DAPK1 variants are associated with Alzheimer's disease and allele-specific expression
Genetic factors play an important role in the etiology of late-onset Alzheimer's disease (LOAD). We tested gene-centric single nucleotide polymorphisms (SNPs) on chromosome 9 and identified two SNPs in the death-associated protein kinase, DAPK1, that show significant association with LOAD. SNP...
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| Veröffentlicht in: | Human molecular genetics 2006-09, Vol.15 (17), p.2560-2568 |
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| creator | Li, Yonghong Grupe, Andrew Rowland, Charles Nowotny, Petra Kauwe, John S.K. Smemo, Scott Hinrichs, Anthony Tacey, Kristina Toombs, Timothy A. Kwok, Shirley Catanese, Joseph White, Thomas J. Maxwell, Taylor J. Hollingworth, Paul Abraham, Richard Rubinsztein, David C. Brayne, Carol Wavrant-De Vrièze, Fabienne Hardy, John O'Donovan, Michael Lovestone, Simon Morris, John C. Thal, Leon J. Owen, Michael Williams, Julie Goate, Alison |
| description | Genetic factors play an important role in the etiology of late-onset Alzheimer's disease (LOAD). We tested gene-centric single nucleotide polymorphisms (SNPs) on chromosome 9 and identified two SNPs in the death-associated protein kinase, DAPK1, that show significant association with LOAD. SNP rs4878104 was significantly associated with LOAD in our discovery case–control sample set (WU) and replicated in each of two initial validation case–control sample sets (P |
| doi_str_mv | 10.1093/hmg/ddl178 |
| format | Article |
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We tested gene-centric single nucleotide polymorphisms (SNPs) on chromosome 9 and identified two SNPs in the death-associated protein kinase, DAPK1, that show significant association with LOAD. SNP rs4878104 was significantly associated with LOAD in our discovery case–control sample set (WU) and replicated in each of two initial validation case–control sample sets (P<0.05, UK1, SD). The risk-allele frequency of this SNP showed a similar direction in three other case–control sample sets. A meta-analysis of the six sample sets combined, totaling 2012 cases and 2336 controls, showed an allelic P-value of 0.0016 and an odds ratio (OR) of 0.87 (95%CI: 0.79–0.95). Minor allele homozygotes had a consistently lower risk than major allele homozygotes in the discovery and initial two replication sample sets, which remained significant in the meta-analysis of all six sample sets (OR=0.7, 95%CI: 0.58–0.85), whereas the risk for heterozygous subjects was not significantly different from that of major allele homozygotes. A second SNP, rs4877365, which is in high linkage disequilibrium with rs4878104 (r2=0.64), was also significantly associated with LOAD (meta P=0.0017 in the initial three sample sets). Furthermore, DAPK1 transcripts show differential allelic gene expression, and both rs4878104 and rs4877365 were significantly associated with DAPK1 allele-specific expression (P=0.015 to <0.0001). These data suggest that genetic variation in DAPK1 modulates susceptibility to LOAD.</description><identifier>ISSN: 0964-6906</identifier><identifier>EISSN: 1460-2083</identifier><identifier>DOI: 10.1093/hmg/ddl178</identifier><identifier>PMID: 16847012</identifier><identifier>CODEN: HNGEE5</identifier><language>eng</language><publisher>Oxford: Oxford University Press</publisher><subject>Alleles ; Alzheimer Disease - genetics ; Apoptosis Regulatory Proteins - genetics ; Binding Sites ; Biological and medical sciences ; Calcium-Calmodulin-Dependent Protein Kinases - genetics ; Case-Control Studies ; Chromosomes, Human, Pair 9 - genetics ; Databases, Nucleic Acid ; Death-Associated Protein Kinases ; Degenerative and inherited degenerative diseases of the nervous system. Leukodystrophies. Prion diseases ; Female ; Fundamental and applied biological sciences. Psychology ; Gene Frequency ; Genetic Linkage ; Genetic Markers ; Genetic Predisposition to Disease ; Genetics of eukaryotes. Biological and molecular evolution ; Humans ; Linkage Disequilibrium ; Male ; Medical sciences ; Molecular and cellular biology ; Neurology ; Polymorphism, Single Nucleotide</subject><ispartof>Human molecular genetics, 2006-09, Vol.15 (17), p.2560-2568</ispartof><rights>2006 INIST-CNRS</rights><rights>Copyright Oxford University Press(England) Sep 1, 2006</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c476t-70f2d8546ebb7e83135ce6b6f40d3a8ca2ceec407ce70eb3c44ef01e1bcbb50b3</citedby><cites>FETCH-LOGICAL-c476t-70f2d8546ebb7e83135ce6b6f40d3a8ca2ceec407ce70eb3c44ef01e1bcbb50b3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,776,780,27901,27902</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=18092500$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/16847012$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Li, Yonghong</creatorcontrib><creatorcontrib>Grupe, Andrew</creatorcontrib><creatorcontrib>Rowland, Charles</creatorcontrib><creatorcontrib>Nowotny, Petra</creatorcontrib><creatorcontrib>Kauwe, John S.K.</creatorcontrib><creatorcontrib>Smemo, Scott</creatorcontrib><creatorcontrib>Hinrichs, Anthony</creatorcontrib><creatorcontrib>Tacey, Kristina</creatorcontrib><creatorcontrib>Toombs, Timothy A.</creatorcontrib><creatorcontrib>Kwok, Shirley</creatorcontrib><creatorcontrib>Catanese, Joseph</creatorcontrib><creatorcontrib>White, Thomas J.</creatorcontrib><creatorcontrib>Maxwell, Taylor J.</creatorcontrib><creatorcontrib>Hollingworth, Paul</creatorcontrib><creatorcontrib>Abraham, Richard</creatorcontrib><creatorcontrib>Rubinsztein, David C.</creatorcontrib><creatorcontrib>Brayne, Carol</creatorcontrib><creatorcontrib>Wavrant-De Vrièze, Fabienne</creatorcontrib><creatorcontrib>Hardy, John</creatorcontrib><creatorcontrib>O'Donovan, Michael</creatorcontrib><creatorcontrib>Lovestone, Simon</creatorcontrib><creatorcontrib>Morris, John C.</creatorcontrib><creatorcontrib>Thal, Leon J.</creatorcontrib><creatorcontrib>Owen, Michael</creatorcontrib><creatorcontrib>Williams, Julie</creatorcontrib><creatorcontrib>Goate, Alison</creatorcontrib><title>DAPK1 variants are associated with Alzheimer's disease and allele-specific expression</title><title>Human molecular genetics</title><addtitle>Hum Mol Genet</addtitle><description>Genetic factors play an important role in the etiology of late-onset Alzheimer's disease (LOAD). We tested gene-centric single nucleotide polymorphisms (SNPs) on chromosome 9 and identified two SNPs in the death-associated protein kinase, DAPK1, that show significant association with LOAD. SNP rs4878104 was significantly associated with LOAD in our discovery case–control sample set (WU) and replicated in each of two initial validation case–control sample sets (P<0.05, UK1, SD). The risk-allele frequency of this SNP showed a similar direction in three other case–control sample sets. A meta-analysis of the six sample sets combined, totaling 2012 cases and 2336 controls, showed an allelic P-value of 0.0016 and an odds ratio (OR) of 0.87 (95%CI: 0.79–0.95). Minor allele homozygotes had a consistently lower risk than major allele homozygotes in the discovery and initial two replication sample sets, which remained significant in the meta-analysis of all six sample sets (OR=0.7, 95%CI: 0.58–0.85), whereas the risk for heterozygous subjects was not significantly different from that of major allele homozygotes. A second SNP, rs4877365, which is in high linkage disequilibrium with rs4878104 (r2=0.64), was also significantly associated with LOAD (meta P=0.0017 in the initial three sample sets). Furthermore, DAPK1 transcripts show differential allelic gene expression, and both rs4878104 and rs4877365 were significantly associated with DAPK1 allele-specific expression (P=0.015 to <0.0001). These data suggest that genetic variation in DAPK1 modulates susceptibility to LOAD.</description><subject>Alleles</subject><subject>Alzheimer Disease - genetics</subject><subject>Apoptosis Regulatory Proteins - genetics</subject><subject>Binding Sites</subject><subject>Biological and medical sciences</subject><subject>Calcium-Calmodulin-Dependent Protein Kinases - genetics</subject><subject>Case-Control Studies</subject><subject>Chromosomes, Human, Pair 9 - genetics</subject><subject>Databases, Nucleic Acid</subject><subject>Death-Associated Protein Kinases</subject><subject>Degenerative and inherited degenerative diseases of the nervous system. Leukodystrophies. Prion diseases</subject><subject>Female</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Gene Frequency</subject><subject>Genetic Linkage</subject><subject>Genetic Markers</subject><subject>Genetic Predisposition to Disease</subject><subject>Genetics of eukaryotes. Biological and molecular evolution</subject><subject>Humans</subject><subject>Linkage Disequilibrium</subject><subject>Male</subject><subject>Medical sciences</subject><subject>Molecular and cellular biology</subject><subject>Neurology</subject><subject>Polymorphism, Single Nucleotide</subject><issn>0964-6906</issn><issn>1460-2083</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2006</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqF0VFrFDEQB_Agij2rL34AWYQqCGsnm2ySfTxqa60HKlgQX0KSnfVSs7tnZq9WP71b7rDgi0_zMD-Gmfkz9pTDaw6NOF73347bNnFt7rEFlwrKCoy4zxbQKFmqBtQBe0R0BcCVFPohO-DKSA28WrDLN8uP73lx7XJ0w0SFy1g4ojFEN2Fb_IzTulim32uMPeaXVLSR0NFshrZwKWHCkjYYYhdDgTebjERxHB6zB51LhE_29ZBdnp1-PjkvVx_evjtZrsogtZpKDV3Vmloq9F6jEVzUAZVXnYRWOBNcFRCDBB1QA3oRpMQOOHIfvK_Bi0P2Yjd3k8cfW6TJ9pECpuQGHLdkldE1b4T5L-SNlPNTYIbP_4FX4zYP8xG24lxUSoKc0asdCnkkytjZTY69y78sB3sbiZ0jsbtIZvxsP3Hre2zv6D6DGRztgaPgUpfdECLdOQNNVcPtauXORZrw5m_f5e9WaaFre_7lq72oPl3ACs6sEX8AOMWjxQ</recordid><startdate>20060901</startdate><enddate>20060901</enddate><creator>Li, Yonghong</creator><creator>Grupe, Andrew</creator><creator>Rowland, Charles</creator><creator>Nowotny, Petra</creator><creator>Kauwe, John S.K.</creator><creator>Smemo, Scott</creator><creator>Hinrichs, Anthony</creator><creator>Tacey, Kristina</creator><creator>Toombs, Timothy A.</creator><creator>Kwok, Shirley</creator><creator>Catanese, Joseph</creator><creator>White, Thomas J.</creator><creator>Maxwell, Taylor J.</creator><creator>Hollingworth, Paul</creator><creator>Abraham, Richard</creator><creator>Rubinsztein, David C.</creator><creator>Brayne, Carol</creator><creator>Wavrant-De Vrièze, Fabienne</creator><creator>Hardy, John</creator><creator>O'Donovan, Michael</creator><creator>Lovestone, Simon</creator><creator>Morris, John C.</creator><creator>Thal, Leon J.</creator><creator>Owen, Michael</creator><creator>Williams, Julie</creator><creator>Goate, Alison</creator><general>Oxford University Press</general><general>Oxford Publishing Limited (England)</general><scope>BSCLL</scope><scope>IQODW</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7QP</scope><scope>7TK</scope><scope>8FD</scope><scope>FR3</scope><scope>K9.</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20060901</creationdate><title>DAPK1 variants are associated with Alzheimer's disease and allele-specific expression</title><author>Li, Yonghong ; Grupe, Andrew ; Rowland, Charles ; Nowotny, Petra ; Kauwe, John S.K. ; Smemo, Scott ; Hinrichs, Anthony ; Tacey, Kristina ; Toombs, Timothy A. ; Kwok, Shirley ; Catanese, Joseph ; White, Thomas J. ; Maxwell, Taylor J. ; Hollingworth, Paul ; Abraham, Richard ; Rubinsztein, David C. ; Brayne, Carol ; Wavrant-De Vrièze, Fabienne ; Hardy, John ; O'Donovan, Michael ; Lovestone, Simon ; Morris, John C. ; Thal, Leon J. ; Owen, Michael ; Williams, Julie ; Goate, Alison</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c476t-70f2d8546ebb7e83135ce6b6f40d3a8ca2ceec407ce70eb3c44ef01e1bcbb50b3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2006</creationdate><topic>Alleles</topic><topic>Alzheimer Disease - genetics</topic><topic>Apoptosis Regulatory Proteins - genetics</topic><topic>Binding Sites</topic><topic>Biological and medical sciences</topic><topic>Calcium-Calmodulin-Dependent Protein Kinases - genetics</topic><topic>Case-Control Studies</topic><topic>Chromosomes, Human, Pair 9 - genetics</topic><topic>Databases, Nucleic Acid</topic><topic>Death-Associated Protein Kinases</topic><topic>Degenerative and inherited degenerative diseases of the nervous system. Leukodystrophies. Prion diseases</topic><topic>Female</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>Gene Frequency</topic><topic>Genetic Linkage</topic><topic>Genetic Markers</topic><topic>Genetic Predisposition to Disease</topic><topic>Genetics of eukaryotes. Biological and molecular evolution</topic><topic>Humans</topic><topic>Linkage Disequilibrium</topic><topic>Male</topic><topic>Medical sciences</topic><topic>Molecular and cellular biology</topic><topic>Neurology</topic><topic>Polymorphism, Single Nucleotide</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Li, Yonghong</creatorcontrib><creatorcontrib>Grupe, Andrew</creatorcontrib><creatorcontrib>Rowland, Charles</creatorcontrib><creatorcontrib>Nowotny, Petra</creatorcontrib><creatorcontrib>Kauwe, John S.K.</creatorcontrib><creatorcontrib>Smemo, Scott</creatorcontrib><creatorcontrib>Hinrichs, Anthony</creatorcontrib><creatorcontrib>Tacey, Kristina</creatorcontrib><creatorcontrib>Toombs, Timothy A.</creatorcontrib><creatorcontrib>Kwok, Shirley</creatorcontrib><creatorcontrib>Catanese, Joseph</creatorcontrib><creatorcontrib>White, Thomas J.</creatorcontrib><creatorcontrib>Maxwell, Taylor J.</creatorcontrib><creatorcontrib>Hollingworth, Paul</creatorcontrib><creatorcontrib>Abraham, Richard</creatorcontrib><creatorcontrib>Rubinsztein, David C.</creatorcontrib><creatorcontrib>Brayne, Carol</creatorcontrib><creatorcontrib>Wavrant-De Vrièze, Fabienne</creatorcontrib><creatorcontrib>Hardy, John</creatorcontrib><creatorcontrib>O'Donovan, Michael</creatorcontrib><creatorcontrib>Lovestone, Simon</creatorcontrib><creatorcontrib>Morris, John C.</creatorcontrib><creatorcontrib>Thal, Leon J.</creatorcontrib><creatorcontrib>Owen, Michael</creatorcontrib><creatorcontrib>Williams, Julie</creatorcontrib><creatorcontrib>Goate, Alison</creatorcontrib><collection>Istex</collection><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Calcium & Calcified Tissue Abstracts</collection><collection>Neurosciences Abstracts</collection><collection>Technology Research Database</collection><collection>Engineering Research Database</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Human molecular genetics</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Li, Yonghong</au><au>Grupe, Andrew</au><au>Rowland, Charles</au><au>Nowotny, Petra</au><au>Kauwe, John S.K.</au><au>Smemo, Scott</au><au>Hinrichs, Anthony</au><au>Tacey, Kristina</au><au>Toombs, Timothy A.</au><au>Kwok, Shirley</au><au>Catanese, Joseph</au><au>White, Thomas J.</au><au>Maxwell, Taylor J.</au><au>Hollingworth, Paul</au><au>Abraham, Richard</au><au>Rubinsztein, David C.</au><au>Brayne, Carol</au><au>Wavrant-De Vrièze, Fabienne</au><au>Hardy, John</au><au>O'Donovan, Michael</au><au>Lovestone, Simon</au><au>Morris, John C.</au><au>Thal, Leon J.</au><au>Owen, Michael</au><au>Williams, Julie</au><au>Goate, Alison</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>DAPK1 variants are associated with Alzheimer's disease and allele-specific expression</atitle><jtitle>Human molecular genetics</jtitle><addtitle>Hum Mol Genet</addtitle><date>2006-09-01</date><risdate>2006</risdate><volume>15</volume><issue>17</issue><spage>2560</spage><epage>2568</epage><pages>2560-2568</pages><issn>0964-6906</issn><eissn>1460-2083</eissn><coden>HNGEE5</coden><abstract>Genetic factors play an important role in the etiology of late-onset Alzheimer's disease (LOAD). We tested gene-centric single nucleotide polymorphisms (SNPs) on chromosome 9 and identified two SNPs in the death-associated protein kinase, DAPK1, that show significant association with LOAD. SNP rs4878104 was significantly associated with LOAD in our discovery case–control sample set (WU) and replicated in each of two initial validation case–control sample sets (P<0.05, UK1, SD). The risk-allele frequency of this SNP showed a similar direction in three other case–control sample sets. A meta-analysis of the six sample sets combined, totaling 2012 cases and 2336 controls, showed an allelic P-value of 0.0016 and an odds ratio (OR) of 0.87 (95%CI: 0.79–0.95). Minor allele homozygotes had a consistently lower risk than major allele homozygotes in the discovery and initial two replication sample sets, which remained significant in the meta-analysis of all six sample sets (OR=0.7, 95%CI: 0.58–0.85), whereas the risk for heterozygous subjects was not significantly different from that of major allele homozygotes. A second SNP, rs4877365, which is in high linkage disequilibrium with rs4878104 (r2=0.64), was also significantly associated with LOAD (meta P=0.0017 in the initial three sample sets). Furthermore, DAPK1 transcripts show differential allelic gene expression, and both rs4878104 and rs4877365 were significantly associated with DAPK1 allele-specific expression (P=0.015 to <0.0001). These data suggest that genetic variation in DAPK1 modulates susceptibility to LOAD.</abstract><cop>Oxford</cop><pub>Oxford University Press</pub><pmid>16847012</pmid><doi>10.1093/hmg/ddl178</doi><tpages>9</tpages><oa>free_for_read</oa></addata></record> |
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| source | Oxford University Press Journals All Titles (1996-Current); MEDLINE; EZB-FREE-00999 freely available EZB journals |
| subjects | Alleles Alzheimer Disease - genetics Apoptosis Regulatory Proteins - genetics Binding Sites Biological and medical sciences Calcium-Calmodulin-Dependent Protein Kinases - genetics Case-Control Studies Chromosomes, Human, Pair 9 - genetics Databases, Nucleic Acid Death-Associated Protein Kinases Degenerative and inherited degenerative diseases of the nervous system. Leukodystrophies. Prion diseases Female Fundamental and applied biological sciences. Psychology Gene Frequency Genetic Linkage Genetic Markers Genetic Predisposition to Disease Genetics of eukaryotes. Biological and molecular evolution Humans Linkage Disequilibrium Male Medical sciences Molecular and cellular biology Neurology Polymorphism, Single Nucleotide |
| title | DAPK1 variants are associated with Alzheimer's disease and allele-specific expression |
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