BioMart Central Portal: An open database network for the biological community

Jonathan M. Guberman; J. Ai; O. Arnaiz; Joachim Baran; Andrew Blake; Richard Baldock; Claude Chelala; David Croft; Anthony Cros; Rosalind J. Cutts; A. Di Génova; Simon Forbes; T. Fujisawa; E. Gadaleta; D. M. Goodstein; Gunes Gundem; Bernard Haggarty; Syed Haider; Matthew Hall; Todd Harris; Robin Haw; S. Hu; Simon Hubbard; Jack Hsu; Vivek Iyer; Philip Jones; Toshiaki Katayama; R. Kinsella; Lei Kong; Daniel Lawson; Yong Liang; Nuria Lopez-Bigas; J. Luo; Michael Lush; Jeremy Mason; Francois Moreews; Nelson Ndegwa; Darren Oakley; Christian Perez-Llamas; Michael Primig; Elena Rivkin; S. Rosanoff; Rebecca Shepherd; Reinhard Simon; B. Skarnes; Damian Smedley; Linda Sperling; William Spooner; Peter Stevenson; Kevin Stone; J. Teague; Jun Wang; Jianxin Wang; Brett Whitty; D. T. Wong; Marie Wong-Erasmus; L. Yao; Ken Youens-Clark; Christina Yung; Junjun Zhang; Arek Kasprzyk

doi:10.1093/database/bar041

BioMart Central Portal: An open database network for the biological community

Jonathan M. Guberman, J. Ai, O. Arnaiz, Joachim Baran, Andrew Blake, Richard Baldock, Claude Chelala, David Croft, Anthony Cros, Rosalind J. Cutts, A. Di Génova, Simon Forbes, T. Fujisawa, E. Gadaleta, D. M. Goodstein, Gunes Gundem, Bernard Haggarty, Syed Haider, Matthew Hall, Todd HarrisRobin Haw, S. Hu, Simon Hubbard, Jack Hsu, Vivek Iyer, Philip Jones, Toshiaki Katayama, R. Kinsella, Lei Kong, Daniel Lawson, Yong Liang, Nuria Lopez-Bigas, J. Luo, Michael Lush, Jeremy Mason, Francois Moreews, Nelson Ndegwa, Darren Oakley, Christian Perez-Llamas, Michael Primig, Elena Rivkin, S. Rosanoff, Rebecca Shepherd, Reinhard Simon, B. Skarnes, Damian Smedley, Linda Sperling, William Spooner, Peter Stevenson, Kevin Stone, J. Teague, Jun Wang, Jianxin Wang, Brett Whitty, D. T. Wong, Marie Wong-Erasmus, L. Yao, Ken Youens-Clark, Christina Yung, Junjun Zhang, Arek Kasprzyk

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

Abstract

BioMart Central Portal is a first of its kind, community-driven effort to provide unified access to dozens of biological databases spanning genomics, proteomics, model organisms, cancer data, ontology information and more. Anybody can contribute an independently maintained resource to the Central Portal, allowing it to be exposed to and shared with the research community, and linking it with the other resources in the portal. Users can take advantage of the common interface to quickly utilize different sources without learning a new system for each. The system also simplifies cross-database searches that might otherwise require several complicated steps. Several integrated tools streamline common tasks, such as converting between ID formats and retrieving sequences. The combination of a wide variety of databases, an easy-to-use interface, robust programmatic access and the array of tools make Central Portal a one-stop shop for biological data querying. Here, we describe the structure of Central Portal and show example queries to demonstrate its capabilities. Database URL: http://central.biomart.org. © The Author(s) 2011.

Original language	English
Article number	bar041
Journal	Database
Volume	2011
DOIs	https://doi.org/10.1093/database/bar041
Publication status	Published - 2011

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

Access to Document

10.1093/database/bar041

Cite this

Guberman, J. M., Ai, J., Arnaiz, O., Baran, J., Blake, A., Baldock, R., Chelala, C., Croft, D., Cros, A., Cutts, R. J., Di Génova, A., Forbes, S., Fujisawa, T., Gadaleta, E., Goodstein, D. M., Gundem, G., Haggarty, B., Haider, S., Hall, M., ... Kasprzyk, A. (2011). BioMart Central Portal: An open database network for the biological community. Database, 2011, Article bar041. https://doi.org/10.1093/database/bar041

@article{cfd258d241df46f681b6e9730b515245,

title = "BioMart Central Portal: An open database network for the biological community",

abstract = "BioMart Central Portal is a first of its kind, community-driven effort to provide unified access to dozens of biological databases spanning genomics, proteomics, model organisms, cancer data, ontology information and more. Anybody can contribute an independently maintained resource to the Central Portal, allowing it to be exposed to and shared with the research community, and linking it with the other resources in the portal. Users can take advantage of the common interface to quickly utilize different sources without learning a new system for each. The system also simplifies cross-database searches that might otherwise require several complicated steps. Several integrated tools streamline common tasks, such as converting between ID formats and retrieving sequences. The combination of a wide variety of databases, an easy-to-use interface, robust programmatic access and the array of tools make Central Portal a one-stop shop for biological data querying. Here, we describe the structure of Central Portal and show example queries to demonstrate its capabilities. Database URL: http://central.biomart.org. {\textcopyright} The Author(s) 2011.",

author = "Guberman, {Jonathan M.} and J. Ai and O. Arnaiz and Joachim Baran and Andrew Blake and Richard Baldock and Claude Chelala and David Croft and Anthony Cros and Cutts, {Rosalind J.} and {Di G{\'e}nova}, A. and Simon Forbes and T. Fujisawa and E. Gadaleta and Goodstein, {D. M.} and Gunes Gundem and Bernard Haggarty and Syed Haider and Matthew Hall and Todd Harris and Robin Haw and S. Hu and Simon Hubbard and Jack Hsu and Vivek Iyer and Philip Jones and Toshiaki Katayama and R. Kinsella and Lei Kong and Daniel Lawson and Yong Liang and Nuria Lopez-Bigas and J. Luo and Michael Lush and Jeremy Mason and Francois Moreews and Nelson Ndegwa and Darren Oakley and Christian Perez-Llamas and Michael Primig and Elena Rivkin and S. Rosanoff and Rebecca Shepherd and Reinhard Simon and B. Skarnes and Damian Smedley and Linda Sperling and William Spooner and Peter Stevenson and Kevin Stone and J. Teague and Jun Wang and Jianxin Wang and Brett Whitty and Wong, {D. T.} and Marie Wong-Erasmus and L. Yao and Ken Youens-Clark and Christina Yung and Junjun Zhang and Arek Kasprzyk",

note = "095908, Wellcome Trust, United KingdomMC_U127527203, Medical Research Council, United Kingdom",

year = "2011",

doi = "10.1093/database/bar041",

language = "English",

volume = "2011",

journal = "Database",

issn = "1758-0463",

publisher = "Oxford University Press",

}

Guberman, JM, Ai, J, Arnaiz, O, Baran, J, Blake, A, Baldock, R, Chelala, C, Croft, D, Cros, A, Cutts, RJ, Di Génova, A, Forbes, S, Fujisawa, T, Gadaleta, E, Goodstein, DM, Gundem, G, Haggarty, B, Haider, S, Hall, M, Harris, T, Haw, R, Hu, S, Hubbard, S, Hsu, J, Iyer, V, Jones, P, Katayama, T, Kinsella, R, Kong, L, Lawson, D, Liang, Y, Lopez-Bigas, N, Luo, J, Lush, M, Mason, J, Moreews, F, Ndegwa, N, Oakley, D, Perez-Llamas, C, Primig, M, Rivkin, E, Rosanoff, S, Shepherd, R, Simon, R, Skarnes, B, Smedley, D, Sperling, L, Spooner, W, Stevenson, P, Stone, K, Teague, J, Wang, J, Wang, J, Whitty, B, Wong, DT, Wong-Erasmus, M, Yao, L, Youens-Clark, K, Yung, C, Zhang, J & Kasprzyk, A 2011, 'BioMart Central Portal: An open database network for the biological community', Database, vol. 2011, bar041. https://doi.org/10.1093/database/bar041

TY - JOUR

T1 - BioMart Central Portal: An open database network for the biological community

AU - Guberman, Jonathan M.

AU - Ai, J.

AU - Arnaiz, O.

AU - Baran, Joachim

AU - Blake, Andrew

AU - Baldock, Richard

AU - Chelala, Claude

AU - Croft, David

AU - Cros, Anthony

AU - Cutts, Rosalind J.

AU - Di Génova, A.

AU - Forbes, Simon

AU - Fujisawa, T.

AU - Gadaleta, E.

AU - Goodstein, D. M.

AU - Gundem, Gunes

AU - Haggarty, Bernard

AU - Haider, Syed

AU - Hall, Matthew

AU - Harris, Todd

AU - Haw, Robin

AU - Hu, S.

AU - Hubbard, Simon

AU - Hsu, Jack

AU - Iyer, Vivek

AU - Jones, Philip

AU - Katayama, Toshiaki

AU - Kinsella, R.

AU - Kong, Lei

AU - Lawson, Daniel

AU - Liang, Yong

AU - Lopez-Bigas, Nuria

AU - Luo, J.

AU - Lush, Michael

AU - Mason, Jeremy

AU - Moreews, Francois

AU - Ndegwa, Nelson

AU - Oakley, Darren

AU - Perez-Llamas, Christian

AU - Primig, Michael

AU - Rivkin, Elena

AU - Rosanoff, S.

AU - Shepherd, Rebecca

AU - Simon, Reinhard

AU - Skarnes, B.

AU - Smedley, Damian

AU - Sperling, Linda

AU - Spooner, William

AU - Stevenson, Peter

AU - Stone, Kevin

AU - Teague, J.

AU - Wang, Jun

AU - Wang, Jianxin

AU - Whitty, Brett

AU - Wong, D. T.

AU - Wong-Erasmus, Marie

AU - Yao, L.

AU - Youens-Clark, Ken

AU - Yung, Christina

AU - Zhang, Junjun

AU - Kasprzyk, Arek

N1 - 095908, Wellcome Trust, United KingdomMC_U127527203, Medical Research Council, United Kingdom

PY - 2011

Y1 - 2011

N2 - BioMart Central Portal is a first of its kind, community-driven effort to provide unified access to dozens of biological databases spanning genomics, proteomics, model organisms, cancer data, ontology information and more. Anybody can contribute an independently maintained resource to the Central Portal, allowing it to be exposed to and shared with the research community, and linking it with the other resources in the portal. Users can take advantage of the common interface to quickly utilize different sources without learning a new system for each. The system also simplifies cross-database searches that might otherwise require several complicated steps. Several integrated tools streamline common tasks, such as converting between ID formats and retrieving sequences. The combination of a wide variety of databases, an easy-to-use interface, robust programmatic access and the array of tools make Central Portal a one-stop shop for biological data querying. Here, we describe the structure of Central Portal and show example queries to demonstrate its capabilities. Database URL: http://central.biomart.org. © The Author(s) 2011.

AB - BioMart Central Portal is a first of its kind, community-driven effort to provide unified access to dozens of biological databases spanning genomics, proteomics, model organisms, cancer data, ontology information and more. Anybody can contribute an independently maintained resource to the Central Portal, allowing it to be exposed to and shared with the research community, and linking it with the other resources in the portal. Users can take advantage of the common interface to quickly utilize different sources without learning a new system for each. The system also simplifies cross-database searches that might otherwise require several complicated steps. Several integrated tools streamline common tasks, such as converting between ID formats and retrieving sequences. The combination of a wide variety of databases, an easy-to-use interface, robust programmatic access and the array of tools make Central Portal a one-stop shop for biological data querying. Here, we describe the structure of Central Portal and show example queries to demonstrate its capabilities. Database URL: http://central.biomart.org. © The Author(s) 2011.

U2 - 10.1093/database/bar041

DO - 10.1093/database/bar041

M3 - Article

C2 - 21930507

SN - 1758-0463

VL - 2011

JO - Database

JF - Database

M1 - bar041

ER -

BioMart Central Portal: An open database network for the biological community

Abstract

UN SDGs

Access to Document

Fingerprint

Cite this