Collaborative annotation of genes and proteins between UniProtKB/Swiss-Prot and dictyBase

UniProtKB/Swiss-Prot, a curated protein database, and dictyBase, the Model Organism Database for Dictyostelium discoideum, have established a collaboration to improve data sharing. One of the major steps in this effort was the ‘Dicty annotation marathon’, a week-long exercise with 30 annotators aime...

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Autores principales: Gaudet, P., Lane, L., Fey, P., Bridge, A., Poux, S., Auchincloss, A., Axelsen, K., Braconi Quintaje, S., Boutet, E., Brown, P., Coudert, E., Datta, R.S., de Lima, W.C., de Oliveira Lima, T., Duvaud, S., Farriol-Mathis, N., Ferro Rojas, S., Feuermann, M., Gateau, A., Hinz, U., Hulo, C., James, J., Jimenez, S., Jungo, F., Keller, G., Lemercier, P., Lieberherr, D., Moinat, M., Nikolskaya, A., Pedruzzi, I., Rivoire, C., Roechert, B., Schneider, M., Stanley, E., Tognolli, M., Sjölander, K., Bougueleret, L., Chisholm, R.L., Bairoch, A.
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2009
Materias:
Original Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2790310/
https://www.ncbi.nlm.nih.gov/pubmed/20157489
http://dx.doi.org/10.1093/database/bap016
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author Gaudet, P.
Lane, L.
Fey, P.
Bridge, A.
Poux, S.
Auchincloss, A.
Axelsen, K.
Braconi Quintaje, S.
Boutet, E.
Brown, P.
Coudert, E.
Datta, R.S.
de Lima, W.C.
de Oliveira Lima, T.
Duvaud, S.
Farriol-Mathis, N.
Ferro Rojas, S.
Feuermann, M.
Gateau, A.
Hinz, U.
Hulo, C.
James, J.
Jimenez, S.
Jungo, F.
Keller, G.
Lemercier, P.
Lieberherr, D.
Moinat, M.
Nikolskaya, A.
Pedruzzi, I.
Rivoire, C.
Roechert, B.
Schneider, M.
Stanley, E.
Tognolli, M.
Sjölander, K.
Bougueleret, L.
Chisholm, R.L.
Bairoch, A.
author_facet Gaudet, P.
Lane, L.
Fey, P.
Bridge, A.
Poux, S.
Auchincloss, A.
Axelsen, K.
Braconi Quintaje, S.
Boutet, E.
Brown, P.
Coudert, E.
Datta, R.S.
de Lima, W.C.
de Oliveira Lima, T.
Duvaud, S.
Farriol-Mathis, N.
Ferro Rojas, S.
Feuermann, M.
Gateau, A.
Hinz, U.
Hulo, C.
James, J.
Jimenez, S.
Jungo, F.
Keller, G.
Lemercier, P.
Lieberherr, D.
Moinat, M.
Nikolskaya, A.
Pedruzzi, I.
Rivoire, C.
Roechert, B.
Schneider, M.
Stanley, E.
Tognolli, M.
Sjölander, K.
Bougueleret, L.
Chisholm, R.L.
Bairoch, A.
author_sort Gaudet, P.
collection PubMed
description UniProtKB/Swiss-Prot, a curated protein database, and dictyBase, the Model Organism Database for Dictyostelium discoideum, have established a collaboration to improve data sharing. One of the major steps in this effort was the ‘Dicty annotation marathon’, a week-long exercise with 30 annotators aimed at achieving a major increase in the number of D. discoideum proteins represented in UniProtKB/Swiss-Prot. The marathon led to the annotation of over 1000 D. discoideum proteins in UniProtKB/Swiss-Prot. Concomitantly, there were a large number of updates in dictyBase concerning gene symbols, protein names and gene models. This exercise demonstrates how UniProtKB/Swiss-Prot can work in very close cooperation with model organism databases and how the annotation of proteins can be accelerated through those collaborations.
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spelling pubmed-27903102009-12-08 Collaborative annotation of genes and proteins between UniProtKB/Swiss-Prot and dictyBase Gaudet, P. Lane, L. Fey, P. Bridge, A. Poux, S. Auchincloss, A. Axelsen, K. Braconi Quintaje, S. Boutet, E. Brown, P. Coudert, E. Datta, R.S. de Lima, W.C. de Oliveira Lima, T. Duvaud, S. Farriol-Mathis, N. Ferro Rojas, S. Feuermann, M. Gateau, A. Hinz, U. Hulo, C. James, J. Jimenez, S. Jungo, F. Keller, G. Lemercier, P. Lieberherr, D. Moinat, M. Nikolskaya, A. Pedruzzi, I. Rivoire, C. Roechert, B. Schneider, M. Stanley, E. Tognolli, M. Sjölander, K. Bougueleret, L. Chisholm, R.L. Bairoch, A. Database (Oxford) Original Article UniProtKB/Swiss-Prot, a curated protein database, and dictyBase, the Model Organism Database for Dictyostelium discoideum, have established a collaboration to improve data sharing. One of the major steps in this effort was the ‘Dicty annotation marathon’, a week-long exercise with 30 annotators aimed at achieving a major increase in the number of D. discoideum proteins represented in UniProtKB/Swiss-Prot. The marathon led to the annotation of over 1000 D. discoideum proteins in UniProtKB/Swiss-Prot. Concomitantly, there were a large number of updates in dictyBase concerning gene symbols, protein names and gene models. This exercise demonstrates how UniProtKB/Swiss-Prot can work in very close cooperation with model organism databases and how the annotation of proteins can be accelerated through those collaborations. Oxford University Press 2009 2009-10-15 /pmc/articles/PMC2790310/ /pubmed/20157489 http://dx.doi.org/10.1093/database/bap016 Text en © The Author(s) 2009. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/2.5/uk/ This is Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Original Article
Gaudet, P.
Lane, L.
Fey, P.
Bridge, A.
Poux, S.
Auchincloss, A.
Axelsen, K.
Braconi Quintaje, S.
Boutet, E.
Brown, P.
Coudert, E.
Datta, R.S.
de Lima, W.C.
de Oliveira Lima, T.
Duvaud, S.
Farriol-Mathis, N.
Ferro Rojas, S.
Feuermann, M.
Gateau, A.
Hinz, U.
Hulo, C.
James, J.
Jimenez, S.
Jungo, F.
Keller, G.
Lemercier, P.
Lieberherr, D.
Moinat, M.
Nikolskaya, A.
Pedruzzi, I.
Rivoire, C.
Roechert, B.
Schneider, M.
Stanley, E.
Tognolli, M.
Sjölander, K.
Bougueleret, L.
Chisholm, R.L.
Bairoch, A.
Collaborative annotation of genes and proteins between UniProtKB/Swiss-Prot and dictyBase
title Collaborative annotation of genes and proteins between UniProtKB/Swiss-Prot and dictyBase
title_full Collaborative annotation of genes and proteins between UniProtKB/Swiss-Prot and dictyBase
title_fullStr Collaborative annotation of genes and proteins between UniProtKB/Swiss-Prot and dictyBase
title_full_unstemmed Collaborative annotation of genes and proteins between UniProtKB/Swiss-Prot and dictyBase
title_short Collaborative annotation of genes and proteins between UniProtKB/Swiss-Prot and dictyBase
title_sort collaborative annotation of genes and proteins between uniprotkb/swiss-prot and dictybase
topic Original Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2790310/
https://www.ncbi.nlm.nih.gov/pubmed/20157489
http://dx.doi.org/10.1093/database/bap016
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