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WormBase 2012: more genomes, more data, new website

Since its release in 2000, WormBase (http://www.wormbase.org) has grown from a small resource focusing on a single species and serving a dedicated research community, to one now spanning 15 species essential to the broader biomedical and agricultural research fields. To enhance the rate of curation,...

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Autores principales: Yook, Karen, Harris, Todd W., Bieri, Tamberlyn, Cabunoc, Abigail, Chan, Juancarlos, Chen, Wen J., Davis, Paul, de la Cruz, Norie, Duong, Adrian, Fang, Ruihua, Ganesan, Uma, Grove, Christian, Howe, Kevin, Kadam, Snehalata, Kishore, Ranjana, Lee, Raymond, Li, Yuling, Muller, Hans-Michael, Nakamura, Cecilia, Nash, Bill, Ozersky, Philip, Paulini, Michael, Raciti, Daniela, Rangarajan, Arun, Schindelman, Gary, Shi, Xiaoqi, Schwarz, Erich M., Ann Tuli, Mary, Van Auken, Kimberly, Wang, Daniel, Wang, Xiaodong, Williams, Gary, Hodgkin, Jonathan, Berriman, Matthew, Durbin, Richard, Kersey, Paul, Spieth, John, Stein, Lincoln, Sternberg, Paul W.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2012
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245152/
https://www.ncbi.nlm.nih.gov/pubmed/22067452
http://dx.doi.org/10.1093/nar/gkr954
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author Yook, Karen
Harris, Todd W.
Bieri, Tamberlyn
Cabunoc, Abigail
Chan, Juancarlos
Chen, Wen J.
Davis, Paul
de la Cruz, Norie
Duong, Adrian
Fang, Ruihua
Ganesan, Uma
Grove, Christian
Howe, Kevin
Kadam, Snehalata
Kishore, Ranjana
Lee, Raymond
Li, Yuling
Muller, Hans-Michael
Nakamura, Cecilia
Nash, Bill
Ozersky, Philip
Paulini, Michael
Raciti, Daniela
Rangarajan, Arun
Schindelman, Gary
Shi, Xiaoqi
Schwarz, Erich M.
Ann Tuli, Mary
Van Auken, Kimberly
Wang, Daniel
Wang, Xiaodong
Williams, Gary
Hodgkin, Jonathan
Berriman, Matthew
Durbin, Richard
Kersey, Paul
Spieth, John
Stein, Lincoln
Sternberg, Paul W.
author_facet Yook, Karen
Harris, Todd W.
Bieri, Tamberlyn
Cabunoc, Abigail
Chan, Juancarlos
Chen, Wen J.
Davis, Paul
de la Cruz, Norie
Duong, Adrian
Fang, Ruihua
Ganesan, Uma
Grove, Christian
Howe, Kevin
Kadam, Snehalata
Kishore, Ranjana
Lee, Raymond
Li, Yuling
Muller, Hans-Michael
Nakamura, Cecilia
Nash, Bill
Ozersky, Philip
Paulini, Michael
Raciti, Daniela
Rangarajan, Arun
Schindelman, Gary
Shi, Xiaoqi
Schwarz, Erich M.
Ann Tuli, Mary
Van Auken, Kimberly
Wang, Daniel
Wang, Xiaodong
Williams, Gary
Hodgkin, Jonathan
Berriman, Matthew
Durbin, Richard
Kersey, Paul
Spieth, John
Stein, Lincoln
Sternberg, Paul W.
author_sort Yook, Karen
collection PubMed
description Since its release in 2000, WormBase (http://www.wormbase.org) has grown from a small resource focusing on a single species and serving a dedicated research community, to one now spanning 15 species essential to the broader biomedical and agricultural research fields. To enhance the rate of curation, we have automated the identification of key data in the scientific literature and use similar methodology for data extraction. To ease access to the data, we are collaborating with journals to link entities in research publications to their report pages at WormBase. To facilitate discovery, we have added new views of the data, integrated large-scale datasets and expanded descriptions of models for human disease. Finally, we have introduced a dramatic overhaul of the WormBase website for public beta testing. Designed to balance complexity and usability, the new site is species-agnostic, highly customizable, and interactive. Casual users and developers alike will be able to leverage the public RESTful application programming interface (API) to generate custom data mining solutions and extensions to the site. We report on the growth of our database and on our work in keeping pace with the growing demand for data, efforts to anticipate the requirements of users and new collaborations with the larger science community.
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spelling pubmed-32451522012-01-10 WormBase 2012: more genomes, more data, new website Yook, Karen Harris, Todd W. Bieri, Tamberlyn Cabunoc, Abigail Chan, Juancarlos Chen, Wen J. Davis, Paul de la Cruz, Norie Duong, Adrian Fang, Ruihua Ganesan, Uma Grove, Christian Howe, Kevin Kadam, Snehalata Kishore, Ranjana Lee, Raymond Li, Yuling Muller, Hans-Michael Nakamura, Cecilia Nash, Bill Ozersky, Philip Paulini, Michael Raciti, Daniela Rangarajan, Arun Schindelman, Gary Shi, Xiaoqi Schwarz, Erich M. Ann Tuli, Mary Van Auken, Kimberly Wang, Daniel Wang, Xiaodong Williams, Gary Hodgkin, Jonathan Berriman, Matthew Durbin, Richard Kersey, Paul Spieth, John Stein, Lincoln Sternberg, Paul W. Nucleic Acids Res Articles Since its release in 2000, WormBase (http://www.wormbase.org) has grown from a small resource focusing on a single species and serving a dedicated research community, to one now spanning 15 species essential to the broader biomedical and agricultural research fields. To enhance the rate of curation, we have automated the identification of key data in the scientific literature and use similar methodology for data extraction. To ease access to the data, we are collaborating with journals to link entities in research publications to their report pages at WormBase. To facilitate discovery, we have added new views of the data, integrated large-scale datasets and expanded descriptions of models for human disease. Finally, we have introduced a dramatic overhaul of the WormBase website for public beta testing. Designed to balance complexity and usability, the new site is species-agnostic, highly customizable, and interactive. Casual users and developers alike will be able to leverage the public RESTful application programming interface (API) to generate custom data mining solutions and extensions to the site. We report on the growth of our database and on our work in keeping pace with the growing demand for data, efforts to anticipate the requirements of users and new collaborations with the larger science community. Oxford University Press 2012-01 2011-11-08 /pmc/articles/PMC3245152/ /pubmed/22067452 http://dx.doi.org/10.1093/nar/gkr954 Text en © The Author(s) 2011. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/3.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Articles
Yook, Karen
Harris, Todd W.
Bieri, Tamberlyn
Cabunoc, Abigail
Chan, Juancarlos
Chen, Wen J.
Davis, Paul
de la Cruz, Norie
Duong, Adrian
Fang, Ruihua
Ganesan, Uma
Grove, Christian
Howe, Kevin
Kadam, Snehalata
Kishore, Ranjana
Lee, Raymond
Li, Yuling
Muller, Hans-Michael
Nakamura, Cecilia
Nash, Bill
Ozersky, Philip
Paulini, Michael
Raciti, Daniela
Rangarajan, Arun
Schindelman, Gary
Shi, Xiaoqi
Schwarz, Erich M.
Ann Tuli, Mary
Van Auken, Kimberly
Wang, Daniel
Wang, Xiaodong
Williams, Gary
Hodgkin, Jonathan
Berriman, Matthew
Durbin, Richard
Kersey, Paul
Spieth, John
Stein, Lincoln
Sternberg, Paul W.
WormBase 2012: more genomes, more data, new website
title WormBase 2012: more genomes, more data, new website
title_full WormBase 2012: more genomes, more data, new website
title_fullStr WormBase 2012: more genomes, more data, new website
title_full_unstemmed WormBase 2012: more genomes, more data, new website
title_short WormBase 2012: more genomes, more data, new website
title_sort wormbase 2012: more genomes, more data, new website
topic Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245152/
https://www.ncbi.nlm.nih.gov/pubmed/22067452
http://dx.doi.org/10.1093/nar/gkr954
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