Towards BioDBcore: A community-defined information specification for biological databases

Pascale Gaudet; Amos Bairoch; Dawn Field; Susanna Assunta Sansone; Chris Taylor; Teresa K. Attwood; Alex Bateman; Judith A. Blake; Carol J. Bult; J. Michael Cherry; Rex L. Chisholm; Guy Cochrane; Charles E. Cook; Janan T. Eppig; Michael Y. Galperin; Robert Gentleman; Carole A. Goble; Takashi Gojobori; John M. Hancock; Douglas G. Howe; Tadashi Imanishi; Janet Kelso; David Landsman; Suzanna E. Lewis; Ilene Karsch-Mizrachi; Sandra Orchard; B. F.Francis Ouellette; Shoba Ranganathan; Lorna Richardson; Philippe Rocca-Serra; Paul N. Schofield; Damian Smedley; Christopher Southan; Tin Wee Tan; Tatiana Tatusova; Patricia L. Whetzel; Owen White; Chisato Yamasaki

doi:10.1093/nar/gkq1173

Towards BioDBcore: A community-defined information specification for biological databases

Pascale Gaudet, Amos Bairoch, Dawn Field, Susanna Assunta Sansone, Chris Taylor, Teresa K. Attwood, Alex Bateman, Judith A. Blake, Carol J. Bult, J. Michael Cherry, Rex L. Chisholm, Guy Cochrane, Charles E. Cook, Janan T. Eppig, Michael Y. Galperin, Robert Gentleman, Carole A. Goble, Takashi Gojobori, John M. Hancock, Douglas G. HoweTadashi Imanishi, Janet Kelso, David Landsman, Suzanna E. Lewis, Ilene Karsch-Mizrachi, Sandra Orchard, B. F.Francis Ouellette, Shoba Ranganathan, Lorna Richardson, Philippe Rocca-Serra, Paul N. Schofield, Damian Smedley, Christopher Southan, Tin Wee Tan, Tatiana Tatusova, Patricia L. Whetzel, Owen White, Chisato Yamasaki

Department of Life Sciences

Research output: Contribution to journal › Article › peer-review

29 Citations (Scopus)

Abstract

The present article proposes the adoption of a community-defined, uniform, generic description of the core attributes of biological databases, BioDBCore. The goals of these attributes are to provide a general overview of the database landscape, to encourage consistency and interoperability between resources and to promote the use of semantic and syntactic standards. BioDBCore will make it easier for users to evaluate the scope and relevance of available resources. This new resource will increase the collective impact of the information present in biological databases.

Original language	English
Pages (from-to)	D7-D10
Journal	Nucleic acids research
Volume	39
Issue number	SUPPL. 1
DOIs	https://doi.org/10.1093/nar/gkq1173
Publication status	Published - 2011 Jan

All Science Journal Classification (ASJC) codes

Genetics

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10.1093/nar/gkq1173

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Gaudet, P., Bairoch, A., Field, D., Sansone, S. A., Taylor, C., Attwood, T. K., Bateman, A., Blake, J. A., Bult, C. J., Cherry, J. M., Chisholm, R. L., Cochrane, G., Cook, C. E., Eppig, J. T., Galperin, M. Y., Gentleman, R., Goble, C. A., Gojobori, T., Hancock, J. M., ... Yamasaki, C. (2011). Towards BioDBcore: A community-defined information specification for biological databases. Nucleic acids research, 39(SUPPL. 1), D7-D10. https://doi.org/10.1093/nar/gkq1173

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title = "Towards BioDBcore: A community-defined information specification for biological databases",

abstract = "The present article proposes the adoption of a community-defined, uniform, generic description of the core attributes of biological databases, BioDBCore. The goals of these attributes are to provide a general overview of the database landscape, to encourage consistency and interoperability between resources and to promote the use of semantic and syntactic standards. BioDBCore will make it easier for users to evaluate the scope and relevance of available resources. This new resource will increase the collective impact of the information present in biological databases.",

author = "Pascale Gaudet and Amos Bairoch and Dawn Field and Sansone, {Susanna Assunta} and Chris Taylor and Attwood, {Teresa K.} and Alex Bateman and Blake, {Judith A.} and Bult, {Carol J.} and Cherry, {J. Michael} and Chisholm, {Rex L.} and Guy Cochrane and Cook, {Charles E.} and Eppig, {Janan T.} and Galperin, {Michael Y.} and Robert Gentleman and Goble, {Carole A.} and Takashi Gojobori and Hancock, {John M.} and Howe, {Douglas G.} and Tadashi Imanishi and Janet Kelso and David Landsman and Lewis, {Suzanna E.} and Ilene Karsch-Mizrachi and Sandra Orchard and Ouellette, {B. F.Francis} and Shoba Ranganathan and Lorna Richardson and Philippe Rocca-Serra and Schofield, {Paul N.} and Damian Smedley and Christopher Southan and Tan, {Tin Wee} and Tatiana Tatusova and Whetzel, {Patricia L.} and Owen White and Chisato Yamasaki",

year = "2011",

month = jan,

doi = "10.1093/nar/gkq1173",

language = "English",

volume = "39",

pages = "D7--D10",

journal = "Nucleic acids research",

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Gaudet, P, Bairoch, A, Field, D, Sansone, SA, Taylor, C, Attwood, TK, Bateman, A, Blake, JA, Bult, CJ, Cherry, JM, Chisholm, RL, Cochrane, G, Cook, CE, Eppig, JT, Galperin, MY, Gentleman, R, Goble, CA, Gojobori, T, Hancock, JM, Howe, DG, Imanishi, T, Kelso, J, Landsman, D, Lewis, SE, Karsch-Mizrachi, I, Orchard, S, Ouellette, BFF, Ranganathan, S, Richardson, L, Rocca-Serra, P, Schofield, PN, Smedley, D, Southan, C, Tan, TW, Tatusova, T, Whetzel, PL, White, O & Yamasaki, C 2011, 'Towards BioDBcore: A community-defined information specification for biological databases', Nucleic acids research, vol. 39, no. SUPPL. 1, pp. D7-D10. https://doi.org/10.1093/nar/gkq1173

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AU - Gaudet, Pascale

AU - Bairoch, Amos

AU - Field, Dawn

AU - Sansone, Susanna Assunta

AU - Taylor, Chris

AU - Attwood, Teresa K.

AU - Bateman, Alex

AU - Blake, Judith A.

AU - Bult, Carol J.

AU - Cherry, J. Michael

AU - Chisholm, Rex L.

AU - Cochrane, Guy

AU - Cook, Charles E.

AU - Eppig, Janan T.

AU - Galperin, Michael Y.

AU - Gentleman, Robert

AU - Goble, Carole A.

AU - Gojobori, Takashi

AU - Hancock, John M.

AU - Howe, Douglas G.

AU - Imanishi, Tadashi

AU - Kelso, Janet

AU - Landsman, David

AU - Lewis, Suzanna E.

AU - Karsch-Mizrachi, Ilene

AU - Orchard, Sandra

AU - Ouellette, B. F.Francis

AU - Ranganathan, Shoba

AU - Richardson, Lorna

AU - Rocca-Serra, Philippe

AU - Schofield, Paul N.

AU - Smedley, Damian

AU - Southan, Christopher

AU - Tan, Tin Wee

AU - Tatusova, Tatiana

AU - Whetzel, Patricia L.

AU - White, Owen

AU - Yamasaki, Chisato

PY - 2011/1

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AB - The present article proposes the adoption of a community-defined, uniform, generic description of the core attributes of biological databases, BioDBCore. The goals of these attributes are to provide a general overview of the database landscape, to encourage consistency and interoperability between resources and to promote the use of semantic and syntactic standards. BioDBCore will make it easier for users to evaluate the scope and relevance of available resources. This new resource will increase the collective impact of the information present in biological databases.

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VL - 39

SP - D7-D10

JO - Nucleic acids research

JF - Nucleic acids research

IS - SUPPL. 1

ER -

Towards BioDBcore: A community-defined information specification for biological databases

Abstract

All Science Journal Classification (ASJC) codes

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