Scipediacontent: Scipediacontent moved page Draft Content 157333008 to Wang et al 2014f

2021-02-01T23:05:20Z

Scipediacontent moved page Draft Content 157333008 to Wang et al 2014f

Scipediacontent: Created page with " == Abstract == RNA-seq data analysis pipelines are generally composed of sequence alignment, expression quantification, expression normalization, and differentially expresse..."

2021-02-01T23:05:13Z

Created page with " == Abstract == RNA-seq data analysis pipelines are generally composed of sequence alignment, expression quantification, expression normalization, and differentially expresse..."

New page

== Abstract ==

RNA-seq data analysis pipelines are generally composed of sequence alignment, expression quantification, expression normalization, and differentially expressed gene (DEG) detection. Each step has numerous specific tools or algorithms, so we cannot explore all combinatorial pipelines and provide a comprehensive comparison of pipeline performance. To understand the mechanism of RNA-seq data analysis pipelines and provide some useful information for pipeline selection, we believe it is necessary to analyze the interactions among pipeline components. In this paper, by combining different alignment algorithms with the same quantification, normalization, and DEG detection tools, we construct nine RNA-seq pipelines to analyze the impact of RNA-seq alignment on downstream applications of gene expression estimates. Specifically, we find moderate linear correlation between the number of DEGs detected and the percentage of reads aligned with zero mismatch.

== Original document ==

The different versions of the original document can be found in:

* [http://europepmc.org/articles/pmc5010085?pdf=render http://europepmc.org/articles/pmc5010085?pdf=render]

* [https://europepmc.org/articles/PMC5010085 https://europepmc.org/articles/PMC5010085]

* [http://xplorestaging.ieee.org/ielx7/7010655/7032060/07032351.pdf?arnumber=7032351 http://xplorestaging.ieee.org/ielx7/7010655/7032060/07032351.pdf?arnumber=7032351],
: [http://dx.doi.org/10.1109/globalsip.2014.7032351 http://dx.doi.org/10.1109/globalsip.2014.7032351]

* [https://dblp.uni-trier.de/db/conf/globalsip/globalsip2014.html#YangWPW14 https://dblp.uni-trier.de/db/conf/globalsip/globalsip2014.html#YangWPW14],
: [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5010085 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5010085],
: [http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=7032351 http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=7032351],
: [https://academic.microsoft.com/#/detail/2068222106 https://academic.microsoft.com/#/detail/2068222106]

← Older revision	Revision as of 23:05, 1 February 2021
(No difference)

Wang et al 2014f - Revision history

Scipediacontent: Scipediacontent moved page Draft Content 157333008 to Wang et al 2014f

Scipediacontent: Created page with " == Abstract == RNA-seq data analysis pipelines are generally composed of sequence alignment, expression quantification, expression normalization, and differentially expresse..."