SNP Detail For rs11191580
1.Mapping Information
Human SNP ID rs11191580
Human chromosome chr10
Human SNP position 103146454
Pig chromosome chr14
Pig SNP position 124090740
2.Annotation Information
PubMed ID21926974
JournalNat Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/21926974
StudyGenome-wide association study identifies five new schizophrenia loci.
Disease/TraitSchizophrenia
Initial sample9,394 European ancestry cases, 12,462 European ancestry controls
Replication sample8,442 European ancestry cases, 21,397 European ancestry controls
Region10q24.33
Chromosome idchr10
Chromosome position103146454
Reported geneNT5C2
Mapped geneNT5C2
Upstream gene id
Downstream gene id
SNP gene ids22978
Upstream gene distance
Downstream gene distance
SNP risk allelers11191580-T
SNPsrs11191580
Merged0
SNP id current11191580
Contextintron_variant
Intergenic0
Allele frequency0.91
P value0.00000003
Pvalue mlog7.52287874528033
P value text
Or beta1.2
%95 Ci[1.13-1.26]
PlatformAffymetrix, Illumina [1252901] (imputed)
CNVN
Mapped traitschizophrenia
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0000692
Study accessionGCST001242
PubMed ID22688191
JournalMol Psychiatry
Linkwww.ncbi.nlm.nih.gov/pubmed/22688191
StudyGenome-wide association study in a Swedish population yields support for greater CNV and MHC involvement in schizophrenia compared with bipolar disorder.
Disease/TraitSchizophrenia
Initial sample2,111 European ancestry cases, 2,535 European ancestry controls
Replication sample11,271 European ancestry cases, 14,601 European ancestry controls
Region10q24.33
Chromosome idchr10
Chromosome position103146454
Reported geneNT5C2, other genes, CNNM2
Mapped geneNT5C2
Upstream gene id
Downstream gene id
SNP gene ids22978
Upstream gene distance
Downstream gene distance
SNP risk allelers11191580-?
SNPsrs11191580
Merged0
SNP id current11191580
Contextintron_variant
Intergenic0
Allele frequencyNR
P value0.000000002
Pvalue mlog8.69897000433601
P value text
Or beta1.23
%95 Ci[NR]
PlatformAffymetrix [745006]
CNVN
Mapped traitschizophrenia
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0000692
Study accessionGCST001565
PubMed ID23453885
JournalLancet
Linkwww.ncbi.nlm.nih.gov/pubmed/23453885
StudyIdentification of risk loci with shared effects on five major psychiatric disorders: a genome-wide analysis.
Disease/TraitAutism spectrum disorder, attention deficit-hyperactivity disorder, bipolar disorder, major depressive disorder, and schizophrenia (combined)
Initial sample6,990 European ancestry Bipolar disorder cases, 9,227 European ancestry Major depressive disorder cases, 9,379 European ancestry Schizophrenia cases, 161 European ancestry Autism spectrum disorder cases, 4,788 European ancestry Autism spectrum disorder tr
Replication sampleNA
Region10q24.33
Chromosome idchr10
Chromosome position103146454
Reported geneNT5C2
Mapped geneNT5C2
Upstream gene id
Downstream gene id
SNP gene ids22978
Upstream gene distance
Downstream gene distance
SNP risk allelers11191580-?
SNPsrs11191580
Merged0
SNP id current11191580
Contextintron_variant
Intergenic0
Allele frequency0.911
P value0.00000001
Pvalue mlog8
P value text(Modelling analysis)
Or beta
%95 Ci
PlatformNR [1252901] (imputed)
CNVN
Mapped traitattention deficit hyperactivity disorder, unipolar depression, schizophrenia, autism spectrum disorder, bipolar disorder
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0003888, http://www.ebi.ac.uk/efo/EFO_0003761, http://www.ebi.ac.uk/efo/EFO_0000692, http://www.ebi.ac.uk/efo/EFO_0003756, http://www.ebi.ac.uk/efo/EFO_0000289
Study accessionGCST001877
PubMed ID24861553
JournalHum Mol Genet
Linkwww.ncbi.nlm.nih.gov/pubmed/24861553
StudyMeta-analysis of genome-wide association studies in East Asian-ancestry populations identifies four new loci for body mass index.
Disease/TraitBody mass index
Initial sample82,438 East Asian ancestry individuals, 4,301 South East Asian ancestry individuals
Replication sampleUp to 47,352 East Asian ancestry individuals
Region10q24.33
Chromosome idchr10
Chromosome position103146454
Reported geneNT5C2
Mapped geneNT5C2
Upstream gene id
Downstream gene id
SNP gene ids22978
Upstream gene distance
Downstream gene distance
SNP risk allelers11191580-C
SNPsrs11191580
Merged0
SNP id current11191580
Contextintron_variant
Intergenic0
Allele frequency0.27
P value0.00000004
Pvalue mlog7.39794000867203
P value text
Or beta0.0295
%95 Ci[0.019-0.04] unit increase
PlatformAffymetrix, Illumina [~ 2500000] (imputed)
CNVN
Mapped traitbody mass index
Mapped trait URIhttp://www.ebi.ac.uk/efo/EFO_0004340
Study accessionGCST002461