SNP Report

Basic Info

Name	rs1798972 dbSNP Ensembl
Location	chr13:50167951 - 50167951(1)
Variant Alleles	G/A
Ancestral Allele	A
Minor Allele	G
Minor Allele Frequence	0.421526
Functional Annotation	intron_variant; non_coding_transcript_variant; upstream_gene_variant.
Consequence to Transcript	intron_variant(ENST00000461527, ENST00000463474, ENST00000467721, ENST00000468168, ENST00000468522, ENST00000476738, ENST00000486895, ENST00000490577, ENST00000491341, ENST00000491615); non_coding_transcript_variant(ENST00000461527, ENST00000463474, ENST00000467721, ENST00000468168, ENST00000468522, ENST00000476738, ENST00000486895, ENST00000490577, ENST00000491341, ENST00000491615); upstream_gene_variant(ENST00000495613)
No. of Studies	1 (Positive: 0; Negative: 0; Trend: 1)
Source	Literature
Overlap with SZ?	NO
Overlap with MDD?	NO

SNP related studies (count: 1)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result Category
Djurovic, S.,2010			Combined analysis: for Iceland (replication sample): P-value...... Combined analysis: for Iceland (replication sample): P-value = 0.003414, OR=0.82, Stouffer's z value=0.0000188 More...	Suggestive association was found(P-values ranging from 5.39E...... Suggestive association was found(P-values ranging from 5.39E?07 to 9.95E?05). More...	Trend

SNP related genes (count: 2)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
ST13P4	suppression of tumorigenicity 13 (colon carcinoma) (Hsp70 interacting protein) pseudogene 4	13q14	Mapped by Literature SNP
DLEU1	deleted in lymphocytic leukemia 1 (non-protein coding)	13q14.3	Mapped by Literature SNP

SNPs in LD with rs1798972 (count: 4) View in gBrowse (chr13:50161840..50171259 )

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

rs_ID	Functional Annotation	r²[population]
rs2066612	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.883[CEU]; 0.951[TSI]
rs1015878	intron_variant; non_coding_transcript_variant	0.954[CEU]
rs1798977	intron_variant; non_coding_transcript_variant	1.0[CEU]
rs790534	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.922[CEU]

Overlap with SZ from cross-disorder studies (count: 0)

Overlap with MDD from cross-disorder studies (count: 0)