SNP Report

Basic Info

Name	rs11085829 dbSNP Ensembl
Location	chr19:13063498 - 13063498(1)
Variant Alleles	G/A
Ancestral Allele	G
Minor Allele	G
Minor Allele Frequence	0.422923
Functional Annotation	intron_variant; NMD_transcript_variant.
Consequence to Transcript	intron_variant(ENST00000358552, ENST00000360105, ENST00000397661, ENST00000585382, ENST00000585575, ENST00000586797, ENST00000587260, ENST00000587760, ENST00000588228, ENST00000592199); NMD_transcript_variant(ENST00000585382, ENST00000586797)
No. of Studies	2 (Positive: 0; Negative: 2; Trend: 0)
Source	Literature
Overlap with SZ?	NO
Overlap with MDD?	NO

SNP related studies (count: 2)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result Category
Sklar, P.,2011	A/G		Primary GWAS P-value(GC)=0.00000403, OR=0.87; replication P-...... Primary GWAS P-value(GC)=0.00000403, OR=0.87; replication P-value(1-sided)=0.175, OR=0.97; Combined GWAS and replication P-value(GC)=0.0000696, OR=0.92 More...	No significant association was observed. No significant association was observed.	Negative
Green, E. K.,2012	A/G		BD ImmunoChip:P-value = 0.98,OR = 1.001;ImmunoChip, PGC-BD c...... BD ImmunoChip:P-value = 0.98,OR = 1.001;ImmunoChip, PGC-BD combined data:P-balue = 0.000249,OR = 0.931 More...	No significant association was observed. No significant association was observed.	Negative

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
NFIX	nuclear factor I/X (CCAAT-binding transcription factor)	19p13.3	4(0/3/1)

SNPs in LD with rs11085829 (count: 6) View in gBrowse (chr19:13040294..13083958 )

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]
rs10423745	downstream_gene_variant; intron_variant; NMD_transcript_variant; upstream_gene_variant	1.0[CEU]; 0.977[TSI]
rs931068	intron_variant; NMD_transcript_variant	1.0[CEU]; 0.977[TSI]
rs1017180	downstream_gene_variant; intron_variant; NMD_transcript_variant	0.8[CEU]
rs1077151	intron_variant; NMD_transcript_variant	1.0[CEU]; 0.977[TSI]
rs931067	intron_variant; NMD_transcript_variant	0.8[CEU]
rs4926298	intron_variant; NMD_transcript_variant	1.0[CEU]; 0.977[TSI]

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

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