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 W. Tan; Tatiana Tatusova; Patricia L. Whetzel; Owen White; Chisato Yamasaki

doi:10.1093/database/baq027

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 W. Tan, Tatiana Tatusova, Patricia L. Whetzel, Owen White, Chisato Yamasaki

^*Corresponding author for this work

FSM Office for Research

Research output: Contribution to journal › Review article › peer-review

20 Scopus citations

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 (US)
Article number	baq027
Journal	Database
Volume	2011
DOIs	https://doi.org/10.1093/database/baq027
State	Published - 2011

Funding

ASJC Scopus subject areas

Information Systems
General Biochemistry, Genetics and Molecular Biology
General Agricultural and Biological Sciences

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10.1093/database/baq027

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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. Database, 2011, Article baq027. https://doi.org/10.1093/database/baq027

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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 Mizrachi, {Ilene Karsch} 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 W.} and Tatiana Tatusova and Whetzel, {Patricia L.} and Owen White and Chisato Yamasaki",

year = "2011",

doi = "10.1093/database/baq027",

language = "English (US)",

volume = "2011",

journal = "Database",

issn = "1758-0463",

publisher = "Oxford University Press",

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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, Mizrachi, IK, 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', Database, vol. 2011, baq027. https://doi.org/10.1093/database/baq027

TY - JOUR

T1 - Towards BioDBcore

T2 - A community-defined information specification for biological databases

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 - Mizrachi, Ilene Karsch

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 W.

AU - Tatusova, Tatiana

AU - Whetzel, Patricia L.

AU - White, Owen

AU - Yamasaki, Chisato

PY - 2011

Y1 - 2011

N2 - 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.

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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U2 - 10.1093/database/baq027

DO - 10.1093/database/baq027

M3 - Review article

C2 - 21205783

AN - SCOPUS:79953281853

SN - 1758-0463

VL - 2011

JO - Database

JF - Database

M1 - baq027

ER -

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

Abstract

Funding

ASJC Scopus subject areas

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