SNP Report

Basic Info

Name	rs2304672 dbSNP Ensembl
Location	chr2:238277948 - 238277948(1)
Variant Alleles	G/C
Ancestral Allele	G
Minor Allele	C
Minor Allele Frequence	0.0892572
Functional Annotation	5_prime_UTR_variant; upstream_gene_variant.
Consequence to Transcript	5_prime_UTR_variant(ENST00000254657, ENST00000431832); upstream_gene_variant(ENST00000355768)
No. of Studies	2 (Positive: 1; Negative: 1; Trend: 0)
Source	Literature
Overlap with SZ?	YES
Overlap with MDD?	NO

SNP related studies (count: 2)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result Category
Mansour, H. A.,2009	C/G		Single SNP-based analyses: Trends test P-value = 0.342 in BP...... Single SNP-based analyses: Trends test P-value = 0.342 in BPI More...	No significant association was observed No significant association was observed	Negative
Kripke, D. F.,2009	G/C		TDT: In BP: OR=1.6, CHISQ=7.615, P-value = 0.0058, empirical...... TDT: In BP: OR=1.6, CHISQ=7.615, P-value = 0.0058, empirical P-value = 0.0123, corrected empirical P-value = 0.5972 More...	Significant association was observed in the BP group. Significant association was observed in the BP group.	Positive

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
PER2	period circadian clock 2	2q37.3	7(1/6/0)

SNPs in LD with rs2304672 (count: 10) View in gBrowse (chr2:238237319..238294521 )

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]
rs4663299	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.879[CEU]
rs4663866	downstream_gene_variant; intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.879[CEU]; 1.0[TSI]
rs2304670	downstream_gene_variant; synonymous_variant	0.935[TSI]
rs13033501	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.879[CEU]; 1.0[TSI]
rs4663301	downstream_gene_variant; intron_variant; non_coding_transcript_variant; upstream_gene_variant	1.0[CEU]
rs6741269	intron_variant; non_coding_transcript_variant	0.879[CEU]; 1.0[TSI]
rs4663865	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.879[CEU]; 1.0[TSI]
rs2304668	downstream_gene_variant; intron_variant	0.879[CEU]; 1.0[TSI]
rs35390666	intron_variant; upstream_gene_variant	1.0[CEU]; 1.0[TSI]
rs13026475	intron_variant; non_coding_transcript_variant	0.879[CEU]; 1.0[TSI]

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

Reference	Statistical Result	Description	Result Category
Mansour, H. A.,2009	Single SNP-based analyses:Trends test P-value = 0.048 in SZ	Significant association was observed	Positive

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