
stated in
Europe PubMed Central
PMC publication ID
5374695
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28361706%20AND%20SRC:MED&resulttype=core&format=json
retrieved
14 March 2020
author name string
Haijing Jin
series ordinal
1
1 reference
stated in
Europe PubMed Central
PMC publication ID
5374695
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28361706%20AND%20SRC:MED&resulttype=core&format=json
retrieved
14 March 2020
Ying-Wooi Wan
series ordinal
2
1 reference
stated in
Europe PubMed Central
PMC publication ID
5374695
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28361706%20AND%20SRC:MED&resulttype=core&format=json
retrieved
14 March 2020
publication date
22 March 2017
1 reference
stated in
Europe PubMed Central
PMC publication ID
5374695
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28361706%20AND%20SRC:MED&resulttype=core&format=json
retrieved
14 March 2020
published in
BMC Bioinformatics
1 reference
stated in
Europe PubMed Central
PMC publication ID
5374695
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28361706%20AND%20SRC:MED&resulttype=core&format=json
retrieved
14 March 2020
volume
18
1 reference
stated in
Europe PubMed Central
PMC publication ID
5374695
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28361706%20AND%20SRC:MED&resulttype=core&format=json
retrieved
14 March 2020
issue
Suppl 4
1 reference
stated in
Europe PubMed Central
PMC publication ID
5374695
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28361706%20AND%20SRC:MED&resulttype=core&format=json
retrieved
14 March 2020
page(s)
117
1 reference
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Europe PubMed Central
PMC publication ID
5374695
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28361706%20AND%20SRC:MED&resulttype=core&format=json
retrieved
14 March 2020
describes a project that uses
edgeR
object named as
EdgeR
1 reference
stated in
CZ Software Mentions: A large dataset of software mentions in the biomedical literature
exact match
https://scigraph.springernature.com/pub.10.1186/s12859-017-1526-y
0 references
cites work
RNAontheBENCH: computational and empirical resources for benchmarking RNAseq quantification and differential expression methods
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
retrieved
30 September 2017
A benchmark for RNA-seq quantification pipelines
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
retrieved
30 September 2017
Near-optimal probabilistic RNA-seq quantification
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
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30 September 2017
Sparse PCA corrects for cell type heterogeneity in epigenome-wide association studies
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
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30 September 2017
A survey of best practices for RNA-seq data analysis
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
retrieved
30 September 2017
Comparative assessment of methods for the computational inference of transcript isoform abundance from RNA-seq data
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
retrieved
30 September 2017
Robust enumeration of cell subsets from tissue expression profiles
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
retrieved
30 September 2017
RNA-Seq gene profiling--a systematic empirical comparison
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
retrieved
30 September 2017
HTSeq--a Python framework to work with high-throughput sequencing data
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
retrieved
30 September 2017
Comparison of RNA-Seq and microarray in transcriptome profiling of activated T cells
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
retrieved
30 September 2017
Benchmarking RNA-Seq quantification tools
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
retrieved
30 September 2017
MMAD: microarray microdissection with analysis of differences is a computational tool for deconvoluting cell type-specific contributions from tissue samples
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
retrieved
30 September 2017
TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
retrieved
30 September 2017
Digital sorting of complex tissues for cell type-specific gene expression profiles
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
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30 September 2017
Optimal deconvolution of transcriptional profiling data using quadratic programming with application to complex clinical blood samples
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
retrieved
30 September 2017
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
retrieved
30 September 2017
Cell type-specific gene expression differences in complex tissues
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
retrieved
30 September 2017
edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
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30 September 2017
Deconvolution of blood microarray data identifies cellular activation patterns in systemic lupus erythematosus
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
retrieved
30 September 2017
RNA-Seq: a revolutionary tool for transcriptomics
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5374695
retrieved
30 September 2017
A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium
1 reference
stated in
Crossref
reference URL
https://api.crossref.org/works/10.1186%2FS12859-017-1526-Y
retrieved
21 January 2018
Gene expression deconvolution in linear space
1 reference
stated in
PubMed
reference URL
https://pubmed.ncbi.nlm.nih.gov/28361706
retrieved
12 December 2020
based on heuristic
inferred from PubMed ID database lookup
Identifiers
DOI
10.1186/S12859-017-1526-Y
1 reference
stated in
Europe PubMed Central
PMC publication ID
5374695
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28361706%20AND%20SRC:MED&resulttype=core&format=json
retrieved
14 March 2020
DBLP publication ID
journals/bmcbi/JinWL17
1 reference
stated in
DBLP Dataset 2021-01-02
retrieved
28 January 2021
Dimensions Publication ID
1084249916
0 references
PMC publication ID
5374695
1 reference
stated in
Europe PubMed Central
PMC publication ID
5374695
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28361706%20AND%20SRC:MED&resulttype=core&format=json
retrieved
14 March 2020
PubMed publication ID
28361706
1 reference
stated in
Europe PubMed Central
PMC publication ID
5374695
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28361706%20AND%20SRC:MED&resulttype=core&format=json
retrieved
14 March 2020
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