MobiDB: Intrinsically disordered proteins in 2021

Autores
Piovesan, Damiano; Necci, Marco; Escobedo, Nahuel Abel; Monzon, Alexander Miguel; Viczián, András; Mičetić, Ivan; Quaglia, Federica; Paladin, Lisanna; Ramasamy, Pathmanaban; Dosztányi, Zsuzsanna; Vranken, Wim F.; Davey, Norman E.; Parisi, Gustavo Daniel; Fuxreiter, Monika; Tosatto, Silvio C. E.
Año de publicación
2021
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
The MobiDB database (URL: https://mobidb.org/) provides predictions and annotations for intrinsically disordered proteins. Here, we report recent developments implemented in MobiDB version 4, regarding the database format, with novel types of annotations and an improved update process. The new website includes a re-designed user interface, a more effective search engine and advanced API for programmatic access. The new database schema gives more flexibility for the users, as well as simplifying the maintenance and updates. In addition, the new entry page provides more visualisation tools including customizable feature viewer and graphs of the residue contact maps. MobiDB v4 annotates the binding modes of disordered proteins, whether they undergo disorder-to-order transitions or remain disordered in the bound state. In addition, disordered regions undergoing liquid-liquid phase separation or post-translational modifications are defined. The integrated information is presented in a simplified interface, which enables faster searches and allows large customized datasets to be downloaded in TSV, Fasta or JSON formats. An alternative advanced interface allows users to drill deeper into features of interest. A new statistics page provides information at database and proteome levels. The new MobiDB version presents state-of-the-art knowledge on disordered proteins and improves data accessibility for both computational and experimental users.
Fil: Piovesan, Damiano. Università di Padova; Italia
Fil: Necci, Marco. Università di Padova; Italia
Fil: Escobedo, Nahuel Abel. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología; Argentina
Fil: Monzon, Alexander Miguel. Università di Padova; Italia
Fil: Viczián, András. Università di Padova; Italia
Fil: Mičetić, Ivan. Università di Padova; Italia
Fil: Quaglia, Federica. Università di Padova; Italia
Fil: Paladin, Lisanna. Università di Padova; Italia
Fil: Ramasamy, Pathmanaban. Vrije Unviversiteit Brussel; Bélgica. University of Ghent; Bélgica. Interuniversity Institute of Bioinformatics in Brussels; Bélgica
Fil: Dosztányi, Zsuzsanna. Eötvös Loránd University; Hungría
Fil: Vranken, Wim F.. Vrije Unviversiteit Brussel; Bélgica. Interuniversity Institute of Bioinformatics in Brussels; Bélgica
Fil: Davey, Norman E.. The Institute Of Cancer Research; Reino Unido
Fil: Parisi, Gustavo Daniel. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología; Argentina
Fil: Fuxreiter, Monika. Università di Padova; Italia
Fil: Tosatto, Silvio C. E.. Università di Padova; Italia
Materia
DISORDER
Database
Prediction
UNIPROT
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/172503
Acceder
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oai_identifier_str oai:ri.conicet.gov.ar:11336/172503
network_acronym_str CONICETDig
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network_name_str CONICET Digital (CONICET)
spelling MobiDB: Intrinsically disordered proteins in 2021Piovesan, DamianoNecci, MarcoEscobedo, Nahuel AbelMonzon, Alexander MiguelViczián, AndrásMičetić, IvanQuaglia, FedericaPaladin, LisannaRamasamy, PathmanabanDosztányi, ZsuzsannaVranken, Wim F.Davey, Norman E.Parisi, Gustavo DanielFuxreiter, MonikaTosatto, Silvio C. E.DISORDERDatabasePredictionUNIPROThttps://purl.org/becyt/ford/1.7https://purl.org/becyt/ford/1The MobiDB database (URL: https://mobidb.org/) provides predictions and annotations for intrinsically disordered proteins. Here, we report recent developments implemented in MobiDB version 4, regarding the database format, with novel types of annotations and an improved update process. The new website includes a re-designed user interface, a more effective search engine and advanced API for programmatic access. The new database schema gives more flexibility for the users, as well as simplifying the maintenance and updates. In addition, the new entry page provides more visualisation tools including customizable feature viewer and graphs of the residue contact maps. MobiDB v4 annotates the binding modes of disordered proteins, whether they undergo disorder-to-order transitions or remain disordered in the bound state. In addition, disordered regions undergoing liquid-liquid phase separation or post-translational modifications are defined. The integrated information is presented in a simplified interface, which enables faster searches and allows large customized datasets to be downloaded in TSV, Fasta or JSON formats. An alternative advanced interface allows users to drill deeper into features of interest. A new statistics page provides information at database and proteome levels. The new MobiDB version presents state-of-the-art knowledge on disordered proteins and improves data accessibility for both computational and experimental users.Fil: Piovesan, Damiano. Università di Padova; ItaliaFil: Necci, Marco. Università di Padova; ItaliaFil: Escobedo, Nahuel Abel. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología; ArgentinaFil: Monzon, Alexander Miguel. Università di Padova; ItaliaFil: Viczián, András. Università di Padova; ItaliaFil: Mičetić, Ivan. Università di Padova; ItaliaFil: Quaglia, Federica. Università di Padova; ItaliaFil: Paladin, Lisanna. Università di Padova; ItaliaFil: Ramasamy, Pathmanaban. Vrije Unviversiteit Brussel; Bélgica. University of Ghent; Bélgica. Interuniversity Institute of Bioinformatics in Brussels; BélgicaFil: Dosztányi, Zsuzsanna. Eötvös Loránd University; HungríaFil: Vranken, Wim F.. Vrije Unviversiteit Brussel; Bélgica. Interuniversity Institute of Bioinformatics in Brussels; BélgicaFil: Davey, Norman E.. The Institute Of Cancer Research; Reino UnidoFil: Parisi, Gustavo Daniel. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología; ArgentinaFil: Fuxreiter, Monika. Università di Padova; ItaliaFil: Tosatto, Silvio C. E.. Università di Padova; ItaliaOxford University Press2021-01info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/172503Piovesan, Damiano; Necci, Marco; Escobedo, Nahuel Abel; Monzon, Alexander Miguel; Viczián, András; et al.; MobiDB: Intrinsically disordered proteins in 2021; Oxford University Press; Nucleic Acids Research; 49; D1; 1-2021; 361-3670305-10481362-4962CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkaa1058/6006190info:eu-repo/semantics/altIdentifier/doi/10.1093/nar/gkaa1058info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-03T09:44:39Zoai:ri.conicet.gov.ar:11336/172503instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-09-03 09:44:39.293CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv MobiDB: Intrinsically disordered proteins in 2021
title MobiDB: Intrinsically disordered proteins in 2021
spellingShingle MobiDB: Intrinsically disordered proteins in 2021
Piovesan, Damiano
DISORDER
Database
Prediction
UNIPROT
title_short MobiDB: Intrinsically disordered proteins in 2021
title_full MobiDB: Intrinsically disordered proteins in 2021
title_fullStr MobiDB: Intrinsically disordered proteins in 2021
title_full_unstemmed MobiDB: Intrinsically disordered proteins in 2021
title_sort MobiDB: Intrinsically disordered proteins in 2021
dc.creator.none.fl_str_mv Piovesan, Damiano
Necci, Marco
Escobedo, Nahuel Abel
Monzon, Alexander Miguel
Viczián, András
Mičetić, Ivan
Quaglia, Federica
Paladin, Lisanna
Ramasamy, Pathmanaban
Dosztányi, Zsuzsanna
Vranken, Wim F.
Davey, Norman E.
Parisi, Gustavo Daniel
Fuxreiter, Monika
Tosatto, Silvio C. E.
author Piovesan, Damiano
author_facet Piovesan, Damiano
Necci, Marco
Escobedo, Nahuel Abel
Monzon, Alexander Miguel
Viczián, András
Mičetić, Ivan
Quaglia, Federica
Paladin, Lisanna
Ramasamy, Pathmanaban
Dosztányi, Zsuzsanna
Vranken, Wim F.
Davey, Norman E.
Parisi, Gustavo Daniel
Fuxreiter, Monika
Tosatto, Silvio C. E.
author_role author
author2 Necci, Marco
Escobedo, Nahuel Abel
Monzon, Alexander Miguel
Viczián, András
Mičetić, Ivan
Quaglia, Federica
Paladin, Lisanna
Ramasamy, Pathmanaban
Dosztányi, Zsuzsanna
Vranken, Wim F.
Davey, Norman E.
Parisi, Gustavo Daniel
Fuxreiter, Monika
Tosatto, Silvio C. E.
author2_role author
author
author
author
author
author
author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv DISORDER
Database
Prediction
UNIPROT
topic DISORDER
Database
Prediction
UNIPROT
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.7
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv The MobiDB database (URL: https://mobidb.org/) provides predictions and annotations for intrinsically disordered proteins. Here, we report recent developments implemented in MobiDB version 4, regarding the database format, with novel types of annotations and an improved update process. The new website includes a re-designed user interface, a more effective search engine and advanced API for programmatic access. The new database schema gives more flexibility for the users, as well as simplifying the maintenance and updates. In addition, the new entry page provides more visualisation tools including customizable feature viewer and graphs of the residue contact maps. MobiDB v4 annotates the binding modes of disordered proteins, whether they undergo disorder-to-order transitions or remain disordered in the bound state. In addition, disordered regions undergoing liquid-liquid phase separation or post-translational modifications are defined. The integrated information is presented in a simplified interface, which enables faster searches and allows large customized datasets to be downloaded in TSV, Fasta or JSON formats. An alternative advanced interface allows users to drill deeper into features of interest. A new statistics page provides information at database and proteome levels. The new MobiDB version presents state-of-the-art knowledge on disordered proteins and improves data accessibility for both computational and experimental users.
Fil: Piovesan, Damiano. Università di Padova; Italia
Fil: Necci, Marco. Università di Padova; Italia
Fil: Escobedo, Nahuel Abel. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología; Argentina
Fil: Monzon, Alexander Miguel. Università di Padova; Italia
Fil: Viczián, András. Università di Padova; Italia
Fil: Mičetić, Ivan. Università di Padova; Italia
Fil: Quaglia, Federica. Università di Padova; Italia
Fil: Paladin, Lisanna. Università di Padova; Italia
Fil: Ramasamy, Pathmanaban. Vrije Unviversiteit Brussel; Bélgica. University of Ghent; Bélgica. Interuniversity Institute of Bioinformatics in Brussels; Bélgica
Fil: Dosztányi, Zsuzsanna. Eötvös Loránd University; Hungría
Fil: Vranken, Wim F.. Vrije Unviversiteit Brussel; Bélgica. Interuniversity Institute of Bioinformatics in Brussels; Bélgica
Fil: Davey, Norman E.. The Institute Of Cancer Research; Reino Unido
Fil: Parisi, Gustavo Daniel. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología; Argentina
Fil: Fuxreiter, Monika. Università di Padova; Italia
Fil: Tosatto, Silvio C. E.. Università di Padova; Italia
description The MobiDB database (URL: https://mobidb.org/) provides predictions and annotations for intrinsically disordered proteins. Here, we report recent developments implemented in MobiDB version 4, regarding the database format, with novel types of annotations and an improved update process. The new website includes a re-designed user interface, a more effective search engine and advanced API for programmatic access. The new database schema gives more flexibility for the users, as well as simplifying the maintenance and updates. In addition, the new entry page provides more visualisation tools including customizable feature viewer and graphs of the residue contact maps. MobiDB v4 annotates the binding modes of disordered proteins, whether they undergo disorder-to-order transitions or remain disordered in the bound state. In addition, disordered regions undergoing liquid-liquid phase separation or post-translational modifications are defined. The integrated information is presented in a simplified interface, which enables faster searches and allows large customized datasets to be downloaded in TSV, Fasta or JSON formats. An alternative advanced interface allows users to drill deeper into features of interest. A new statistics page provides information at database and proteome levels. The new MobiDB version presents state-of-the-art knowledge on disordered proteins and improves data accessibility for both computational and experimental users.
publishDate 2021
dc.date.none.fl_str_mv 2021-01
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/172503
Piovesan, Damiano; Necci, Marco; Escobedo, Nahuel Abel; Monzon, Alexander Miguel; Viczián, András; et al.; MobiDB: Intrinsically disordered proteins in 2021; Oxford University Press; Nucleic Acids Research; 49; D1; 1-2021; 361-367
0305-1048
1362-4962
CONICET Digital
CONICET
url http://hdl.handle.net/11336/172503
identifier_str_mv Piovesan, Damiano; Necci, Marco; Escobedo, Nahuel Abel; Monzon, Alexander Miguel; Viczián, András; et al.; MobiDB: Intrinsically disordered proteins in 2021; Oxford University Press; Nucleic Acids Research; 49; D1; 1-2021; 361-367
0305-1048
1362-4962
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/url/https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkaa1058/6006190
info:eu-repo/semantics/altIdentifier/doi/10.1093/nar/gkaa1058
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv Oxford University Press
publisher.none.fl_str_mv Oxford University Press
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
collection CONICET Digital (CONICET)
instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
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score 13.13397

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