Genome-Wide Scan for Linkage to Type 1 Diabetes in 2,496 Multiplex Families From the Type 1 Diabetes Genetics Consortium
Identifieur interne : 000508 ( Ncbi/Merge ); précédent : 000507; suivant : 000509Genome-Wide Scan for Linkage to Type 1 Diabetes in 2,496 Multiplex Families From the Type 1 Diabetes Genetics Consortium
Auteurs : Patrick Concannon [États-Unis] ; Wei-Min Chen [États-Unis] ; Cécile Julier [France] ; Grant Morahan [Australie] ; Beena Akolkar [États-Unis] ; Henry A. Erlich [États-Unis] ; Joan E. Hilner [États-Unis] ; J Rn Nerup [Danemark] ; Concepcion Nierras [États-Unis] ; Flemming Pociot [Danemark] ; John A. Todd [Royaume-Uni] ; Stephen S. Rich [États-Unis]Source :
- Diabetes [ 0012-1797 ] ; 2009.
Abstract
Type 1 diabetes arises from the actions of multiple genetic and environmental risk factors. Considerable success at identifying common genetic variants that contribute to type 1 diabetes risk has come from genetic association (primarily case-control) studies. However, such studies have limited power to detect genes containing multiple rare variants that contribute significantly to disease risk.
The Type 1 Diabetes Genetics Consortium (T1DGC) has assembled a collection of 2,496 multiplex type 1 diabetic families from nine geographical regions containing 2,658 affected sib-pairs (ASPs). We describe the results of a genome-wide scan for linkage to type 1 diabetes in the T1DGC family collection.
Significant evidence of linkage to type 1 diabetes was confirmed at the HLA region on chromosome 6p21.3 (logarithm of odds [LOD] = 213.2). There was further evidence of linkage to type 1 diabetes on 6q that could not be accounted for by the major linkage signal at the HLA class II loci on chromosome 6p21. Suggestive evidence of linkage (LOD ≥2.2) was observed near
Five non–HLA chromosome regions showed some evidence of linkage to type 1 diabetes. A number of previously proposed type 1 diabetes susceptibility loci, based on smaller ASP numbers, showed limited or no evidence of linkage to disease. Low-frequency susceptibility variants or clusters of loci with common alleles could contribute to the linkage signals observed.
Url:
DOI: 10.2337/db08-1551
PubMed: 19136655
PubMed Central: 2661598
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<author><name sortKey="Hilner, Joan E" sort="Hilner, Joan E" uniqKey="Hilner J" first="Joan E." last="Hilner">Joan E. Hilner</name>
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</placeName>
<wicri:cityArea>Public Health Sciences, Wake Forest University School of Medicine, Winston-Salem</wicri:cityArea>
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<author><name sortKey="Nerup, J Rn" sort="Nerup, J Rn" uniqKey="Nerup J" first="J Rn" last="Nerup">J Rn Nerup</name>
<affiliation wicri:level="1"><nlm:aff id="aff9">Steno Diabetes Center, Gentofte, Denmark;</nlm:aff>
<country xml:lang="fr">Danemark</country>
<wicri:regionArea>Steno Diabetes Center, Gentofte</wicri:regionArea>
<wicri:noRegion>Gentofte</wicri:noRegion>
</affiliation>
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<author><name sortKey="Nierras, Concepcion" sort="Nierras, Concepcion" uniqKey="Nierras C" first="Concepcion" last="Nierras">Concepcion Nierras</name>
<affiliation wicri:level="2"><nlm:aff id="aff10">Juvenile Diabetes Research Foundation, New York, New York;</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">État de New York</region>
</placeName>
<wicri:cityArea>Juvenile Diabetes Research Foundation, New York</wicri:cityArea>
</affiliation>
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<author><name sortKey="Pociot, Flemming" sort="Pociot, Flemming" uniqKey="Pociot F" first="Flemming" last="Pociot">Flemming Pociot</name>
<affiliation wicri:level="1"><nlm:aff id="aff9">Steno Diabetes Center, Gentofte, Denmark;</nlm:aff>
<country xml:lang="fr">Danemark</country>
<wicri:regionArea>Steno Diabetes Center, Gentofte</wicri:regionArea>
<wicri:noRegion>Gentofte</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Todd, John A" sort="Todd, John A" uniqKey="Todd J" first="John A." last="Todd">John A. Todd</name>
<affiliation wicri:level="4"><nlm:aff id="aff11">Juvenile Diabetes Research Foundation/Wellcome Trust Diabetes and Inflammation Laboratory, Department of Medical Genetics, Cambridge Institute for Medical Research, University of Cambridge, Cambridge, U.K.</nlm:aff>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>Juvenile Diabetes Research Foundation/Wellcome Trust Diabetes and Inflammation Laboratory, Department of Medical Genetics, Cambridge Institute for Medical Research, University of Cambridge, Cambridge</wicri:regionArea>
<orgName type="university">Université de Cambridge</orgName>
<placeName><settlement type="city">Cambridge</settlement>
<region type="country">Angleterre</region>
<region type="région" nuts="1">Angleterre de l'Est</region>
</placeName>
</affiliation>
</author>
<author><name sortKey="Rich, Stephen S" sort="Rich, Stephen S" uniqKey="Rich S" first="Stephen S." last="Rich">Stephen S. Rich</name>
<affiliation wicri:level="2"><nlm:aff id="aff2">Center for Public Health Genomics, University of Virginia, Charlottesville, Virginia;</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Virginie</region>
</placeName>
<wicri:cityArea>Center for Public Health Genomics, University of Virginia, Charlottesville</wicri:cityArea>
</affiliation>
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<series><title level="j">Diabetes</title>
<idno type="ISSN">0012-1797</idno>
<idno type="eISSN">1939-327X</idno>
<imprint><date when="2009">2009</date>
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<front><div type="abstract" xml:lang="en"><sec><title>OBJECTIVE</title>
<p>Type 1 diabetes arises from the actions of multiple genetic and environmental risk factors. Considerable success at identifying common genetic variants that contribute to type 1 diabetes risk has come from genetic association (primarily case-control) studies. However, such studies have limited power to detect genes containing multiple rare variants that contribute significantly to disease risk.</p>
</sec>
<sec><title>RESEARCH DESIGN AND METHODS</title>
<p>The Type 1 Diabetes Genetics Consortium (T1DGC) has assembled a collection of 2,496 multiplex type 1 diabetic families from nine geographical regions containing 2,658 affected sib-pairs (ASPs). We describe the results of a genome-wide scan for linkage to type 1 diabetes in the T1DGC family collection.</p>
</sec>
<sec><title>RESULTS</title>
<p>Significant evidence of linkage to type 1 diabetes was confirmed at the HLA region on chromosome 6p21.3 (logarithm of odds [LOD] = 213.2). There was further evidence of linkage to type 1 diabetes on 6q that could not be accounted for by the major linkage signal at the HLA class II loci on chromosome 6p21. Suggestive evidence of linkage (LOD ≥2.2) was observed near <italic>CTLA4</italic>
on chromosome 2q32.3 (LOD = 3.28) and near <italic>INS</italic>
(LOD = 3.16) on chromosome 11p15.5. Some evidence for linkage was also detected at two regions on chromosome 19 (LOD = 2.84 and 2.54).</p>
</sec>
<sec><title>CONCLUSIONS</title>
<p>Five non–HLA chromosome regions showed some evidence of linkage to type 1 diabetes. A number of previously proposed type 1 diabetes susceptibility loci, based on smaller ASP numbers, showed limited or no evidence of linkage to disease. Low-frequency susceptibility variants or clusters of loci with common alleles could contribute to the linkage signals observed.</p>
</sec>
</div>
</front>
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<author><name sortKey="Todd, Ja" uniqKey="Todd J">JA Todd</name>
</author>
<author><name sortKey="Bonella, P" uniqKey="Bonella P">P Bonella</name>
</author>
<author><name sortKey="Fear, Al" uniqKey="Fear A">AL Fear</name>
</author>
<author><name sortKey="Lavant, E" uniqKey="Lavant E">E Lavant</name>
</author>
<author><name sortKey="Louey, A" uniqKey="Louey A">A Louey</name>
</author>
<author><name sortKey="Moonsamy, P" uniqKey="Moonsamy P">P Moonsamy</name>
</author>
</analytic>
</biblStruct>
</listBibl>
</div1>
</back>
</TEI>
<pmc article-type="research-article"><pmc-dir>properties open_access</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-ta">Diabetes</journal-id>
<journal-id journal-id-type="hwp">diabetes</journal-id>
<journal-id journal-id-type="pmc">diabetes</journal-id>
<journal-id journal-id-type="publisher-id">Diabetes</journal-id>
<journal-title-group><journal-title>Diabetes</journal-title>
</journal-title-group>
<issn pub-type="ppub">0012-1797</issn>
<issn pub-type="epub">1939-327X</issn>
<publisher><publisher-name>American Diabetes Association</publisher-name>
</publisher>
</journal-meta>
<article-meta><article-id pub-id-type="pmid">19136655</article-id>
<article-id pub-id-type="pmc">2661598</article-id>
<article-id pub-id-type="publisher-id">1551</article-id>
<article-id pub-id-type="doi">10.2337/db08-1551</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Original Article</subject>
<subj-group><subject>Genetics</subject>
</subj-group>
</subj-group>
</article-categories>
<title-group><article-title>Genome-Wide Scan for Linkage to Type 1 Diabetes in 2,496 Multiplex Families From the Type 1 Diabetes Genetics Consortium</article-title>
</title-group>
<contrib-group><contrib contrib-type="author"><name><surname>Concannon</surname>
<given-names>Patrick</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup>
</xref>
<xref ref-type="aff" rid="aff2"><sup>2</sup>
</xref>
<xref ref-type="corresp" rid="cor1"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Chen</surname>
<given-names>Wei-Min</given-names>
</name>
<xref ref-type="aff" rid="aff2"><sup>2</sup>
</xref>
<xref ref-type="aff" rid="aff3"><sup>3</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Julier</surname>
<given-names>Cécile</given-names>
</name>
<xref ref-type="aff" rid="aff4"><sup>4</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Morahan</surname>
<given-names>Grant</given-names>
</name>
<xref ref-type="aff" rid="aff5"><sup>5</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Akolkar</surname>
<given-names>Beena</given-names>
</name>
<xref ref-type="aff" rid="aff6"><sup>6</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Erlich</surname>
<given-names>Henry A.</given-names>
</name>
<xref ref-type="aff" rid="aff7"><sup>7</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Hilner</surname>
<given-names>Joan E.</given-names>
</name>
<xref ref-type="aff" rid="aff8"><sup>8</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Nerup</surname>
<given-names>Jørn</given-names>
</name>
<xref ref-type="aff" rid="aff9"><sup>9</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Nierras</surname>
<given-names>Concepcion</given-names>
</name>
<xref ref-type="aff" rid="aff10"><sup>10</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Pociot</surname>
<given-names>Flemming</given-names>
</name>
<xref ref-type="aff" rid="aff9"><sup>9</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Todd</surname>
<given-names>John A.</given-names>
</name>
<xref ref-type="aff" rid="aff11"><sup>11</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Rich</surname>
<given-names>Stephen S.</given-names>
</name>
<xref ref-type="aff" rid="aff2"><sup>2</sup>
</xref>
</contrib>
<contrib contrib-type="author"><collab>the Type 1 Diabetes Genetics Consortium</collab>
</contrib>
<aff id="aff1"><sup>1</sup>
Department of Biochemistry and Molecular Genetics, University of Virginia, Charlottesville, Virginia;</aff>
<aff id="aff2"><sup>2</sup>
Center for Public Health Genomics, University of Virginia, Charlottesville, Virginia;</aff>
<aff id="aff3"><sup>3</sup>
Department of Public Health Sciences, Division of Biostatistics and Epidemiology, University of Virginia, Charlottesville, Virginia;</aff>
<aff id="aff4"><sup>4</sup>
INSERM U730, Centre National de Génotypage, Evry, France;</aff>
<aff id="aff5"><sup>5</sup>
Centre for Diabetes Research, The Western Australian Institute for Medical Research and Centre for Medical Research, University of Western Australia, Perth, Australia;</aff>
<aff id="aff6"><sup>6</sup>
Division of Diabetes, Endocrinology, and Metabolic Diseases, The National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland;</aff>
<aff id="aff7"><sup>7</sup>
Roche Molecular Systems, Pleasanton, California;</aff>
<aff id="aff8"><sup>8</sup>
Public Health Sciences, Wake Forest University School of Medicine, Winston-Salem, North Carolina;</aff>
<aff id="aff9"><sup>9</sup>
Steno Diabetes Center, Gentofte, Denmark;</aff>
<aff id="aff10"><sup>10</sup>
Juvenile Diabetes Research Foundation, New York, New York;</aff>
<aff id="aff11"><sup>11</sup>
Juvenile Diabetes Research Foundation/Wellcome Trust Diabetes and Inflammation Laboratory, Department of Medical Genetics, Cambridge Institute for Medical Research, University of Cambridge, Cambridge, U.K.</aff>
</contrib-group>
<author-notes><corresp id="cor1">Corresponding author: Patrick Concannon, <email>patcon@virginia.edu</email>
.</corresp>
</author-notes>
<pub-date pub-type="ppub"><month>4</month>
<year>2009</year>
</pub-date>
<pub-date pub-type="epub"><day>9</day>
<month>1</month>
<year>2009</year>
</pub-date>
<volume>58</volume>
<issue>4</issue>
<fpage>1018</fpage>
<lpage>1022</lpage>
<history><date date-type="received"><day>6</day>
<month>11</month>
<year>2008</year>
</date>
<date date-type="accepted"><day>5</day>
<month>1</month>
<year>2009</year>
</date>
</history>
<permissions><copyright-statement>© 2009 by the American Diabetes Association.</copyright-statement>
<license license-type="creative-commons"><license-p>Readers may use this article as long as the work is properly cited, the use is educational and not for profit, and the work is not altered. See <ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/licenses/by-nc-nd/3.0/">http://creativecommons.org/licenses/by-nc-nd/3.0/</ext-link>
for details.</license-p>
</license>
</permissions>
<self-uri xlink:title="pdf" xlink:type="simple" xlink:href="zdb00409001018.pdf"></self-uri>
<abstract><sec><title>OBJECTIVE</title>
<p>Type 1 diabetes arises from the actions of multiple genetic and environmental risk factors. Considerable success at identifying common genetic variants that contribute to type 1 diabetes risk has come from genetic association (primarily case-control) studies. However, such studies have limited power to detect genes containing multiple rare variants that contribute significantly to disease risk.</p>
</sec>
<sec><title>RESEARCH DESIGN AND METHODS</title>
<p>The Type 1 Diabetes Genetics Consortium (T1DGC) has assembled a collection of 2,496 multiplex type 1 diabetic families from nine geographical regions containing 2,658 affected sib-pairs (ASPs). We describe the results of a genome-wide scan for linkage to type 1 diabetes in the T1DGC family collection.</p>
</sec>
<sec><title>RESULTS</title>
<p>Significant evidence of linkage to type 1 diabetes was confirmed at the HLA region on chromosome 6p21.3 (logarithm of odds [LOD] = 213.2). There was further evidence of linkage to type 1 diabetes on 6q that could not be accounted for by the major linkage signal at the HLA class II loci on chromosome 6p21. Suggestive evidence of linkage (LOD ≥2.2) was observed near <italic>CTLA4</italic>
on chromosome 2q32.3 (LOD = 3.28) and near <italic>INS</italic>
(LOD = 3.16) on chromosome 11p15.5. Some evidence for linkage was also detected at two regions on chromosome 19 (LOD = 2.84 and 2.54).</p>
</sec>
<sec><title>CONCLUSIONS</title>
<p>Five non–HLA chromosome regions showed some evidence of linkage to type 1 diabetes. A number of previously proposed type 1 diabetes susceptibility loci, based on smaller ASP numbers, showed limited or no evidence of linkage to disease. Low-frequency susceptibility variants or clusters of loci with common alleles could contribute to the linkage signals observed.</p>
</sec>
</abstract>
<funding-group><award-group><funding-source id="CS100">National Institutes of Health</funding-source>
<award-id rid="CS100">N01-HG-65403</award-id>
</award-group>
</funding-group>
</article-meta>
</front>
</pmc>
<affiliations><list><country><li>Australie</li>
<li>Danemark</li>
<li>France</li>
<li>Royaume-Uni</li>
<li>États-Unis</li>
</country>
<region><li>Angleterre</li>
<li>Angleterre de l'Est</li>
<li>Californie</li>
<li>Caroline du Nord</li>
<li>Maryland</li>
<li>Virginie</li>
<li>État de New York</li>
<li>Île-de-France</li>
</region>
<settlement><li>Cambridge</li>
<li>Évry (Essonne)</li>
</settlement>
<orgName><li>Université de Cambridge</li>
</orgName>
</list>
<tree><country name="États-Unis"><region name="Virginie"><name sortKey="Concannon, Patrick" sort="Concannon, Patrick" uniqKey="Concannon P" first="Patrick" last="Concannon">Patrick Concannon</name>
</region>
<name sortKey="Akolkar, Beena" sort="Akolkar, Beena" uniqKey="Akolkar B" first="Beena" last="Akolkar">Beena Akolkar</name>
<name sortKey="Chen, Wei Min" sort="Chen, Wei Min" uniqKey="Chen W" first="Wei-Min" last="Chen">Wei-Min Chen</name>
<name sortKey="Chen, Wei Min" sort="Chen, Wei Min" uniqKey="Chen W" first="Wei-Min" last="Chen">Wei-Min Chen</name>
<name sortKey="Concannon, Patrick" sort="Concannon, Patrick" uniqKey="Concannon P" first="Patrick" last="Concannon">Patrick Concannon</name>
<name sortKey="Erlich, Henry A" sort="Erlich, Henry A" uniqKey="Erlich H" first="Henry A." last="Erlich">Henry A. Erlich</name>
<name sortKey="Hilner, Joan E" sort="Hilner, Joan E" uniqKey="Hilner J" first="Joan E." last="Hilner">Joan E. Hilner</name>
<name sortKey="Nierras, Concepcion" sort="Nierras, Concepcion" uniqKey="Nierras C" first="Concepcion" last="Nierras">Concepcion Nierras</name>
<name sortKey="Rich, Stephen S" sort="Rich, Stephen S" uniqKey="Rich S" first="Stephen S." last="Rich">Stephen S. Rich</name>
</country>
<country name="France"><region name="Île-de-France"><name sortKey="Julier, Cecile" sort="Julier, Cecile" uniqKey="Julier C" first="Cécile" last="Julier">Cécile Julier</name>
</region>
</country>
<country name="Australie"><noRegion><name sortKey="Morahan, Grant" sort="Morahan, Grant" uniqKey="Morahan G" first="Grant" last="Morahan">Grant Morahan</name>
</noRegion>
</country>
<country name="Danemark"><noRegion><name sortKey="Nerup, J Rn" sort="Nerup, J Rn" uniqKey="Nerup J" first="J Rn" last="Nerup">J Rn Nerup</name>
</noRegion>
<name sortKey="Pociot, Flemming" sort="Pociot, Flemming" uniqKey="Pociot F" first="Flemming" last="Pociot">Flemming Pociot</name>
</country>
<country name="Royaume-Uni"><region name="Angleterre"><name sortKey="Todd, John A" sort="Todd, John A" uniqKey="Todd J" first="John A." last="Todd">John A. Todd</name>
</region>
</country>
</tree>
</affiliations>
</record>
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