ADHDgene Database

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Large-scale studies

Data Summary

Published Variant
- SNP: 1391
- CNV: 398
- Others: 173
Published Gene: 359
Published Region: 128
Pathway by PBA: 8
Study: 361

Detail ...

SNP Report

Basic Info

Name	rs3027400 dbSNP Ensembl
Location	ChrX:43592763(Fwd)
Variant Alleles	T/G
Ancestral Allele	G
Functional Annotation	downstream_gene_variant; intron_variant.
Consequence to Transcript	downstream_gene_variant(ENST00000497485) intron_variant(ENST00000338702; ENST00000542639)
No. of Studies	3 (significant: 3; non-significant: 0; trend: 0)
Source	Literature-origin

SNP related studies (count: 3)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result of Statistical Analysis
Guan L, 2009			single SNP association analyses: Nominal P-value=0.009, Empi...... single SNP association analyses: Nominal P-value=0.009, Empirical P-value=0.012 for ADHD; Nominal P-value=0.018, Empirical P-value=0.034 for ADHD-I More...	achieve nominal and empirical significance for ADHD and ADHD...... achieve nominal and empirical significance for ADHD and ADHD-I More...	Significant
Liu, L., 2011		T	TDT P-value=0.615 in all ADHD, P-value=0.212 in male ADHD, P...... TDT P-value=0.615 in all ADHD, P-value=0.212 in male ADHD, P-value=0.136 in female ADHD; P-value=0.951 in all ADHD-I, P-value=0.327 in male ADHD-I, P-value=0.085 in female ADHD-I; P-value=0.808 in all ADHD-C, P-value=0.948 in male ADHD-C, P-value=0.631 in female ADHD-C; Nominal P-value=0.011, Empirical P-value=0.031, X²=6.429 in ADHD-HI Trios; Nominal P-value=0.011, Empirical P-value=0.016, X²=6.533; Logistic Regression, P-value=0.777, OR=1.015; P-value<0.001, OR=0.982 after controlling for potentially confounding factors like age; P-value<0.001, OR=0.216 after controlling for potentially confounding factors like gender More...	No biased transmission of any allele of any of the five eval...... No biased transmission of any allele of any of the five evaluated polymorphisms was observed for the entire sample of ADHD, ADHD-I, or ADHD-C. We only found biased transmission of these SNPs in the ADHD-HI subgroup. No association was found for ADHD females or subtypes. The results showed that there was no different genotype distribution of any SNP after controlling for potentially confounding factors including gender and age. More...	Significant
Brookes K, 2006	A/C		UNPHASED TDT P-value=0.0494 UNPHASED TDT P-value=0.0494	significant association was observed in UNPHASED analysis significant association was observed in UNPHASED analysis	Significant

SNP related genes (count: 1)

Literature-origin genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (significant/non-significant/trend)
MAOA	monoamine oxidase A	Xp11.4-p11.3	20(13/7/0)

Genes from other sources (count: 0)

SNPs in LD with rs3027400 (count: 79) View in gBrowse (chrX:43420059..43612708 )

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: 18)

rs_ID	Functional Annotation	#studies(significant/non-significant/trend)	r²[population]

rs1137070	nc_transcript_variant; non_coding_exon_variant; synonymous_variant	4(3/1/0)	0.935[CEU]; 0.931[CHB]; 1.0[CHD]; 0.907[GIH]; 0.873[JPT]; 0.965[TSI]
rs2239448	intron_variant; upstream_gene_variant	3(3/0/0)	0.935[CEU]; 0.931[CHB]; 0.873[JPT]
rs5905702	intron_variant; nc_transcript_variant	1(0/1/0)	0.876[CEU]; 0.858[CHB]; 0.842[CHD]; 0.84[GIH]; 0.869[JPT]
rs2235185	intron_variant	1(1/0/0)	1.0[ASW]; 1.0[CEU]; 1.0[CHB]; 1.0[CHD]; 1.0[GIH]; 1.0[JPT]; 1.0[LWK]; 1.0[MEX]; 1.0[MKK]; 1.0[TSI]; 1.0[YRI]
rs12843268	intron_variant; nc_transcript_variant	3(2/1/0)	1.0[CEU]; 1.0[CHB]; 0.935[CHD]; 0.936[GIH]; 1.0[JPT]; 0.824[MEX]; 1.0[TSI]
rs5905859	downstream_gene_variant; intron_variant	2(2/0/0)	1.0[CHB]; 0.966[CHD]; 0.933[JPT]; 0.824[MEX]; 0.927[TSI]
rs6323	downstream_gene_variant; synonymous_variant	3(0/3/0)	1.0[ASW]; 1.0[CEU]; 1.0[CHB]; 0.967[CHD]; 1.0[GIH]; 1.0[JPT]; 1.0[LWK]; 1.0[MEX]; 1.0[MKK]; 1.0[TSI]; 1.0[YRI]
rs979605	intron_variant; upstream_gene_variant	2(0/2/0)	1.0[CEU]; 1.0[CHB]; 1.0[CHD]; 1.0[GIH]; 0.873[JPT]; 0.936[MEX]; 1.0[TSI]
rs2235186	downstream_gene_variant; intron_variant	1(1/0/0)	1.0[ASW]; 1.0[CEU]; 1.0[CHB]; 1.0[CHD]; 1.0[GIH]; 1.0[JPT]; 1.0[LWK]; 1.0[MEX]; 1.0[MKK]; 1.0[TSI]; 1.0[YRI]
rs6610845	intron_variant; nc_transcript_variant	1(0/1/0)	1.0[CHB]; 0.967[CHD]; 1.0[JPT]; 0.824[MEX]; 0.932[TSI]
rs2072744	intron_variant; upstream_gene_variant	1(1/0/0)	1.0[CHB]; 1.0[JPT]
rs4570308	upstream_gene_variant	1(1/0/0)	0.877[CEU]; 0.858[CHB]; 0.869[JPT]
rs3788863	intron_variant; nc_transcript_variant	1(1/0/0)	0.877[CEU]; 0.858[CHB]; 0.844[CHD]; 0.872[GIH]; 0.933[JPT]; 0.809[MEX]
rs3027407	3_prime_UTR_variant; downstream_gene_variant	3(2/1/0)	0.935[CEU]; 0.931[CHB]; 1.0[JPT]
rs3788862	intron_variant; nc_transcript_variant	1(1/0/0)	0.858[CHB]; 0.869[JPT]
rs2205718	intron_variant	1(0/1/0)	1.0[ASW]; 1.0[CEU]; 1.0[CHB]; 1.0[CHD]; 1.0[GIH]; 1.0[JPT]; 1.0[LWK]; 0.871[MEX]; 1.0[MKK]; 1.0[TSI]; 0.877[YRI]
rs2283724	intron_variant; nc_transcript_variant	1(0/1/0)	0.858[CHB]; 0.904[CHD]; 0.933[JPT]
rs5953210	upstream_gene_variant	1(1/0/0)	0.877[CEU]; 0.858[CHB]; 0.844[CHD]; 0.84[GIH]; 0.869[JPT]; 0.809[MEX]

LD-proxies (count: 61)

rs_ID	Functional Annotation	r²[population]
rs6609257		0.84[CHD]
rs4301558	upstream_gene_variant	0.877[CEU]; 0.858[CHB]; 0.869[JPT]
rs4986545		0.823[CEU]
rs5906957	intron_variant; nc_transcript_variant	0.858[CHB]; 0.933[JPT]
rs1339777		0.823[CEU]
rs4986548		0.823[CEU]
rs5906898		0.823[CEU]
rs28556796	intron_variant; nc_transcript_variant	1.0[ASW]; 1.0[CEU]; 1.0[CHB]; 0.967[CHD]; 1.0[GIH]; 1.0[JPT]; 1.0[LWK]; 1.0[MEX]; 1.0[MKK]; 1.0[TSI]; 1.0[YRI]
rs5905613		0.877[CEU]
rs5951044		0.823[CEU]
rs3027410	downstream_gene_variant	0.93[CEU]; 0.931[CHB]; 1.0[CHD]; 0.906[GIH]; 0.873[JPT]; 0.964[TSI]
rs5906938	intron_variant; nc_transcript_variant	0.877[CEU]; 0.858[CHB]; 0.844[CHD]; 0.872[GIH]; 0.933[JPT]
rs2310820		0.877[CEU]
rs3027401	downstream_gene_variant; intron_variant	1.0[ASW]; 1.0[CEU]; 1.0[CHB]; 1.0[CHD]; 1.0[GIH]; 1.0[JPT]; 1.0[LWK]; 1.0[MEX]; 1.0[MKK]; 1.0[TSI]; 1.0[YRI]
rs5951043		0.823[CEU]
rs4824392		0.823[CEU]
rs6610846	intron_variant; nc_transcript_variant	1.0[CHB]; 0.967[CHD]; 1.0[JPT]; 0.824[MEX]; 0.931[TSI]
rs5951049		0.823[CEU]
rs5906261		0.877[CEU]
rs1800659	intron_variant; nc_transcript_variant	0.935[CEU]; 1.0[CHB]; 0.935[CHD]; 0.936[GIH]; 1.0[JPT]; 0.824[MEX]; 0.932[TSI]
rs5951055		0.823[CEU]
rs929094		0.823[CEU]
rs6610814		0.823[CEU]
rs4986516		0.866[CEU]
rs1538642		0.823[CEU]
rs12558025		0.877[CEU]
rs5906974	intron_variant; nc_transcript_variant	0.935[CEU]; 0.858[CHB]; 0.933[JPT]
rs5906883	intron_variant; nc_transcript_variant	0.877[CEU]; 0.844[CHD]; 0.872[GIH]; 0.933[JPT]
rs5951048		0.817[CEU]
rs1339779		0.823[CEU]
rs5906893	intron_variant; nc_transcript_variant	0.877[CEU]; 0.857[CHB]; 0.844[CHD]; 0.872[GIH]; 0.933[JPT]
rs909525	intron_variant; nc_transcript_variant	0.858[CHB]; 0.844[CHD]; 0.933[JPT]
rs979606	intron_variant; upstream_gene_variant	1.0[ASW]; 1.0[CEU]; 1.0[CHB]; 1.0[CHD]; 1.0[GIH]; 0.873[JPT]; 1.0[LWK]; 1.0[MEX]; 1.0[MKK]; 1.0[TSI]; 1.0[YRI]
rs5953385	intron_variant; nc_transcript_variant	0.877[CEU]; 0.858[CHB]; 0.844[CHD]; 0.872[GIH]; 0.933[JPT]
rs5906154		0.877[CEU]
rs3027396	intron_variant; nc_transcript_variant	0.858[CHB]; 0.904[CHD]; 0.931[JPT]
rs3027397	intron_variant; nc_transcript_variant	0.858[CHB]; 0.933[JPT]
rs3859959		0.81[CEU]
rs4986550		0.823[CEU]
rs2283725	intron_variant; nc_transcript_variant	0.858[CHB]; 0.904[CHD]; 0.933[JPT]
rs3027398	intron_variant; nc_transcript_variant	0.858[CHB]; 0.904[CHD]; 0.933[JPT]
rs4986551		0.823[CEU]
rs1339776		0.823[CEU]
rs6610823		0.823[CEU]
rs5906729	intron_variant; nc_transcript_variant	0.877[CEU]; 0.858[CHB]; 0.933[JPT]
rs1339778		0.809[CEU]
rs3810709	intron_variant; nc_transcript_variant	1.0[CHB]; 0.967[CHD]; 1.0[JPT]; 0.819[MEX]; 0.931[TSI]
rs2064070	downstream_gene_variant	0.935[CEU]; 0.931[CHB]; 1.0[CHD]; 0.907[GIH]; 0.873[JPT]; 0.964[TSI]
rs2000019		0.823[CEU]
rs28401570	intron_variant; nc_transcript_variant	1.0[ASW]; 1.0[CEU]; 1.0[CHB]; 0.967[CHD]; 1.0[GIH]; 1.0[JPT]; 1.0[LWK]; 1.0[MEX]; 1.0[MKK]; 1.0[TSI]; 1.0[YRI]
rs4083948		0.823[CEU]
rs4986546		0.823[CEU]
rs3859958		0.877[CEU]
rs5951054		0.823[CEU]
rs5991694		0.823[CEU]
rs2072743	intron_variant; upstream_gene_variant	1.0[CHB]; 1.0[CHD]; 1.0[JPT]; 0.824[MEX]; 0.931[TSI]
rs1465107	intron_variant; nc_transcript_variant	0.858[CHB]; 0.932[JPT]
rs1465108	intron_variant; nc_transcript_variant	0.876[CEU]; 0.858[CHB]; 0.839[CHD]; 0.872[GIH]; 0.933[JPT]
rs4239988		0.822[CEU]
rs6520894	intron_variant; nc_transcript_variant	0.877[CEU]; 0.858[CHB]; 0.844[CHD]; 0.872[GIH]; 0.933[JPT]; 0.809[MEX]
rs6610813		0.823[CEU]