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NCBI GEO: archive for high-throughput functional genomic data
The Gene Expression Omnibus (GEO) at the National Center for Biotechnology Information (NCBI) is the largest public repository for high-throughput gene expression data. Additionally, GEO hosts other categories of high-throughput functional genomic data, including those that examine genome copy numbe...
Autores principales: | , , , , , , , , , , , , , |
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Formato: | Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2009
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686538/ https://www.ncbi.nlm.nih.gov/pubmed/18940857 http://dx.doi.org/10.1093/nar/gkn764 |
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author | Barrett, Tanya Troup, Dennis B. Wilhite, Stephen E. Ledoux, Pierre Rudnev, Dmitry Evangelista, Carlos Kim, Irene F. Soboleva, Alexandra Tomashevsky, Maxim Marshall, Kimberly A. Phillippy, Katherine H. Sherman, Patti M. Muertter, Rolf N. Edgar, Ron |
author_facet | Barrett, Tanya Troup, Dennis B. Wilhite, Stephen E. Ledoux, Pierre Rudnev, Dmitry Evangelista, Carlos Kim, Irene F. Soboleva, Alexandra Tomashevsky, Maxim Marshall, Kimberly A. Phillippy, Katherine H. Sherman, Patti M. Muertter, Rolf N. Edgar, Ron |
author_sort | Barrett, Tanya |
collection | PubMed |
description | The Gene Expression Omnibus (GEO) at the National Center for Biotechnology Information (NCBI) is the largest public repository for high-throughput gene expression data. Additionally, GEO hosts other categories of high-throughput functional genomic data, including those that examine genome copy number variations, chromatin structure, methylation status and transcription factor binding. These data are generated by the research community using high-throughput technologies like microarrays and, more recently, next-generation sequencing. The database has a flexible infrastructure that can capture fully annotated raw and processed data, enabling compliance with major community-derived scientific reporting standards such as ‘Minimum Information About a Microarray Experiment’ (MIAME). In addition to serving as a centralized data storage hub, GEO offers many tools and features that allow users to effectively explore, analyze and download expression data from both gene-centric and experiment-centric perspectives. This article summarizes the GEO repository structure, content and operating procedures, as well as recently introduced data mining features. GEO is freely accessible at http://www.ncbi.nlm.nih.gov/geo/. |
format | Text |
id | pubmed-2686538 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2009 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-26865382009-05-26 NCBI GEO: archive for high-throughput functional genomic data Barrett, Tanya Troup, Dennis B. Wilhite, Stephen E. Ledoux, Pierre Rudnev, Dmitry Evangelista, Carlos Kim, Irene F. Soboleva, Alexandra Tomashevsky, Maxim Marshall, Kimberly A. Phillippy, Katherine H. Sherman, Patti M. Muertter, Rolf N. Edgar, Ron Nucleic Acids Res Articles The Gene Expression Omnibus (GEO) at the National Center for Biotechnology Information (NCBI) is the largest public repository for high-throughput gene expression data. Additionally, GEO hosts other categories of high-throughput functional genomic data, including those that examine genome copy number variations, chromatin structure, methylation status and transcription factor binding. These data are generated by the research community using high-throughput technologies like microarrays and, more recently, next-generation sequencing. The database has a flexible infrastructure that can capture fully annotated raw and processed data, enabling compliance with major community-derived scientific reporting standards such as ‘Minimum Information About a Microarray Experiment’ (MIAME). In addition to serving as a centralized data storage hub, GEO offers many tools and features that allow users to effectively explore, analyze and download expression data from both gene-centric and experiment-centric perspectives. This article summarizes the GEO repository structure, content and operating procedures, as well as recently introduced data mining features. GEO is freely accessible at http://www.ncbi.nlm.nih.gov/geo/. Oxford University Press 2009-01 2008-10-21 /pmc/articles/PMC2686538/ /pubmed/18940857 http://dx.doi.org/10.1093/nar/gkn764 Text en Published by Oxford University Press 2008 http://creativecommons.org/licenses/by-nc/2.0/uk/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Articles Barrett, Tanya Troup, Dennis B. Wilhite, Stephen E. Ledoux, Pierre Rudnev, Dmitry Evangelista, Carlos Kim, Irene F. Soboleva, Alexandra Tomashevsky, Maxim Marshall, Kimberly A. Phillippy, Katherine H. Sherman, Patti M. Muertter, Rolf N. Edgar, Ron NCBI GEO: archive for high-throughput functional genomic data |
title | NCBI GEO: archive for high-throughput functional genomic data |
title_full | NCBI GEO: archive for high-throughput functional genomic data |
title_fullStr | NCBI GEO: archive for high-throughput functional genomic data |
title_full_unstemmed | NCBI GEO: archive for high-throughput functional genomic data |
title_short | NCBI GEO: archive for high-throughput functional genomic data |
title_sort | ncbi geo: archive for high-throughput functional genomic data |
topic | Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686538/ https://www.ncbi.nlm.nih.gov/pubmed/18940857 http://dx.doi.org/10.1093/nar/gkn764 |
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