Seq2pathway: an R/Bioconductor package for pathway analysis of next-generation sequencing data

Summary: Seq2pathway is an R/Python wrapper for pathway (or functional gene-set) analysis of genomic loci, adapted for advances in genome research. Seq2pathway associates the biological significance of genomic loci with their target transcripts and then summarizes the quantified values on the gene-l...

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Main Authors:	Wang, Bin, Cunningham, John M., (Holly) Yang, Xinan
Format:	Online
Language:	English
Published:	Oxford University Press 2015
Online Access:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4565027/

id	pubmed-4565027
recordtype	oai_dc
spelling	pubmed-45650272015-09-18 Seq2pathway: an R/Bioconductor package for pathway analysis of next-generation sequencing data Wang, Bin Cunningham, John M. (Holly) Yang, Xinan Applications Notes Summary: Seq2pathway is an R/Python wrapper for pathway (or functional gene-set) analysis of genomic loci, adapted for advances in genome research. Seq2pathway associates the biological significance of genomic loci with their target transcripts and then summarizes the quantified values on the gene-level into pathway scores. It is designed to isolate systematic disturbances and common biological underpinnings from next-generation sequencing (NGS) data. Seq2pathway offers Bioconductor users enhanced capability in discovering collective pathway effects caused by both coding genes and cis-regulation of non-coding elements. Oxford University Press 2015-09-15 2015-05-15 /pmc/articles/PMC4565027/ /pubmed/25979472 http://dx.doi.org/10.1093/bioinformatics/btv289 Text en © The Author 2015. Published by Oxford University Press. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
repository_type	Open Access Journal
institution_category	Foreign Institution
institution	US National Center for Biotechnology Information
building	NCBI PubMed
collection	Online Access
language	English
format	Online
author	Wang, Bin Cunningham, John M. (Holly) Yang, Xinan
spellingShingle	Wang, Bin Cunningham, John M. (Holly) Yang, Xinan Seq2pathway: an R/Bioconductor package for pathway analysis of next-generation sequencing data
author_facet	Wang, Bin Cunningham, John M. (Holly) Yang, Xinan
author_sort	Wang, Bin
title	Seq2pathway: an R/Bioconductor package for pathway analysis of next-generation sequencing data
title_short	Seq2pathway: an R/Bioconductor package for pathway analysis of next-generation sequencing data
title_full	Seq2pathway: an R/Bioconductor package for pathway analysis of next-generation sequencing data
title_fullStr	Seq2pathway: an R/Bioconductor package for pathway analysis of next-generation sequencing data
title_full_unstemmed	Seq2pathway: an R/Bioconductor package for pathway analysis of next-generation sequencing data
title_sort	seq2pathway: an r/bioconductor package for pathway analysis of next-generation sequencing data
description	Summary: Seq2pathway is an R/Python wrapper for pathway (or functional gene-set) analysis of genomic loci, adapted for advances in genome research. Seq2pathway associates the biological significance of genomic loci with their target transcripts and then summarizes the quantified values on the gene-level into pathway scores. It is designed to isolate systematic disturbances and common biological underpinnings from next-generation sequencing (NGS) data. Seq2pathway offers Bioconductor users enhanced capability in discovering collective pathway effects caused by both coding genes and cis-regulation of non-coding elements.
publisher	Oxford University Press
publishDate	2015
url	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4565027/
_version_	1613474406911180800

Seq2pathway: an R/Bioconductor package for pathway analysis of next-generation sequencing data

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