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Expression Atlas update: gene and protein expression in multiple species

The EMBL-EBI Expression Atlas is an added value knowledge base that enables researchers to answer the question of where (tissue, organism part, developmental stage, cell type) and under which conditions (disease, treatment, gender, etc) a gene or protein of interest is expressed. Expression Atlas br...

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Autores principales: Moreno, Pablo, Fexova, Silvie, George, Nancy, Manning, Jonathan R, Miao, Zhichiao, Mohammed, Suhaib, Muñoz-Pomer, Alfonso, Fullgrabe, Anja, Bi, Yalan, Bush, Natassja, Iqbal, Haider, Kumbham, Upendra, Solovyev, Andrey, Zhao, Lingyun, Prakash, Ananth, García-Seisdedos, David, Kundu, Deepti J, Wang, Shengbo, Walzer, Mathias, Clarke, Laura, Osumi-Sutherland, David, Tello-Ruiz, Marcela Karey, Kumari, Sunita, Ware, Doreen, Eliasova, Jana, Arends, Mark J, Nawijn, Martijn C, Meyer, Kerstin, Burdett, Tony, Marioni, John, Teichmann, Sarah, Vizcaíno, Juan Antonio, Brazma, Alvis, Papatheodorou, Irene
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8728300/
https://www.ncbi.nlm.nih.gov/pubmed/34850121
http://dx.doi.org/10.1093/nar/gkab1030
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author Moreno, Pablo
Fexova, Silvie
George, Nancy
Manning, Jonathan R
Miao, Zhichiao
Mohammed, Suhaib
Muñoz-Pomer, Alfonso
Fullgrabe, Anja
Bi, Yalan
Bush, Natassja
Iqbal, Haider
Kumbham, Upendra
Solovyev, Andrey
Zhao, Lingyun
Prakash, Ananth
García-Seisdedos, David
Kundu, Deepti J
Wang, Shengbo
Walzer, Mathias
Clarke, Laura
Osumi-Sutherland, David
Tello-Ruiz, Marcela Karey
Kumari, Sunita
Ware, Doreen
Eliasova, Jana
Arends, Mark J
Nawijn, Martijn C
Meyer, Kerstin
Burdett, Tony
Marioni, John
Teichmann, Sarah
Vizcaíno, Juan Antonio
Brazma, Alvis
Papatheodorou, Irene
author_facet Moreno, Pablo
Fexova, Silvie
George, Nancy
Manning, Jonathan R
Miao, Zhichiao
Mohammed, Suhaib
Muñoz-Pomer, Alfonso
Fullgrabe, Anja
Bi, Yalan
Bush, Natassja
Iqbal, Haider
Kumbham, Upendra
Solovyev, Andrey
Zhao, Lingyun
Prakash, Ananth
García-Seisdedos, David
Kundu, Deepti J
Wang, Shengbo
Walzer, Mathias
Clarke, Laura
Osumi-Sutherland, David
Tello-Ruiz, Marcela Karey
Kumari, Sunita
Ware, Doreen
Eliasova, Jana
Arends, Mark J
Nawijn, Martijn C
Meyer, Kerstin
Burdett, Tony
Marioni, John
Teichmann, Sarah
Vizcaíno, Juan Antonio
Brazma, Alvis
Papatheodorou, Irene
author_sort Moreno, Pablo
collection PubMed
description The EMBL-EBI Expression Atlas is an added value knowledge base that enables researchers to answer the question of where (tissue, organism part, developmental stage, cell type) and under which conditions (disease, treatment, gender, etc) a gene or protein of interest is expressed. Expression Atlas brings together data from >4500 expression studies from >65 different species, across different conditions and tissues. It makes these data freely available in an easy to visualise form, after expert curation to accurately represent the intended experimental design, re-analysed via standardised pipelines that rely on open-source community developed tools. Each study's metadata are annotated using ontologies. The data are re-analyzed with the aim of reproducing the original conclusions of the underlying experiments. Expression Atlas is currently divided into Bulk Expression Atlas and Single Cell Expression Atlas. Expression Atlas contains data from differential studies (microarray and bulk RNA-Seq) and baseline studies (bulk RNA-Seq and proteomics), whereas Single Cell Expression Atlas is currently dedicated to Single Cell RNA-Sequencing (scRNA-Seq) studies. The resource has been in continuous development since 2009 and it is available at https://www.ebi.ac.uk/gxa.
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spelling pubmed-87283002022-01-05 Expression Atlas update: gene and protein expression in multiple species Moreno, Pablo Fexova, Silvie George, Nancy Manning, Jonathan R Miao, Zhichiao Mohammed, Suhaib Muñoz-Pomer, Alfonso Fullgrabe, Anja Bi, Yalan Bush, Natassja Iqbal, Haider Kumbham, Upendra Solovyev, Andrey Zhao, Lingyun Prakash, Ananth García-Seisdedos, David Kundu, Deepti J Wang, Shengbo Walzer, Mathias Clarke, Laura Osumi-Sutherland, David Tello-Ruiz, Marcela Karey Kumari, Sunita Ware, Doreen Eliasova, Jana Arends, Mark J Nawijn, Martijn C Meyer, Kerstin Burdett, Tony Marioni, John Teichmann, Sarah Vizcaíno, Juan Antonio Brazma, Alvis Papatheodorou, Irene Nucleic Acids Res Database Issue The EMBL-EBI Expression Atlas is an added value knowledge base that enables researchers to answer the question of where (tissue, organism part, developmental stage, cell type) and under which conditions (disease, treatment, gender, etc) a gene or protein of interest is expressed. Expression Atlas brings together data from >4500 expression studies from >65 different species, across different conditions and tissues. It makes these data freely available in an easy to visualise form, after expert curation to accurately represent the intended experimental design, re-analysed via standardised pipelines that rely on open-source community developed tools. Each study's metadata are annotated using ontologies. The data are re-analyzed with the aim of reproducing the original conclusions of the underlying experiments. Expression Atlas is currently divided into Bulk Expression Atlas and Single Cell Expression Atlas. Expression Atlas contains data from differential studies (microarray and bulk RNA-Seq) and baseline studies (bulk RNA-Seq and proteomics), whereas Single Cell Expression Atlas is currently dedicated to Single Cell RNA-Sequencing (scRNA-Seq) studies. The resource has been in continuous development since 2009 and it is available at https://www.ebi.ac.uk/gxa. Oxford University Press 2021-11-24 /pmc/articles/PMC8728300/ /pubmed/34850121 http://dx.doi.org/10.1093/nar/gkab1030 Text en © The Author(s) 2021. Published by Oxford University Press on behalf of Nucleic Acids Research. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Database Issue
Moreno, Pablo
Fexova, Silvie
George, Nancy
Manning, Jonathan R
Miao, Zhichiao
Mohammed, Suhaib
Muñoz-Pomer, Alfonso
Fullgrabe, Anja
Bi, Yalan
Bush, Natassja
Iqbal, Haider
Kumbham, Upendra
Solovyev, Andrey
Zhao, Lingyun
Prakash, Ananth
García-Seisdedos, David
Kundu, Deepti J
Wang, Shengbo
Walzer, Mathias
Clarke, Laura
Osumi-Sutherland, David
Tello-Ruiz, Marcela Karey
Kumari, Sunita
Ware, Doreen
Eliasova, Jana
Arends, Mark J
Nawijn, Martijn C
Meyer, Kerstin
Burdett, Tony
Marioni, John
Teichmann, Sarah
Vizcaíno, Juan Antonio
Brazma, Alvis
Papatheodorou, Irene
Expression Atlas update: gene and protein expression in multiple species
title Expression Atlas update: gene and protein expression in multiple species
title_full Expression Atlas update: gene and protein expression in multiple species
title_fullStr Expression Atlas update: gene and protein expression in multiple species
title_full_unstemmed Expression Atlas update: gene and protein expression in multiple species
title_short Expression Atlas update: gene and protein expression in multiple species
title_sort expression atlas update: gene and protein expression in multiple species
topic Database Issue
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8728300/
https://www.ncbi.nlm.nih.gov/pubmed/34850121
http://dx.doi.org/10.1093/nar/gkab1030
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