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Title: COnTORT: COmprehensive Transcriptomic ORganizational Tool for Simultaneously Retrieving and Organizing Numerous Gene Expression Data Sets from the NCBI Gene Expression Omnibus Database

Abstract

ABSTRACT We introduce COnTORT ( CO mprehensive T ranscriptomic OR ganizational T ool), a publicly available program that retrieves all available gene expression data and associated metadata for an organism from the National Center for Biotechnology Information (NCBI) Gene Expression Omnibus (GEO) database. The data are compiled into text files that can be used for downstream bioinformatic applications.

Authors:
ORCiD logo; ; ORCiD logo; ORCiD logo;
Publication Date:
Sponsoring Org.:
USDOE
OSTI Identifier:
1633687
Grant/Contract Number:  
SC0018409
Resource Type:
Published Article
Journal Name:
Microbiology Resource Announcements
Additional Journal Information:
Journal Name: Microbiology Resource Announcements Journal Volume: 9 Journal Issue: 25; Journal ID: ISSN 2576-098X
Publisher:
American Society for Microbiology
Country of Publication:
United States
Language:
English

Citation Formats

Myers, Kevin S., Place, Michael, Noguera, Daniel R., Donohue, Timothy J., and Putonti, ed., Catherine. COnTORT: COmprehensive Transcriptomic ORganizational Tool for Simultaneously Retrieving and Organizing Numerous Gene Expression Data Sets from the NCBI Gene Expression Omnibus Database. United States: N. p., 2020. Web. doi:10.1128/MRA.00587-20.
Myers, Kevin S., Place, Michael, Noguera, Daniel R., Donohue, Timothy J., & Putonti, ed., Catherine. COnTORT: COmprehensive Transcriptomic ORganizational Tool for Simultaneously Retrieving and Organizing Numerous Gene Expression Data Sets from the NCBI Gene Expression Omnibus Database. United States. doi:https://doi.org/10.1128/MRA.00587-20
Myers, Kevin S., Place, Michael, Noguera, Daniel R., Donohue, Timothy J., and Putonti, ed., Catherine. Thu . "COnTORT: COmprehensive Transcriptomic ORganizational Tool for Simultaneously Retrieving and Organizing Numerous Gene Expression Data Sets from the NCBI Gene Expression Omnibus Database". United States. doi:https://doi.org/10.1128/MRA.00587-20.
@article{osti_1633687,
title = {COnTORT: COmprehensive Transcriptomic ORganizational Tool for Simultaneously Retrieving and Organizing Numerous Gene Expression Data Sets from the NCBI Gene Expression Omnibus Database},
author = {Myers, Kevin S. and Place, Michael and Noguera, Daniel R. and Donohue, Timothy J. and Putonti, ed., Catherine},
abstractNote = {ABSTRACT We introduce COnTORT ( CO mprehensive T ranscriptomic OR ganizational T ool), a publicly available program that retrieves all available gene expression data and associated metadata for an organism from the National Center for Biotechnology Information (NCBI) Gene Expression Omnibus (GEO) database. The data are compiled into text files that can be used for downstream bioinformatic applications.},
doi = {10.1128/MRA.00587-20},
journal = {Microbiology Resource Announcements},
number = 25,
volume = 9,
place = {United States},
year = {2020},
month = {6}
}

Journal Article:
Free Publicly Available Full Text
Publisher's Version of Record
DOI: https://doi.org/10.1128/MRA.00587-20

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Works referenced in this record:

Gene Expression Omnibus: NCBI gene expression and hybridization array data repository
journal, January 2002


GEOquery: a bridge between the Gene Expression Omnibus (GEO) and BioConductor
journal, May 2007


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