SNP Report

Basic Info

Name	rs9315885 dbSNP Ensembl
Location	chr13:42068674 - 42068674(1)
Variant Alleles	C/T
Ancestral Allele	T
Minor Allele	C
Minor Allele Frequence	0.414736
Functional Annotation	downstream_gene_variant; intron_variant.
Consequence to Transcript	downstream_gene_variant(ENST00000403865, ENST00000611224); intron_variant(ENST00000261491, ENST00000337343, ENST00000379274)
No. of Studies	6 (Positive: 0; Negative: 6; Trend: 0)
Source	Literature
Overlap with SZ?	YES
Overlap with MDD?	YES

SNP related studies (count: 6)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result Category
Zeng, Z.,2011		T	Allelic association: P-value = 0.453, permutated P-value = 0...... Allelic association: P-value = 0.453, permutated P-value = 0.995 for BPD; P-value = 0.256, permutated P-value = 0.915 for BPDI More...	No significant association was observed in BD. No significant association was observed in BD.	Negative
Ollila, H. M.,2009	T/C		FBAT: P-value = 0.069024 FBAT: P-value = 0.069024	No significant association was observed No significant association was observed	Negative
Takata, A.,2011(a)	T/C		Fisher's exact test: allele P-value = 0.9166, genotype P-val...... Fisher's exact test: allele P-value = 0.9166, genotype P-value = 0.9094 More...	No significant association was observed in BD. No significant association was observed in BD.	Negative
Squassina, A.,2009		T	Alelle association: P-value = 0.035permutation P-value = 0.0...... Alelle association: P-value = 0.035permutation P-value = 0.073 More...	No significant association was observed No significant association was observed	Negative
Baum, A. E., 2008 (a)		T	P-value = 0.005 when genotyped individually in the test samp...... P-value = 0.005 when genotyped individually in the test sample (NIMH); P-value = 0.006 when individually genotyped in the Replication sample (German); P-value = 0.0001 in the combined dataset. OR (95% CI)=1.26 (1.12-1.42) More...	significant at the P < 0.05 level in both samples. significant at the P < 0.05 level in both samples.	Negative
Baum, A. E., 2008 (b)		T	Random effects P-value = 0.042; DerSimonian-Laird (random e...... Random effects P-value = 0.042; DerSimonian-Laird (random effects) OR (95% CI)=1.18 (1.01-1.37) More...		Negative

SNP related genes (count: 2)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
DGKH	diacylglycerol kinase, eta	13q13.3	6(3/3/0)
MAPK6PS3	mitogen-activated protein kinase 6 pseudogene 3	13q14.13	Mapped by Literature SNP

SNPs in LD with rs9315885 (count: 11) View in gBrowse (chr13:42068410..42086709 )

The LD data used here is based on HapMap rel#27. LD SNP pairs were selected with a threshold r²<=0.8.

Literature-origin SNPs (count: 0)

LD-proxies (count: 11)

rs_ID	Functional Annotation	r²[population]
rs9525566	downstream_gene_variant; intron_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant	0.91[CHB]; 0.824[JPT]
rs669642	intron_variant	0.868[CHB]; 0.824[JPT]
rs9562372	intron_variant; upstream_gene_variant	0.825[CHB]
rs9566910	intron_variant	0.825[CHB]
rs9532987	intron_variant; upstream_gene_variant	1.0[CEU]; 1.0[CHB]; 1.0[JPT]
rs4142112	intron_variant; upstream_gene_variant	1.0[CEU]; 1.0[CHB]; 1.0[JPT]
rs9532985	downstream_gene_variant; intron_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant	0.8[CEU]; 0.91[CHB]; 0.865[JPT]
rs9566906	downstream_gene_variant; intron_variant	0.825[CHB]
rs2253650	intron_variant	0.868[CHB]; 0.824[JPT]
rs7990452	intron_variant; upstream_gene_variant	1.0[CEU]; 1.0[CHB]; 1.0[JPT]
rs9532989	intron_variant; upstream_gene_variant	0.958[CEU]; 1.0[TSI]; 1.0[CHB]; 1.0[CHD]; 1.0[JPT]

Overlap with SZ from cross-disorder studies (count: 1)

Reference	Statistical Result	Description	Result Category
Zeng, Z.,2011	Allelic association:P-value = 0.014, permutated P-value = 0.127 for SCZ	No significant association was observed after permutation.	Negative

Overlap with MDD from cross-disorder studies (count: 1)

Reference	Statistical Result	Description	Result Category
Zeng, Z.,2011	Allelic association:P-value > 0.05 for MDD.	No significant association was observed after permutation.	Negative