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ArrayExpress update—from an archive of functional genomics experiments to the atlas of gene expression

ArrayExpress http://www.ebi.ac.uk/arrayexpress consists of three components: the ArrayExpress Repository—a public archive of functional genomics experiments and supporting data, the ArrayExpress Warehouse—a database of gene expression profiles and other bio-measurements and the ArrayExpress Atlas—a...

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Autores principales: Parkinson, Helen, Kapushesky, Misha, Kolesnikov, Nikolay, Rustici, Gabriella, Shojatalab, Mohammad, Abeygunawardena, Niran, Berube, Hugo, Dylag, Miroslaw, Emam, Ibrahim, Farne, Anna, Holloway, Ele, Lukk, Margus, Malone, James, Mani, Roby, Pilicheva, Ekaterina, Rayner, Tim F., Rezwan, Faisal, Sharma, Anjan, Williams, Eleanor, Bradley, Xiangqun Zheng, Adamusiak, Tomasz, Brandizi, Marco, Burdett, Tony, Coulson, Richard, Krestyaninova, Maria, Kurnosov, Pavel, Maguire, Eamonn, Neogi, Sudeshna Guha, Rocca-Serra, Philippe, Sansone, Susanna-Assunta, Sklyar, Nataliya, Zhao, Mengyao, Sarkans, Ugis, Brazma, Alvis
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2009
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686529/
https://www.ncbi.nlm.nih.gov/pubmed/19015125
http://dx.doi.org/10.1093/nar/gkn889
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author Parkinson, Helen
Kapushesky, Misha
Kolesnikov, Nikolay
Rustici, Gabriella
Shojatalab, Mohammad
Abeygunawardena, Niran
Berube, Hugo
Dylag, Miroslaw
Emam, Ibrahim
Farne, Anna
Holloway, Ele
Lukk, Margus
Malone, James
Mani, Roby
Pilicheva, Ekaterina
Rayner, Tim F.
Rezwan, Faisal
Sharma, Anjan
Williams, Eleanor
Bradley, Xiangqun Zheng
Adamusiak, Tomasz
Brandizi, Marco
Burdett, Tony
Coulson, Richard
Krestyaninova, Maria
Kurnosov, Pavel
Maguire, Eamonn
Neogi, Sudeshna Guha
Rocca-Serra, Philippe
Sansone, Susanna-Assunta
Sklyar, Nataliya
Zhao, Mengyao
Sarkans, Ugis
Brazma, Alvis
author_facet Parkinson, Helen
Kapushesky, Misha
Kolesnikov, Nikolay
Rustici, Gabriella
Shojatalab, Mohammad
Abeygunawardena, Niran
Berube, Hugo
Dylag, Miroslaw
Emam, Ibrahim
Farne, Anna
Holloway, Ele
Lukk, Margus
Malone, James
Mani, Roby
Pilicheva, Ekaterina
Rayner, Tim F.
Rezwan, Faisal
Sharma, Anjan
Williams, Eleanor
Bradley, Xiangqun Zheng
Adamusiak, Tomasz
Brandizi, Marco
Burdett, Tony
Coulson, Richard
Krestyaninova, Maria
Kurnosov, Pavel
Maguire, Eamonn
Neogi, Sudeshna Guha
Rocca-Serra, Philippe
Sansone, Susanna-Assunta
Sklyar, Nataliya
Zhao, Mengyao
Sarkans, Ugis
Brazma, Alvis
author_sort Parkinson, Helen
collection PubMed
description ArrayExpress http://www.ebi.ac.uk/arrayexpress consists of three components: the ArrayExpress Repository—a public archive of functional genomics experiments and supporting data, the ArrayExpress Warehouse—a database of gene expression profiles and other bio-measurements and the ArrayExpress Atlas—a new summary database and meta-analytical tool of ranked gene expression across multiple experiments and different biological conditions. The Repository contains data from over 6000 experiments comprising approximately 200 000 assays, and the database doubles in size every 15 months. The majority of the data are array based, but other data types are included, most recently—ultra high-throughput sequencing transcriptomics and epigenetic data. The Warehouse and Atlas allow users to query for differentially expressed genes by gene names and properties, experimental conditions and sample properties, or a combination of both. In this update, we describe the ArrayExpress developments over the last two years.
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spelling pubmed-26865292009-06-15 ArrayExpress update—from an archive of functional genomics experiments to the atlas of gene expression Parkinson, Helen Kapushesky, Misha Kolesnikov, Nikolay Rustici, Gabriella Shojatalab, Mohammad Abeygunawardena, Niran Berube, Hugo Dylag, Miroslaw Emam, Ibrahim Farne, Anna Holloway, Ele Lukk, Margus Malone, James Mani, Roby Pilicheva, Ekaterina Rayner, Tim F. Rezwan, Faisal Sharma, Anjan Williams, Eleanor Bradley, Xiangqun Zheng Adamusiak, Tomasz Brandizi, Marco Burdett, Tony Coulson, Richard Krestyaninova, Maria Kurnosov, Pavel Maguire, Eamonn Neogi, Sudeshna Guha Rocca-Serra, Philippe Sansone, Susanna-Assunta Sklyar, Nataliya Zhao, Mengyao Sarkans, Ugis Brazma, Alvis Nucleic Acids Res Articles ArrayExpress http://www.ebi.ac.uk/arrayexpress consists of three components: the ArrayExpress Repository—a public archive of functional genomics experiments and supporting data, the ArrayExpress Warehouse—a database of gene expression profiles and other bio-measurements and the ArrayExpress Atlas—a new summary database and meta-analytical tool of ranked gene expression across multiple experiments and different biological conditions. The Repository contains data from over 6000 experiments comprising approximately 200 000 assays, and the database doubles in size every 15 months. The majority of the data are array based, but other data types are included, most recently—ultra high-throughput sequencing transcriptomics and epigenetic data. The Warehouse and Atlas allow users to query for differentially expressed genes by gene names and properties, experimental conditions and sample properties, or a combination of both. In this update, we describe the ArrayExpress developments over the last two years. Oxford University Press 2009-01 2008-11-10 /pmc/articles/PMC2686529/ /pubmed/19015125 http://dx.doi.org/10.1093/nar/gkn889 Text en © 2008 The Author(s) 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
Parkinson, Helen
Kapushesky, Misha
Kolesnikov, Nikolay
Rustici, Gabriella
Shojatalab, Mohammad
Abeygunawardena, Niran
Berube, Hugo
Dylag, Miroslaw
Emam, Ibrahim
Farne, Anna
Holloway, Ele
Lukk, Margus
Malone, James
Mani, Roby
Pilicheva, Ekaterina
Rayner, Tim F.
Rezwan, Faisal
Sharma, Anjan
Williams, Eleanor
Bradley, Xiangqun Zheng
Adamusiak, Tomasz
Brandizi, Marco
Burdett, Tony
Coulson, Richard
Krestyaninova, Maria
Kurnosov, Pavel
Maguire, Eamonn
Neogi, Sudeshna Guha
Rocca-Serra, Philippe
Sansone, Susanna-Assunta
Sklyar, Nataliya
Zhao, Mengyao
Sarkans, Ugis
Brazma, Alvis
ArrayExpress update—from an archive of functional genomics experiments to the atlas of gene expression
title ArrayExpress update—from an archive of functional genomics experiments to the atlas of gene expression
title_full ArrayExpress update—from an archive of functional genomics experiments to the atlas of gene expression
title_fullStr ArrayExpress update—from an archive of functional genomics experiments to the atlas of gene expression
title_full_unstemmed ArrayExpress update—from an archive of functional genomics experiments to the atlas of gene expression
title_short ArrayExpress update—from an archive of functional genomics experiments to the atlas of gene expression
title_sort arrayexpress update—from an archive of functional genomics experiments to the atlas of gene expression
topic Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686529/
https://www.ncbi.nlm.nih.gov/pubmed/19015125
http://dx.doi.org/10.1093/nar/gkn889
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