psygenet2r: a R/Bioconductor package for the analysis of psychiatric disease genes

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  • dc.contributor.author Gutiérrez Sacristán, Albaca
  • dc.contributor.author Hernández Ferrer, Carlesca
  • dc.contributor.author González, Juan Ramónca
  • dc.contributor.author Furlong, Laura I., 1971-ca
  • dc.date.accessioned 2018-04-10T07:13:12Z
  • dc.date.available 2018-04-10T07:13:12Z
  • dc.date.issued 2017
  • dc.description.abstract MOTIVATION: Psychiatric disorders have a great impact on morbidity and mortality. Genotype-phenotype resources for psychiatric diseases are key to enable the translation of research findings to a better care of patients. PsyGeNET is a knowledge resource on psychiatric diseases and their genes, developed by text mining and curated by domain experts. RESULTS: We present psygenet2r, an R package that contains a variety of functions for leveraging PsyGeNET database and facilitating its analysis and interpretation. The package offers different types of queries to the database along with variety of analysis and visualization tools, including the study of the anatomical structures in which the genes are expressed and gaining insight of gene's molecular function. Psygenet2r is especially suited for network medicine analysis of psychiatric disorders. AVAILABILITY AND IMPLEMENTATION: The package is implemented in R and is available under MIT license from Bioconductor (http://bioconductor.org/packages/release/bioc/html/psygenet2r.html).
  • dc.description.sponsorship This work was supported by ISCIII-FEDER [PI13/00082, CP10/00524, CPII16/00026], MICINN [MTM2015-68140-R], IMI-JU under grants agreements no. 115191 (Open PHACTS), no. 115372 (EMIF), no. 115735 (iPiE), resources of which are composed of financial contribution from the EU-FP7 [FP7/2007–2013] and EFPIA companies in kind contribution, and the EU H2020 Programme 2014–2020 under grant agreements no. 634143 (MedBioinformatics) and no. 676559 (Elixir-Excelerate). The Research Programme on Biomedical Informatics (GRIB) is a member of ELIXIR-ES and the Spanish National Bioinformatics Institute (INB), PRB2-ISCIII and is supported by grant PT13/0001/0023, of the PE I + D+i 2013-2016, funded by ISCIII and FEDER. A.G.S. acknowledges financial support from the Spanish Ministry of Economy and Competitiveness, through the ‘María de Maeztu’ Programme for Units of Excellence in R&D [MDM-2014-0370].
  • dc.format.mimetype application/pdf
  • dc.identifier.citation Gutiérrez-Sacristán A, Hernández-Ferrer C, González JR, Furlong LI. psygenet2r: a R/Bioconductor package for the analysis of psychiatric disease genes. Bioinformatics. 2017 Dec 15;33(24):4004-6. DOI: 10.1093/bioinformatics/btx506
  • dc.identifier.doi http://dx.doi.org/10.1093/bioinformatics/btx506
  • dc.identifier.issn 1367-4803
  • dc.identifier.uri http://hdl.handle.net/10230/34328
  • dc.language.iso eng
  • dc.publisher Oxford University Pressca
  • dc.relation.ispartof Bioinformatics. 2017 Dec 15;33(24):4004-6
  • dc.relation.projectID info:eu-repo/grantAgreement/EC/FP7/115372
  • dc.relation.projectID info:eu-repo/grantAgreement/EC/FP7/115735
  • dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/634143
  • dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/676559
  • dc.rights © The Author 2017. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
  • dc.rights.accessRights info:eu-repo/semantics/openAccess
  • dc.rights.uri http://creativecommons.org/licenses/by/4.0/
  • dc.subject.other Malalties mentals -- Genètica
  • dc.subject.other Malalties mentals -- Genètica
  • dc.subject.other Psiquiatria
  • dc.subject.other Genotip
  • dc.subject.other Fenotip
  • dc.title psygenet2r: a R/Bioconductor package for the analysis of psychiatric disease genesca
  • dc.type info:eu-repo/semantics/article
  • dc.type.version info:eu-repo/semantics/acceptedVersion

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