SNP Report

Basic Info

Name	rs1705236 dbSNP Ensembl
Location	chr12:71151778 - 71151778(1)
Variant Alleles	T/A
Ancestral Allele	T
Minor Allele	A
Minor Allele Frequence	0.0710863
Functional Annotation	intron_variant; non_coding_transcript_variant.
Consequence to Transcript	intron_variant(ENST00000247829, ENST00000393330, ENST00000546561, ENST00000552786); non_coding_transcript_variant(ENST00000552786)
No. of Studies	2 (Positive: 0; Negative: 1; Trend: 1)
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
Sklar, P., 2008	T/A		CMH (Cochran-Mantel-Haenszel) P-value = 6.11E-07, allelic P-...... CMH (Cochran-Mantel-Haenszel) P-value = 6.11E-07, allelic P-value = 1.47E-06, OR=0.58, pSNP test P-value = 1.46E-06, pHAP test P-value = 7.57E-07, r²=0.87 More...		Trend
Scholz, C. J.,2010	T/A		Cochran-Armitage test (dominant model): Bonferroni-Corrected...... Cochran-Armitage test (dominant model): Bonferroni-Corrected P-value = 1 More...	No significant association was observed in BD. No significant association was observed in BD.	Negative

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
TSPAN8	tetraspanin 8	12q14.1-q21.1	2(1/0/1)

SNPs in LD with rs1705236 (count: 9) View in gBrowse (chr12:71025331..71272096 )

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]
rs1705235	intron_variant; non_coding_transcript_variant	1.0[CEU]
rs7960014	intron_variant; non_coding_transcript_variant	1.0[CEU]
rs1798105	intron_variant; non_coding_transcript_variant	1.0[CEU]
rs7959855	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.848[CEU]
rs1705259	intron_variant; non_coding_transcript_variant	1.0[CEU]
rs7312925	intron_variant; non_coding_transcript_variant	0.848[CEU]
rs1798082	intron_variant; non_coding_transcript_variant	1.0[CEU]
rs17109234	intron_variant; non_coding_transcript_variant	0.848[CEU]
rs1355370	intron_variant; non_coding_transcript_variant	1.0[CEU]; 0.895[TSI]

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

Reference	Statistical Result	Description	Result Category
Scholz, C. J.,2010	Cochran-Armitage test (dominant model):Bonferroni-Corrected P-value = 1	No significant association was observed.	Negative

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