psygenet2r statistics

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Associated diseases

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psygenet2r specifications

Information


Unique identifier OMICS_19989
Name psygenet2r
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Mac OS, Windows
Programming languages R
License MIT License
Computer skills Advanced
Version 1.12.0
Stability Stable
Requirements
parallel, grid, Biobase, testthat, ggplot2, biomaRt, knitr, reshape2, BiocInstaller, GO.db, RCurl, topGO, stringr, igraph, R(>=3.4), BgeeDB, labeling
Maintained Yes

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Documentation


Maintainers


  • person_outline Juan R. González <>
  • person_outline Laura Furlong <>
  • person_outline Alba Gutierrez-Sacristan <>

Additional information


http://www.psygenet.org/web/PsyGeNET/menu/Rpackage;jsessionid=1gw09bmsj6z2zhamkjoulgrqx

Publication for psygenet2r

psygenet2r in publication

PMCID: 5801341
PMID: 29435496
DOI: 10.1128/mSystems.00219-17

[…] we aligned the 818 identified dmrs with 1,837 curated human enhancers available through the vista enhancer browser (https://enhancer.lbl.gov/). for psychiatric disease association analyses, the r psygenet2r package was used. the human phenotype ontology gene set for microcephaly was retrieved from the hpo browser (http://compbio.charite.de/hpoweb/showterm?id=hp:0000252). rna-seq data […]


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psygenet2r institution(s)
Research Programme on Biomedical Informatics (GRIB), Hospital del Mar Medical Research Institute (IMIM), Barcelona, Spain; Department of Experimental and Health Sciences (DCEXS), Universitat Pompeu Fabra (UPF), Barcelona, Spain; ISGlobal, Centre for Research in Environmental Epidemiology (CREAL); CIBER Epidemiología y Salud Pública (CIBERESP), Barcelona, Spain
psygenet2r funding source(s)
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 (ElixirExcelerate); grant PT13/0001/0023, of the PE I+D+i 2013-2016, funded by ISCIII and FEDER; the Spanish Ministry of Economy and Competitiveness, through the “María de Maeztu” Programme for Units of Excellence in R&D (MDM-2014-0370).

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