Tools and data services registry: A community effort to document bioinformatics resources

Jon Ison, Kristoffer Rapacki, Hervé Ménager, Matúš Kalaš, Emil Rydza, Piotr Chmura, Christian Anthon, Niall Beard, Karel Berka, Dan M. Bolser, Tim Booth, Anthony Bretaudeau, Jan Brezovsky, Rita Casadio, Gianni Cesareni, Frederik Coppens, Michael Cornell, Gianmauro Cuccuru, Kristian Davidsen, Gianluca Della VedovaTunca Dogan, Olivia Doppelt-Azeroual, Laura Emery, Elisabeth Gasteiger, Thomas Gatter, Tatyana Goldberg, Marie Grosjean, Björn Gruüing, Manuela Helmer-Citterich, Hans Ienasescu, Vassilios Ioannidis, Martin Closter Jespersen, Rafael C. Jimenez, Nick Juty, Peter Juvan, Maximilian Koch, Camille Laibe, Jing Woei Li, Luana Licata, Fabien Mareuil, Ivan Micětić, Rune Møllegaard Friborg, Sebastien Moretti, Chris Morris, Steffen Möller, Aleksandra Nenadic, Hedi Peterson, Giuseppe Profiti, Peter Rice, Paolo Romano, Paola Roncaglia, Rabie Saidi, Andrea Schafferhans, Veit Schwämmle, Callum Smith, Maria Maddalena Sperotto, Heinz Stockinger, Radka Svobodová Varěková, Silvio C E Tosatto, Victor De La Torre, Paolo Uva, Allegra Via, Guy Yachdav, Federico Zambelli, Gert Vriend, Burkhard Rost, Helen Parkinson, Peter Løngreen, S. Brunak

Research output: Contribution to journalArticle

Abstract

Life sciences are yielding huge data sets that underpin scientific discoveries fundamental to improvement in human health, agriculture and the environment. In support of these discoveries, a plethora of databases and tools are deployed, in technically complex and diverse implementations, across a spectrum of scientific disciplines. The corpus of documentation of these resources is fragmented across the Web, with much redundancy, and has lacked a common standard of information. The outcome is that scientists must often struggle to find, understand, compare and use the best resources for the task at hand. Here we present a community-driven curation effort, supported by ELIXIR-the European infrastructure for biological information-that aspires to a comprehensive and consistent registry of information about bioinformatics resources. The sustainable upkeep of this Tools and Data Services Registry is assured by a curation effort driven by and tailored to local needs, and shared amongst a network of engaged partners. As of November 2015, the registry includes 1785 resources, with depositions from 126 individual registrations including 52 institutional providers and 74 individuals. With community support, the registry can become a standard for dissemination of information about bioinformatics resources: we welcome everyone to join us in this common endeavour. The registry is freely available at https://bio.tools.

Original languageEnglish
Pages (from-to)D38-D47
JournalNucleic Acids Research
Volume44
Issue numberD1
DOIs
Publication statusPublished - 2016

Fingerprint

Computational Biology
Registries
Biological Science Disciplines
Information Dissemination
Agriculture
Documentation
Databases
Health

ASJC Scopus subject areas

  • Genetics

Cite this

Ison, J., Rapacki, K., Ménager, H., Kalaš, M., Rydza, E., Chmura, P., ... Brunak, S. (2016). Tools and data services registry: A community effort to document bioinformatics resources. Nucleic Acids Research, 44(D1), D38-D47. https://doi.org/10.1093/nar/gkv1116

Tools and data services registry : A community effort to document bioinformatics resources. / Ison, Jon; Rapacki, Kristoffer; Ménager, Hervé; Kalaš, Matúš; Rydza, Emil; Chmura, Piotr; Anthon, Christian; Beard, Niall; Berka, Karel; Bolser, Dan M.; Booth, Tim; Bretaudeau, Anthony; Brezovsky, Jan; Casadio, Rita; Cesareni, Gianni; Coppens, Frederik; Cornell, Michael; Cuccuru, Gianmauro; Davidsen, Kristian; Della Vedova, Gianluca; Dogan, Tunca; Doppelt-Azeroual, Olivia; Emery, Laura; Gasteiger, Elisabeth; Gatter, Thomas; Goldberg, Tatyana; Grosjean, Marie; Gruüing, Björn; Helmer-Citterich, Manuela; Ienasescu, Hans; Ioannidis, Vassilios; Jespersen, Martin Closter; Jimenez, Rafael C.; Juty, Nick; Juvan, Peter; Koch, Maximilian; Laibe, Camille; Li, Jing Woei; Licata, Luana; Mareuil, Fabien; Micětić, Ivan; Friborg, Rune Møllegaard; Moretti, Sebastien; Morris, Chris; Möller, Steffen; Nenadic, Aleksandra; Peterson, Hedi; Profiti, Giuseppe; Rice, Peter; Romano, Paolo; Roncaglia, Paola; Saidi, Rabie; Schafferhans, Andrea; Schwämmle, Veit; Smith, Callum; Sperotto, Maria Maddalena; Stockinger, Heinz; Varěková, Radka Svobodová; Tosatto, Silvio C E; De La Torre, Victor; Uva, Paolo; Via, Allegra; Yachdav, Guy; Zambelli, Federico; Vriend, Gert; Rost, Burkhard; Parkinson, Helen; Løngreen, Peter; Brunak, S.

In: Nucleic Acids Research, Vol. 44, No. D1, 2016, p. D38-D47.

Research output: Contribution to journalArticle

Ison, J, Rapacki, K, Ménager, H, Kalaš, M, Rydza, E, Chmura, P, Anthon, C, Beard, N, Berka, K, Bolser, DM, Booth, T, Bretaudeau, A, Brezovsky, J, Casadio, R, Cesareni, G, Coppens, F, Cornell, M, Cuccuru, G, Davidsen, K, Della Vedova, G, Dogan, T, Doppelt-Azeroual, O, Emery, L, Gasteiger, E, Gatter, T, Goldberg, T, Grosjean, M, Gruüing, B, Helmer-Citterich, M, Ienasescu, H, Ioannidis, V, Jespersen, MC, Jimenez, RC, Juty, N, Juvan, P, Koch, M, Laibe, C, Li, JW, Licata, L, Mareuil, F, Micětić, I, Friborg, RM, Moretti, S, Morris, C, Möller, S, Nenadic, A, Peterson, H, Profiti, G, Rice, P, Romano, P, Roncaglia, P, Saidi, R, Schafferhans, A, Schwämmle, V, Smith, C, Sperotto, MM, Stockinger, H, Varěková, RS, Tosatto, SCE, De La Torre, V, Uva, P, Via, A, Yachdav, G, Zambelli, F, Vriend, G, Rost, B, Parkinson, H, Løngreen, P & Brunak, S 2016, 'Tools and data services registry: A community effort to document bioinformatics resources', Nucleic Acids Research, vol. 44, no. D1, pp. D38-D47. https://doi.org/10.1093/nar/gkv1116
Ison, Jon ; Rapacki, Kristoffer ; Ménager, Hervé ; Kalaš, Matúš ; Rydza, Emil ; Chmura, Piotr ; Anthon, Christian ; Beard, Niall ; Berka, Karel ; Bolser, Dan M. ; Booth, Tim ; Bretaudeau, Anthony ; Brezovsky, Jan ; Casadio, Rita ; Cesareni, Gianni ; Coppens, Frederik ; Cornell, Michael ; Cuccuru, Gianmauro ; Davidsen, Kristian ; Della Vedova, Gianluca ; Dogan, Tunca ; Doppelt-Azeroual, Olivia ; Emery, Laura ; Gasteiger, Elisabeth ; Gatter, Thomas ; Goldberg, Tatyana ; Grosjean, Marie ; Gruüing, Björn ; Helmer-Citterich, Manuela ; Ienasescu, Hans ; Ioannidis, Vassilios ; Jespersen, Martin Closter ; Jimenez, Rafael C. ; Juty, Nick ; Juvan, Peter ; Koch, Maximilian ; Laibe, Camille ; Li, Jing Woei ; Licata, Luana ; Mareuil, Fabien ; Micětić, Ivan ; Friborg, Rune Møllegaard ; Moretti, Sebastien ; Morris, Chris ; Möller, Steffen ; Nenadic, Aleksandra ; Peterson, Hedi ; Profiti, Giuseppe ; Rice, Peter ; Romano, Paolo ; Roncaglia, Paola ; Saidi, Rabie ; Schafferhans, Andrea ; Schwämmle, Veit ; Smith, Callum ; Sperotto, Maria Maddalena ; Stockinger, Heinz ; Varěková, Radka Svobodová ; Tosatto, Silvio C E ; De La Torre, Victor ; Uva, Paolo ; Via, Allegra ; Yachdav, Guy ; Zambelli, Federico ; Vriend, Gert ; Rost, Burkhard ; Parkinson, Helen ; Løngreen, Peter ; Brunak, S. / Tools and data services registry : A community effort to document bioinformatics resources. In: Nucleic Acids Research. 2016 ; Vol. 44, No. D1. pp. D38-D47.
@article{77b08734f726476b84b9edc63681f10e,
title = "Tools and data services registry: A community effort to document bioinformatics resources",
abstract = "Life sciences are yielding huge data sets that underpin scientific discoveries fundamental to improvement in human health, agriculture and the environment. In support of these discoveries, a plethora of databases and tools are deployed, in technically complex and diverse implementations, across a spectrum of scientific disciplines. The corpus of documentation of these resources is fragmented across the Web, with much redundancy, and has lacked a common standard of information. The outcome is that scientists must often struggle to find, understand, compare and use the best resources for the task at hand. Here we present a community-driven curation effort, supported by ELIXIR-the European infrastructure for biological information-that aspires to a comprehensive and consistent registry of information about bioinformatics resources. The sustainable upkeep of this Tools and Data Services Registry is assured by a curation effort driven by and tailored to local needs, and shared amongst a network of engaged partners. As of November 2015, the registry includes 1785 resources, with depositions from 126 individual registrations including 52 institutional providers and 74 individuals. With community support, the registry can become a standard for dissemination of information about bioinformatics resources: we welcome everyone to join us in this common endeavour. The registry is freely available at https://bio.tools.",
author = "Jon Ison and Kristoffer Rapacki and Herv{\'e} M{\'e}nager and Mat{\'u}š Kalaš and Emil Rydza and Piotr Chmura and Christian Anthon and Niall Beard and Karel Berka and Bolser, {Dan M.} and Tim Booth and Anthony Bretaudeau and Jan Brezovsky and Rita Casadio and Gianni Cesareni and Frederik Coppens and Michael Cornell and Gianmauro Cuccuru and Kristian Davidsen and {Della Vedova}, Gianluca and Tunca Dogan and Olivia Doppelt-Azeroual and Laura Emery and Elisabeth Gasteiger and Thomas Gatter and Tatyana Goldberg and Marie Grosjean and Bj{\"o}rn Gru{\"u}ing and Manuela Helmer-Citterich and Hans Ienasescu and Vassilios Ioannidis and Jespersen, {Martin Closter} and Jimenez, {Rafael C.} and Nick Juty and Peter Juvan and Maximilian Koch and Camille Laibe and Li, {Jing Woei} and Luana Licata and Fabien Mareuil and Ivan Micětić and Friborg, {Rune M{\o}llegaard} and Sebastien Moretti and Chris Morris and Steffen M{\"o}ller and Aleksandra Nenadic and Hedi Peterson and Giuseppe Profiti and Peter Rice and Paolo Romano and Paola Roncaglia and Rabie Saidi and Andrea Schafferhans and Veit Schw{\"a}mmle and Callum Smith and Sperotto, {Maria Maddalena} and Heinz Stockinger and Varěkov{\'a}, {Radka Svobodov{\'a}} and Tosatto, {Silvio C E} and {De La Torre}, Victor and Paolo Uva and Allegra Via and Guy Yachdav and Federico Zambelli and Gert Vriend and Burkhard Rost and Helen Parkinson and Peter L{\o}ngreen and S. Brunak",
year = "2016",
doi = "10.1093/nar/gkv1116",
language = "English",
volume = "44",
pages = "D38--D47",
journal = "Nucleic Acids Research",
issn = "0305-1048",
publisher = ". This work is written by (a) US Government employee(s) and is in the public domain in the US",
number = "D1",

}

TY - JOUR

T1 - Tools and data services registry

T2 - A community effort to document bioinformatics resources

AU - Ison, Jon

AU - Rapacki, Kristoffer

AU - Ménager, Hervé

AU - Kalaš, Matúš

AU - Rydza, Emil

AU - Chmura, Piotr

AU - Anthon, Christian

AU - Beard, Niall

AU - Berka, Karel

AU - Bolser, Dan M.

AU - Booth, Tim

AU - Bretaudeau, Anthony

AU - Brezovsky, Jan

AU - Casadio, Rita

AU - Cesareni, Gianni

AU - Coppens, Frederik

AU - Cornell, Michael

AU - Cuccuru, Gianmauro

AU - Davidsen, Kristian

AU - Della Vedova, Gianluca

AU - Dogan, Tunca

AU - Doppelt-Azeroual, Olivia

AU - Emery, Laura

AU - Gasteiger, Elisabeth

AU - Gatter, Thomas

AU - Goldberg, Tatyana

AU - Grosjean, Marie

AU - Gruüing, Björn

AU - Helmer-Citterich, Manuela

AU - Ienasescu, Hans

AU - Ioannidis, Vassilios

AU - Jespersen, Martin Closter

AU - Jimenez, Rafael C.

AU - Juty, Nick

AU - Juvan, Peter

AU - Koch, Maximilian

AU - Laibe, Camille

AU - Li, Jing Woei

AU - Licata, Luana

AU - Mareuil, Fabien

AU - Micětić, Ivan

AU - Friborg, Rune Møllegaard

AU - Moretti, Sebastien

AU - Morris, Chris

AU - Möller, Steffen

AU - Nenadic, Aleksandra

AU - Peterson, Hedi

AU - Profiti, Giuseppe

AU - Rice, Peter

AU - Romano, Paolo

AU - Roncaglia, Paola

AU - Saidi, Rabie

AU - Schafferhans, Andrea

AU - Schwämmle, Veit

AU - Smith, Callum

AU - Sperotto, Maria Maddalena

AU - Stockinger, Heinz

AU - Varěková, Radka Svobodová

AU - Tosatto, Silvio C E

AU - De La Torre, Victor

AU - Uva, Paolo

AU - Via, Allegra

AU - Yachdav, Guy

AU - Zambelli, Federico

AU - Vriend, Gert

AU - Rost, Burkhard

AU - Parkinson, Helen

AU - Løngreen, Peter

AU - Brunak, S.

PY - 2016

Y1 - 2016

N2 - Life sciences are yielding huge data sets that underpin scientific discoveries fundamental to improvement in human health, agriculture and the environment. In support of these discoveries, a plethora of databases and tools are deployed, in technically complex and diverse implementations, across a spectrum of scientific disciplines. The corpus of documentation of these resources is fragmented across the Web, with much redundancy, and has lacked a common standard of information. The outcome is that scientists must often struggle to find, understand, compare and use the best resources for the task at hand. Here we present a community-driven curation effort, supported by ELIXIR-the European infrastructure for biological information-that aspires to a comprehensive and consistent registry of information about bioinformatics resources. The sustainable upkeep of this Tools and Data Services Registry is assured by a curation effort driven by and tailored to local needs, and shared amongst a network of engaged partners. As of November 2015, the registry includes 1785 resources, with depositions from 126 individual registrations including 52 institutional providers and 74 individuals. With community support, the registry can become a standard for dissemination of information about bioinformatics resources: we welcome everyone to join us in this common endeavour. The registry is freely available at https://bio.tools.

AB - Life sciences are yielding huge data sets that underpin scientific discoveries fundamental to improvement in human health, agriculture and the environment. In support of these discoveries, a plethora of databases and tools are deployed, in technically complex and diverse implementations, across a spectrum of scientific disciplines. The corpus of documentation of these resources is fragmented across the Web, with much redundancy, and has lacked a common standard of information. The outcome is that scientists must often struggle to find, understand, compare and use the best resources for the task at hand. Here we present a community-driven curation effort, supported by ELIXIR-the European infrastructure for biological information-that aspires to a comprehensive and consistent registry of information about bioinformatics resources. The sustainable upkeep of this Tools and Data Services Registry is assured by a curation effort driven by and tailored to local needs, and shared amongst a network of engaged partners. As of November 2015, the registry includes 1785 resources, with depositions from 126 individual registrations including 52 institutional providers and 74 individuals. With community support, the registry can become a standard for dissemination of information about bioinformatics resources: we welcome everyone to join us in this common endeavour. The registry is freely available at https://bio.tools.

UR - http://www.scopus.com/inward/record.url?scp=84976872277&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84976872277&partnerID=8YFLogxK

U2 - 10.1093/nar/gkv1116

DO - 10.1093/nar/gkv1116

M3 - Article

VL - 44

SP - D38-D47

JO - Nucleic Acids Research

JF - Nucleic Acids Research

SN - 0305-1048

IS - D1

ER -