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Title: T1DGC: Genome-Wide Association Study in Type 1 Diabetes, 2008      
citations:
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description:
Cases with Type 1 Diabetes (T1D) in the UK, were part of the Wellcome Trust Case Control Consortium (WTCCC) - http://www.wtccc.org.uk - that first reported in 2007: Wellcome Trust Case Control Consortium (2007) Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls. Nature, 447, 661-678. [PubMed: 17554300] In this genome-wide association study (GWAS), funded by the NIH and JDRF, and sponsored by the Type 1 Diabetes Genetics Consortium (T1DGC), we were able to extend the case and control groups used in the WTCCC, with the intention of performing a well-powered meta-analysis. The study is written up as: Barrett, J.C., Clayton, D.G., Concannon, P., Akolkar, B., Cooper, J.D., Erlich, H.A., Julier, C., Morahan, G., Nerup, J., Nierras, C., Plagnol, V., Pociot, F., Schuilenburg, H., Smyth, D.J., Stevens, H., Todd, J.A., Walker, N.M., Rich, S.S. and The Type 1 Diabetes Genetics Consortium Genome-wide association study and meta-analysis find that over 40 loci affect risk of type 1 diabetes. Nature Genetics, PMID: 19430480. Resources - data: * Case data from this study is deposited here (i.e. in dbGaP) * Control data from this experiment - with subjects from the 1958 British Birth Cohort - is deposited with the European Genotype Archive (EGA): http://www.ebi.ac.uk/ega/ from where the WTCCC data is also available. * A complete description of how to request all components of the meta-analysis is available at: http://www.t1dbase.org/page/PosterView/display/poster_id/324 * Additional genetic data on the same case subjects, including some HLA types, are available from the Juvenile Diabetes Research Foundation/Wellcome Trust Diabetes and Inflammation Laboratory (JDRF/WT-DIL): http://www-gene.cimr.cam.ac.uk/todd/ Resources - samples: Case and control DNA samples are also available: * Case DNA samples are available from the JDRF/WT-DIL, as above, and will be available from the NIDDK Genetics Repository at Rutgers: https://www.niddkrepository.org * Control DNA samples are available from the 1958 British Birth Cohort (aka National Child Development Study): http://www.cls.ioe.ac.uk/studies.asp?section=000100020003 Use restrictions: There are access limitations to both data and samples, in order to keep their use in line with subjects' consent.
Identifier:
phs000180.v2.p2
accesstypes:
download
enclave
landingpage: http://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs000180.v2.p2
authentication: simpleLogin
none
authorization:
none
duaIndividual
name:
Diabetes Mellitus, Type 1
affiliations:
A collaborative clinical study sponsored by the National Institute of Diabetes and Digestive and Kidney Diseases (NIDDK), National Institute of Allergy and Infectious Diseases (NIAID), National Human Genome Research Institute (NHGRI), National Institute of Child Health and Human Development (NICHD), and Juvenile Diabetes Research Foundation International (JDRF) and supported by U01 DK062418 (S.S. Rich, PI)
name:
Type 1 Diabetes Genetics Consortium (T1DGC) http://www.t1dgc.org/
roles:
Consortium
affiliations:
University of Virginia, Charlottesville, VA, USA
name:
Rich, SS (Chair)
roles:
T1DGC Steering Committee
affiliations:
National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD, USA
name:
Akolkar, B
roles:
T1DGC Steering Committee
affiliations:
University of Virginia, Charlottesville, VA, USA
name:
Concannon, P
roles:
T1DGC Steering Committee
affiliations:
Roche Molecular Systems, Alameda, CA, USA
name:
Erlich, HA
roles:
T1DGC Steering Committee
affiliations:
Centre National de Genotypage, France
name:
Julier, C
roles:
T1DGC Steering Committee
affiliations:
Western Australia Institute for Medical Research, Australia
name:
Morahan, G
roles:
T1DGC Steering Committee
affiliations:
Steno Diabetes Center, Denmark
name:
Nerup, J
roles:
T1DGC Steering Committee
affiliations:
Juvenile Diabetes Research Foundation International, New York, New York, USA
name:
Nierras, C
roles:
T1DGC Steering Committee
affiliations:
Steno Diabetes Center, Denmark
name:
Pociot, F
roles:
T1DGC Steering Committee
affiliations:
University of Cambridge, United Kingdom
name:
Todd, JA
roles:
T1DGC Steering Committee
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Barrett, JC
roles:
Lead Statisticians
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Clayton, DG
roles:
Lead Statisticians
affiliations:
University of Virginia, Charlottesville, VA, USA
name:
Concannon, P
roles:
Editor and Corresponding Author
affiliations:
National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD, USA
name:
Akolkar, B
roles:
Project Management
affiliations:
Illumina Inc, San Diego, USA
name:
Alipaz, J
roles:
Project Management
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Clayton, DG
roles:
Project Management
affiliations:
Illumina Inc, San Diego, USA
name:
Garsetti, J
roles:
Project Management
affiliations:
University of Virginia, Charlottesville, VA, USA
name:
Mychaleckyj, J
roles:
Project Management
affiliations:
University of Virginia, Charlottesville, VA, USA
name:
Rich, SS
roles:
Project Management
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Stevens, H
roles:
Project Management
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Todd, JA
roles:
Project Management
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Walker, NM
roles:
Project Management
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Cooper, JD
roles:
Additional Data Analysis
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Plagnol, V
roles:
Additional Data Analysis
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Stevens, H
roles:
DNA Sample Coordination and Quality Control
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Maisuria, M
roles:
DNA Sample Coordination and Quality Control
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Brown, J
roles:
Additional Project Management
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Simpson, A
roles:
Additional Project Management
affiliations:
Illumina Inc, San Diego, USA
name:
Alipaz, J
roles:
Genotyping
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Smyth, DJ
roles:
Genotyping
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Hardy, M
roles:
Genotyping
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Downes, K
roles:
Genotyping
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Walker, NM
roles:
Data Services
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Schuilenburg, H
roles:
Data Services
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Ovington, NO
roles:
Data Services
affiliations:
T1DGC Coordinating Center, Wake Forest University Health Sciences, Winston-Salem, USA
name:
Hilner, J
roles:
Management of T1DGC Data and DNA Sample Resources
affiliations:
T1DGC Coordinating Center, Wake Forest University Health Sciences, Winston-Salem, USA
name:
Pierce, J
roles:
Management of T1DGC Data and DNA Sample Resources
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Allen, J
roles:
Bioinformatics Support
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Smink, LJ
roles:
Bioinformatics Support
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Burren, O
roles:
Bioinformatics Support
affiliations:
University of Virginia, Charlottesville, VA, USA
name:
Mychaleckyj, J
roles:
Bioinformatics Support
affiliations:
Institute for Systems Biology, Seattle, WA, USA
name:
Goodman, N
roles:
Bioinformatics Support
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Everett, V
roles:
Additional Computing Support
affiliations:
JDRF/WT DIL, University of Cambridge, United Kingdom
name:
Dolman, G
roles:
Additional Computing Support
affiliations:
T1DGC Coordinating Center, Wake Forest University Health Sciences, Winston-Salem, USA
name:
Brown, M
roles:
Additional Computing Support
affiliations:
Recruited as part of the United Kingdom Genetic Resource Investigating Diabetes (UK GRID) study, which is a joint project between the University of Cambridge Departments of Paediatrics (Prof David Dunger, Barry Widmer) and Medical Genetics (Prof John Todd) at the Cambridge Institute for Medical Research and is funded by the Juvenile Diabetes Research Foundation and the Wellcome Trust
name:
Cases
roles:
DNA Sources
affiliations:
Part of British 1958 Birth Cohort collection, funded by the Medical Research Council and the Wellcome Trust. We thank The Avon Longitudinal Study of Parents and Children laboratory in Bristol and the British 1958 Birth Cohort team, including S. Ring, R. Jones, M. Pembrey, W. McArdle, D. Strachan and P. Burton for preparing and providing the control DNA samples
name:
Controls
roles:
DNA Sources
affiliations:
The paper, of which this dataset is part, includes samples from other sources, some represented fully or in part in dbGaP (GoKinD, GAIN, NIMH), and some not - especially T1DGC family resources, a Danish case control and WTCCC data - please see paper for use (meta-analysis or replication), study attribution and further access arrangements
name:
Other
roles:
DNA Sources
performedBy:
TitleNameInstitute ConsortiumType 1 Diabetes Genetics Consortium (T1DGC) <a href="http://www.t1dgc.org/">http://www.t1dgc.org/</a>A collaborative clinical study sponsored by the National Institute of Diabetes and Digestive and Kidney Diseases (NIDDK), National Institute of Allergy and Infectious Diseases (NIAID), National Human Genome Research Institute (NHGRI), National Institute of Child Health and Human Development (NICHD), and Juvenile Diabetes Research Foundation International (JDRF) and supported by U01 DK062418 (S.S. Rich, PI) T1DGC Steering CommitteeRich, SS (Chair)University of Virginia, Charlottesville, VA, USA T1DGC Steering CommitteeAkolkar, BNational Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD, USA T1DGC Steering CommitteeConcannon, PUniversity of Virginia, Charlottesville, VA, USA T1DGC Steering CommitteeErlich, HARoche Molecular Systems, Alameda, CA, USA
downloadURL: https://dbgap.ncbi.nlm.nih.gov/aa/wga.cgi?page=DUC&view_pdf&stacc=phs000180.v2.p2
Identifier:
phs000180.v2.p2_policy
name:
Data Use Certificate
Identifier:
1
name:
T1D and Related Conditions Only
schedulesActivity:
Cases (and controls) have appeared in a series of studies since 2003. A complete list of publications is included below. A baseline description paper is being prepared.
alternateIdentifiers:
yes
selectionCriteria:

Cases in GRID:

     http://www.childhood-diabetes.org.uk/grid.shtml

are:

  • type 1 diabetics
  • insulin dependent for at least 6 months
  • diagnosed between the ages of 6 months and 16 years inclusive
  • resident in mainland UK

In this instance, we also omitted subjects:

  • who appeared previously in the WTCCC GWAS
  • lacked cell-lined DNA
  • not of self-reported white ethnicity (for want of controls)
  • who were known to be related to other cases in the study
  • who were known to be part of other (e.g. family) studies
  • with incomplete paperwork
  • failed DNA QC

types:
Case Set
dateReleased:
04-04-2012
version:
phs000180.v2.p2
dateModified:
08-02-2012
Identifier:
2862
Name:
Genome-wide association
abbreviation:
NIDDK
name:
NIDDK Central Repository GWAS Data Access Committee
ID:
0
name:
dbGaP

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