Medical Records-Based Genetic Studies of the Complement System

Genetic variants in complement genes have been associated with a wide range of human disease states, but well-powered genetic association studies of complement activation have not been performed in large multiethnic cohorts. We performed medical records-based genome-wide and phenome-wide association...

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Veröffentlicht in:Journal of the American Society of Nephrology 2021-08, Vol.32 (8), p.2031-2047
Hauptverfasser: Khan, Atlas, Shang, Ning, Petukhova, Lynn, Zhang, Jun, Shen, Yufeng, Hebbring, Scott J, Moncrieffe, Halima, Kottyan, Leah C, Namjou-Khales, Bahram, Knevel, Rachel, Raychaudhuri, Soumya, Karlson, Elizabeth W, Harley, John B, Stanaway, Ian B, Crosslin, David, Denny, Joshua C, Elkind, Mitchell S V, Gharavi, Ali G, Hripcsak, George, Weng, Chunhua, Kiryluk, Krzysztof
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container_issue 8
container_start_page 2031
container_title Journal of the American Society of Nephrology
container_volume 32
creator Khan, Atlas
Shang, Ning
Petukhova, Lynn
Zhang, Jun
Shen, Yufeng
Hebbring, Scott J
Moncrieffe, Halima
Kottyan, Leah C
Namjou-Khales, Bahram
Knevel, Rachel
Raychaudhuri, Soumya
Karlson, Elizabeth W
Harley, John B
Stanaway, Ian B
Crosslin, David
Denny, Joshua C
Elkind, Mitchell S V
Gharavi, Ali G
Hripcsak, George
Weng, Chunhua
Kiryluk, Krzysztof
description Genetic variants in complement genes have been associated with a wide range of human disease states, but well-powered genetic association studies of complement activation have not been performed in large multiethnic cohorts. We performed medical records-based genome-wide and phenome-wide association studies for plasma C3 and C4 levels among participants of the Electronic Medical Records and Genomics (eMERGE) network. In a GWAS for C3 levels in 3949 individuals, we detected two genome-wide significant loci: chr.1q31.3 (CFH locus; rs3753396-A; =0.20; 95% CI, 0.14 to 0.25; =1.52x10 ) and chr.19p13.3 (C3 locus; rs11569470-G; =0.19; 95% CI, 0.13 to 0.24; =1.29x10 ). These two loci explained approximately 2% of variance in C3 levels. GWAS for C4 levels involved 3998 individuals and revealed a genome-wide significant locus at chr.6p21.32 (C4 locus; rs3135353-C; =0.40; 95% CI, 0.34 to 0.45; =4.58x10 ). This locus explained approximately 13% of variance in C4 levels. The multiallelic copy number variant analysis defined two structural genomic C4 variants with large effect on blood C4 levels: C4-BS ( =-0.36; 95% CI, -0.42 to -0.30; =2.98x10 ) and C4-AL-BS ( =0.25; 95% CI, 0.21 to 0.29; =8.11x10 ). Overall, C4 levels were strongly correlated with copy numbers of C4A and C4B genes. In comprehensive phenome-wide association studies involving 102,138 eMERGE participants, we cataloged a full spectrum of autoimmune, cardiometabolic, and kidney diseases genetically related to systemic complement activation. We discovered genetic determinants of plasma C3 and C4 levels using eMERGE genomic data linked to electronic medical records. Genetic variants regulating C3 and C4 levels have large effects and multiple clinical correlations across the spectrum of complement-related diseases in humans.
doi_str_mv 10.1681/asn.2020091371
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We performed medical records-based genome-wide and phenome-wide association studies for plasma C3 and C4 levels among participants of the Electronic Medical Records and Genomics (eMERGE) network. In a GWAS for C3 levels in 3949 individuals, we detected two genome-wide significant loci: chr.1q31.3 (CFH locus; rs3753396-A; =0.20; 95% CI, 0.14 to 0.25; =1.52x10 ) and chr.19p13.3 (C3 locus; rs11569470-G; =0.19; 95% CI, 0.13 to 0.24; =1.29x10 ). These two loci explained approximately 2% of variance in C3 levels. GWAS for C4 levels involved 3998 individuals and revealed a genome-wide significant locus at chr.6p21.32 (C4 locus; rs3135353-C; =0.40; 95% CI, 0.34 to 0.45; =4.58x10 ). This locus explained approximately 13% of variance in C4 levels. The multiallelic copy number variant analysis defined two structural genomic C4 variants with large effect on blood C4 levels: C4-BS ( =-0.36; 95% CI, -0.42 to -0.30; =2.98x10 ) and C4-AL-BS ( =0.25; 95% CI, 0.21 to 0.29; =8.11x10 ). Overall, C4 levels were strongly correlated with copy numbers of C4A and C4B genes. In comprehensive phenome-wide association studies involving 102,138 eMERGE participants, we cataloged a full spectrum of autoimmune, cardiometabolic, and kidney diseases genetically related to systemic complement activation. We discovered genetic determinants of plasma C3 and C4 levels using eMERGE genomic data linked to electronic medical records. Genetic variants regulating C3 and C4 levels have large effects and multiple clinical correlations across the spectrum of complement-related diseases in humans.</description><identifier>ISSN: 1046-6673</identifier><identifier>EISSN: 1533-3450</identifier><identifier>DOI: 10.1681/asn.2020091371</identifier><identifier>PMID: 33941608</identifier><language>eng</language><publisher>United States: American Society of Nephrology</publisher><subject>Adult ; Aged ; Alleles ; Clinical Research ; Complement Activation - genetics ; Complement C3 - genetics ; Complement C3 - metabolism ; Complement C4 - genetics ; Complement C4 - metabolism ; Databases, Genetic ; Epidemiologic Studies ; Female ; Gene Dosage ; Genetic Loci ; Genetic Variation ; Genome-Wide Association Study ; Humans ; Male ; Medical Record Linkage ; Medical Records ; Middle Aged ; Young Adult</subject><ispartof>Journal of the American Society of Nephrology, 2021-08, Vol.32 (8), p.2031-2047</ispartof><rights>Copyright © 2021 by the American Society of Nephrology.</rights><rights>Copyright © 2021 by the American Society of Nephrology 2021</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c501t-215d601e7951cb9c71a58741a42392c6664bb26d0a92d378f6d2a16c2fa7c9203</citedby><cites>FETCH-LOGICAL-c501t-215d601e7951cb9c71a58741a42392c6664bb26d0a92d378f6d2a16c2fa7c9203</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC8455263/pdf/$$EPDF$$P50$$Gpubmedcentral$$H</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC8455263/$$EHTML$$P50$$Gpubmedcentral$$H</linktohtml><link.rule.ids>230,314,727,780,784,885,27924,27925,53791,53793</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/33941608$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Khan, Atlas</creatorcontrib><creatorcontrib>Shang, Ning</creatorcontrib><creatorcontrib>Petukhova, Lynn</creatorcontrib><creatorcontrib>Zhang, Jun</creatorcontrib><creatorcontrib>Shen, Yufeng</creatorcontrib><creatorcontrib>Hebbring, Scott J</creatorcontrib><creatorcontrib>Moncrieffe, Halima</creatorcontrib><creatorcontrib>Kottyan, Leah C</creatorcontrib><creatorcontrib>Namjou-Khales, Bahram</creatorcontrib><creatorcontrib>Knevel, Rachel</creatorcontrib><creatorcontrib>Raychaudhuri, Soumya</creatorcontrib><creatorcontrib>Karlson, Elizabeth W</creatorcontrib><creatorcontrib>Harley, John B</creatorcontrib><creatorcontrib>Stanaway, Ian B</creatorcontrib><creatorcontrib>Crosslin, David</creatorcontrib><creatorcontrib>Denny, Joshua C</creatorcontrib><creatorcontrib>Elkind, Mitchell S V</creatorcontrib><creatorcontrib>Gharavi, Ali G</creatorcontrib><creatorcontrib>Hripcsak, George</creatorcontrib><creatorcontrib>Weng, Chunhua</creatorcontrib><creatorcontrib>Kiryluk, Krzysztof</creatorcontrib><title>Medical Records-Based Genetic Studies of the Complement System</title><title>Journal of the American Society of Nephrology</title><addtitle>J Am Soc Nephrol</addtitle><description>Genetic variants in complement genes have been associated with a wide range of human disease states, but well-powered genetic association studies of complement activation have not been performed in large multiethnic cohorts. We performed medical records-based genome-wide and phenome-wide association studies for plasma C3 and C4 levels among participants of the Electronic Medical Records and Genomics (eMERGE) network. In a GWAS for C3 levels in 3949 individuals, we detected two genome-wide significant loci: chr.1q31.3 (CFH locus; rs3753396-A; =0.20; 95% CI, 0.14 to 0.25; =1.52x10 ) and chr.19p13.3 (C3 locus; rs11569470-G; =0.19; 95% CI, 0.13 to 0.24; =1.29x10 ). These two loci explained approximately 2% of variance in C3 levels. GWAS for C4 levels involved 3998 individuals and revealed a genome-wide significant locus at chr.6p21.32 (C4 locus; rs3135353-C; =0.40; 95% CI, 0.34 to 0.45; =4.58x10 ). This locus explained approximately 13% of variance in C4 levels. The multiallelic copy number variant analysis defined two structural genomic C4 variants with large effect on blood C4 levels: C4-BS ( =-0.36; 95% CI, -0.42 to -0.30; =2.98x10 ) and C4-AL-BS ( =0.25; 95% CI, 0.21 to 0.29; =8.11x10 ). 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We performed medical records-based genome-wide and phenome-wide association studies for plasma C3 and C4 levels among participants of the Electronic Medical Records and Genomics (eMERGE) network. In a GWAS for C3 levels in 3949 individuals, we detected two genome-wide significant loci: chr.1q31.3 (CFH locus; rs3753396-A; =0.20; 95% CI, 0.14 to 0.25; =1.52x10 ) and chr.19p13.3 (C3 locus; rs11569470-G; =0.19; 95% CI, 0.13 to 0.24; =1.29x10 ). These two loci explained approximately 2% of variance in C3 levels. GWAS for C4 levels involved 3998 individuals and revealed a genome-wide significant locus at chr.6p21.32 (C4 locus; rs3135353-C; =0.40; 95% CI, 0.34 to 0.45; =4.58x10 ). This locus explained approximately 13% of variance in C4 levels. The multiallelic copy number variant analysis defined two structural genomic C4 variants with large effect on blood C4 levels: C4-BS ( =-0.36; 95% CI, -0.42 to -0.30; =2.98x10 ) and C4-AL-BS ( =0.25; 95% CI, 0.21 to 0.29; =8.11x10 ). 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subjects Adult
Aged
Alleles
Clinical Research
Complement Activation - genetics
Complement C3 - genetics
Complement C3 - metabolism
Complement C4 - genetics
Complement C4 - metabolism
Databases, Genetic
Epidemiologic Studies
Female
Gene Dosage
Genetic Loci
Genetic Variation
Genome-Wide Association Study
Humans
Male
Medical Record Linkage
Medical Records
Middle Aged
Young Adult
title Medical Records-Based Genetic Studies of the Complement System
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