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User:JohnLloydScharf/Schizophrenia

From SNPedia

DYM gene[edit]

"A three-step case–control study of total of 2105 Japanese cases of schizophrenia and 2087 Japanese control subjects was carried out for tag single-nucleotide polymorphisms (SNPs) in the DYM gene and an association between an SNP, rs833497, and schizophrenia was identified (allelic P=2 × 10?5, in the total sample). DYM is the causal gene for Dyggve–Melchior–Clausen syndrome and this study shows the second neuropsychiatric disorder in which the DYM gene is involved. The present data support the involvement of Golgi function and vesicular transport in the presynapse in schizophrenia."
I suspect the risk allele is CC due to its low numbers in the general population of all the groups. SEE: :http://www.ncbi.nlm.nih.gov/SNP/snp_ref.cgi?rs=rs833497
  • rs833497 18 44862258 TT


10q22-q23 Implicates Neuregulin 3 or NEU3[edit]

Fine Mapping on Chromosome 10q22-q23 Implicates Neuregulin 3 in Schizophrenia[edit]

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2668048/table/tbl4/

Table 4:SNPs Strongly Associasted with Delusion Factor[edit]

rs10883866 C/G G
rs10748842 T/C C
rs6584400- G/A A

My results[edit]

rs10883866 10 83633619 CC
rs10748842 10 83639719 TT
rs6584400 10 83646506 AG

SCH[edit]

This snp in the gene ZDHHC8 does not appear to have any link to schizophrenia despite being quite popular in pubmed

I am an rs175174(G;G) (chr22 20,140,031 plus)

[PMID 17357072] associated with schizophrenia rs10790212-rs4938445-rs497768[edit]

http://www.snpedia.com/index.php/Rs10790212 "rs10790212","11","117207900","CC"
I am an rs10790212(C;C) (chr11 117,831,975 plus)
http://www.snpedia.com/index.php/Rs4938445 "rs4938445","11","117250213","GG
I am an rs4938445(G;G) (chr11 117,874,288 plus)
Rs497768-Not FTDNA Tested


rs211105, rs1800532 and rs7933505 related to schizophrenia-TPH1 gene[edit]

Rs211105-Not FTDNA Tested
Rs1800532-Not FTDNA Tested
http://www.snpedia.com/index.php/Rs7933505 "rs7933505","11","18002563","GG"
I am an rs7933505(G;G) (chr11 18,024,440 plus)


rs795009 and rs310762 have been linked to schizophrenia-SYN2 gene[edit]

Rs795009-Not FTDNA Tested
http://www.snpedia.com/index.php/Rs310762 "rs310762","3","12199151","CC"
I am an rs310762(C;C) (chr3 12,182,651 plus)


rs795009 and rs310762 have been linked to schizophrenia-DISC1 gene, known as R264Q.[edit]

Rs795009-Not FTDNA Tested
rs310762 3 12199151 CC

Misc Double[edit]

http://www.snpedia.com/index.php/Rs6675281 "rs6675281","1","230020724","CC"
I am an rs6675281(C;C) (chr1 231,818,355 plus) common
rs3738401 1 229896918 AG


http://www.snpedia.com/index.php/Rs2270641 rs2270641 8 20082746 GG
I am an rs2270641(G;G) (chr8 20,180,955 plus) 3.7x higher risk for schizophrenia


http://www.snpedia.com/index.php/Rs17101921 "rs17101921","10","123143285","GG"
I am an rs17101921(G;G) (chr10 121,393,781 plus) common in complete genomics


http://www.snpedia.com/index.php/Rs833497 "rs833497","18","44862258","TT"
I am an rs833497(T;T) (chr18 49,081,890 plus) -Normal


http://www.snpedia.com/index.php/Rs165599 "rs165599","22","18336781","AA"
I am an rs165599(A;A) (chr22 19,969,258 plus)


MISC-ONE[edit]


MISC-NONE[edit]


THE X FILES:[edit]


  • "rs3813929","X","113724776","CC"
I am an rs3813929(C;C) (chrX 114,584,047 plus) possible weight gain if taking olanzapine
rs3813929, also known as -759C/T, is a SNP in the 5-hydroxytryptamine (serotonin) receptor 2C HTR2C gene. A study of 107 patients with schizophrenia being treated with olanzapine reported a protective effect against weight-gain from the (T) allele of this SNP; zero patients (of 28) with a rs3813929(T) allele had a body mass index increase of >=10% (p=0.002), whereas (C;C) homozygotes did. This effect may also involve nearby SNP rs518147. T allele showed borderline significant association with higher BMI and incidence of lifetime major depressive disorder among 4978 persons from the European Prospective Investigation into Cancer (EPIC)-Norfolk study, however, only the association with BMI remained borderline significant within the full EPIC-Norfolk cohort (20,981 persons) http://www.snpedia.com/index.php/Rs3813929


  • "rs989638","X","122200788","TT"=AA
I am an rs989638(A;A) 23andme equivalent rs989638(T;T) (chrX 123,239,256 minus)
This SNP is part of a specific haplotype, rs989638-rs1034428-rs2227098 G-T-G (as oriented with respect to dbSNP) with an overall ~2x higher risk in females for schizophrenia (p=0.0008). [PMID 18163426]
http://www.snpedia.com/index.php/Rs989638


  • "rs2227098","X","122322643","CC"
I am an rs2227098(C;C) 23andme equivalent rs2227098(G;G) (chrX 123,361,111 minus)
This SNP is part of a specific haplotype, rs989638-rs1034428-rs2227098 G-T-G (as oriented with respect to dbSNP) with an overall ~2x higher risk in females for schizophrenia (p=0.0008). [PMID 18163426]
http://www.snpedia.com/index.php/Rs2227098



The Han Files[edit]

rs2024513(A) was associated with higher risk, at an odds ratio of 1.3 (CI: 1.07 - 1.56, p=0.006).[PMID 21477380]

TOP TEN[edit]

The "core" SNP helping to define one (of nine total) runs of homozygosity (ROH) potentially associated with increased risk for schizophrenia. Each region consists of at least 100 consecutive SNPs, generally spanning 500KB or more, for which both chromosomes in an individual were homozygous. The overall odds ratio for schizophrenia associated with inheriting 1, 2, or 3 of these 9 ROHs was calculated to be 3.3, 5.4, or 24, respectively, with 95% confidence intervals of (1.9-5.7), (3.7-16.1), and (6.9-83.9), respectively.[PMID 18077426]
Potentially independent of the ROH, the risk allele for this SNP in the orientation as displayed in HapMap v21a is (G).[PMID 18077426]
Potentially independent of the ROH, the risk allele for this SNP in the orientation as displayed in HapMap v21a is (T).[PMID 18077426]
Potentially independent of the ROH, the risk allele for this SNP in the orientation as displayed in HapMap v21a is (C).[PMID 18077426]
Potentially independent of the ROH, the risk allele for this SNP in the orientation as displayed in HapMap v21a is (T).[PMID 18077426]
Potentially independent of the ROH, the risk allele for this SNP in the orientation as displayed in HapMap v21a is (T).[PMID 18077426]
Potentially independent of the ROH, the risk allele for this SNP in the orientation as displayed in HapMap v21a is (T).[PMID 18077426]
Potentially independent of the ROH, the risk allele for this SNP in the orientation as displayed in HapMap v21a is (G).[PMID 18077426]
Potentially independent of the ROH, the risk allele for this SNP in the orientation as displayed in HapMap v21a is (C).[PMID 18077426]
Potentially independent of the ROH, the risk allele for this SNP in the orientation as displayed in HapMap v21a is (G).[PMID 18077426]
Genotype Effect
rs6280(C;C) better response to olanzapine
rs6280(C;T) normal
rs6280(T;T) normal

Misc[edit]

  • "rs13873","6","7836159","GG"
[PMID 19694819] Clustering by neurocognition for fine mapping of the schizophrenia susceptibility loci on chromosome 6p SNP rs13873 and haplotype rs1225934-rs13873 on BMP6-TXNDC5 genes were significantly associated with schizophrenia for the deficit cluster 1 but not for the deficit cluster 2 or nondeficit cluster. Our results provide further evidence that the BMP6-TXNDC5 locus on 6p24.3 may play a role in the selective impairments on sustained attention of schizophrenia. Wild type nucleotide: G

Variant nucleotide: T Chromosome strand orientation: forward

http://www.snpedia.com/index.php/Rs13873
  • C-C haplotype of rs11759115-rs7769372 was also positively associated with schizophrenia (permutated p=0.046)
http://www.snpedia.com/index.php/Rs11759115
"rs11759115","6","37749008","TT"
"rs7769372","6","37746540","CC"
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