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Resource:Psychiatric Genomics Consortium

Name: Resource:Psychiatric Genomics Consortium
Description: Consortium conducting meta-analyses of genome-wide genetic data for psychiatric disease. The basic idea is that individual studies are generally too small to identify robust and replicable associations. Meta-analysis is a widely-used technique that can combine information across studies.

The PGC has focused on five critically-important disorders: autism, attention-deficit hyperactivity disorder, bipolar disorder, major depressive disorder, and schizophrenia. They have also done the initial "cross-disorder" analysis to look for genetic variants that predispose to multiple disorders. Additional GWAS data may become available for other disorders like anorexia nervosa (AN), Tourette syndrome (TS), and obsessive-compuls ive disorder (OCD).

The initial intent of the PGC was to investigate the common single nucleotide polymorphisms (SNPs) genotyped on commercial arrays. The focus has expanded to include structural variation (copy number variation) and uncommon or rare genetic variation.

To participate you are asked to upload the data from your study to the central computer used by this consortium. The Genetic Cluster Computer will serve as the data warehouse and analytical platform for this study (http://www.geneticcluster.org). When the data from your study have been incorporated, your analyst will get an account on the central server and access to all GWAS genotypes, phenotypes, and meta-analytic results relevant to the data you deposited and the aims in which you participate. The appropriate people from your group will also become members of the relevant working groups. These steps will occur as soon as possible (under a week). It is understood that groups will share their data with the PGC at a time that is appropriate for them and their study.

Published PGC results can be viewed using "ricopili", a web site that generates high-resolution images of PGC results. This web resource takes as input a gene name or genomic region, and produces a plot of PGC findings in genomic context.

Results files can be obtained by any PGC member for any disease to which they contributed data. These files can also be obtained by application to the NIMH Genetics Repository.

  • Individual-level genotype and phenotype data: Requires application, material transfer agreement, and informed consent consideration. PGC analytic datasets can be obtained by application to the controlled-access NIMH Genetics Repository. Some datasets are also in the controlled-access dbGaP and Wellcome Trust Case-Control Consortium repositories. These data can be obtained by any credible investigator. PGC members can also receive back cleaned and imputed data and results for the samples they contributed to PGC analyses.
  • NHGRI GWAS Catalog: This catalog contains updated information about all GWAS in biomedicine, and is usually an excellent starting point to find a comprehensive list of studies.
Other Name(s): Psychiatric GWAS Consortium
Parent Organization: University of North Carolina at Chapel Hill; North Carolina; USA
Supporting Agency: A wide range of national international and commercial funders, Netherlands Genetic Cluster Computer, Hersenstichting Nederland, NIMH
Related to: Resource:Ricopili, Resource:GWAS: Catalog of Published Genome-Wide Association Studies, Resource:dbGaP at NCBI, Resource:Wellcome Trust Case Control Consortium
Resource Type(s): Computational hosting, Community building portal, Data or information resource
Keywords: Structural variation, Genetic variation, single nucleotide polymorphism, Attention deficit-hyperactivity disorder, Bipolar Disorder, Schizophrenia, Mental disease, One Mind PTSD, Data sharing, visualization, genome-wide association study, genomic, genotype, phenotype, psychiatry, GWAS, copy number variation
Abbreviation: PGC
Resource: Resource
URL: https://pgc.unc.edu/
PMID: PMID 20955924, 19895722, 19648536, 19339359, 19002139,
Related condition/disease: Mental disease, Attention deficit-hyperactivity disorder, Bipolar Disorder, Schizophrenia, Major Depressive Disorder, Autism, Cross-disorder
Availability: Available to members for any disease to which they contributed data or by application to individuals
Id: nlx_143769
Organism: Human
Link to OWL / RDF: Download this content as OWL/RDF

Curation status: Curated

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| Twitter Handle: @PGC_Consortium

Contributors

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Facts about Resource:Psychiatric Genomics ConsortiumRDF feed
AbbrevPGC  +
AvailabilityAvailable to members for any disease to which they contributed data or by application to individuals  +
CurationStatuscurated  +
DefiningCitationhttps://pgc.unc.edu/  +
DefinitionConsortium conducting meta-analyses of gen Consortium conducting meta-analyses of genome-wide genetic data for psychiatric disease. The basic idea is that individual studies are generally too small to identify robust and replicable associations. Meta-analysis is a widely-used technique that can combine information across studies.

The PGC has focused on five critically-important disorders: autism, attention-deficit hyperactivity disorder, bipolar disorder, major depressive disorder, and schizophrenia. They have also done the initial "cross-disorder" analysis to look for genetic variants that predispose to multiple disorders. Additional GWAS data may become available for other disorders like anorexia nervosa (AN), Tourette syndrome (TS), and obsessive-compuls ive disorder (OCD).

The initial intent of the PGC was to investigate the common single nucleotide polymorphisms (SNPs) genotyped on commercial arrays. The focus has expanded to include structural variation (copy number variation) and uncommon or rare genetic variation.

To participate you are asked to upload the data from your study to the central computer used by this consortium. The Genetic Cluster Computer will serve as the data warehouse and analytical platform for this study (http://www.geneticcluster.org). When the data from your study have been incorporated, your analyst will get an account on the central server and access to all GWAS genotypes, phenotypes, and meta-analytic results relevant to the data you deposited and the aims in which you participate. The appropriate people from your group will also become members of the relevant working groups. These steps will occur as soon as possible (under a week). It is understood that groups will share their data with the PGC at a time that is appropriate for them and their study.

Published PGC results can be viewed using "ricopili", a web site that generates high-resolution images of PGC results. This web resource takes as input a gene name or genomic region, and produces a plot of PGC findings in genomic context.

Results files can be obtained by any PGC member for any disease to which they contributed data. These files can also be obtained by application to the NIMH Genetics Repository.

  • Individual-level genotype and phenotype data: Requires application, material transfer agreement, and informed consent consideration. PGC analytic datasets can be obtained by application to the controlled-access NIMH Genetics Repository. Some datasets are also in the controlled-access dbGaP and Wellcome Trust Case-Control Consortium repositories. These data can be obtained by any credible investigator. PGC members can also receive back cleaned and imputed data and results for the samples they contributed to PGC analyses.
  • NHGRI GWAS Catalog: This catalog contains updated information about all GWAS in biomedicine, and is usually an excellent starting point to find a comprehensive list of studies. t to find a comprehensive list of studies.
ExampleImagePGC.PNG  +
Has default formThis property is a special property in this wiki.Resource  +
Has roleComputational hosting  +, Community building portal  +, and Data or information resource  +
Idnlx_143769  +
Is part ofUniversity of North Carolina at Chapel Hill; North Carolina; USA  +
KeywordsStructural variation  +, Genetic variation  +, Single nucleotide polymorphism  +, Attention deficit-hyperactivity disorder  +, Bipolar Disorder  +, Schizophrenia  +, Mental disease  +, One Mind PTSD  +, Data sharing  +, Visualization  +, Genome-wide association study  +, Genomic  +, Genotype  +, Phenotype  +, Psychiatry  +, GWAS  +, and Copy number variation  +
LabelResource:Psychiatric Genomics Consortium  +
ModifiedDate11 January 2014  +
PMID20955924, 19895722, 19648536, 19339359, 19002139,  +
Page has default formThis property is a special property in this wiki.Resource  +
RelatedToResource:Ricopili  +, Resource:GWAS: Catalog of Published Genome-Wide Association Studies  +, Resource:dbGaP at NCBI  +, and Resource:Wellcome Trust Case Control Consortium  +
Related diseaseMental disease  +, Attention deficit-hyperactivity disorder  +, Bipolar Disorder  +, Schizophrenia  +, Major Depressive Disorder  +, Autism  +, and Cross-disorder  +
SpeciesHuman  +
SuperCategoryResource  +
Supporting AgencyA wide range of national international and commercial funders  +, Netherlands Genetic Cluster Computer  +, Hersenstichting Nederland  +, and NIMH  +
SynonymPsychiatric GWAS Consortium  +
TwitterPGC_Consortium  +