Variant report

Variant	rs11598224
Chromosome Location	chr10:23137829-23137830
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10828347	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10828356	0.85[CEU][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10828385	0.85[CEU][hapmap];1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10828386	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs11013181	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11013200	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[GIH][hapmap];0.89[TSI][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11013202	0.82[CEU][hapmap]
rs11013203	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[MKK][hapmap];0.83[TSI][hapmap]
rs11013211	1.00[AFR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11013213	0.85[CEU][hapmap]
rs11013254	1.00[ASN][1000 genomes]
rs11013267	1.00[ASN][1000 genomes]
rs11013268	1.00[ASN][1000 genomes]
rs11492540	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11492541	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11511182	0.85[CEU][hapmap]
rs11511184	0.82[CEU][hapmap];1.00[AFR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11592801	1.00[ASN][1000 genomes]
rs11593763	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs11597797	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11598272	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11598607	1.00[ASN][1000 genomes]
rs11598621	0.85[CEU][hapmap]
rs11599326	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12356890	1.00[ASN][1000 genomes]
rs12358422	1.00[ASN][1000 genomes]
rs7097036	1.00[ASN][1000 genomes]
rs7100326	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs73600522	1.00[ASN][1000 genomes]
rs9730948	0.85[CEU][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2764013	chr10:23087298-23239345	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv894966	chr10:23090535-23202522	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11598224	FGD5	trans	lymphoblastoid	seeQTL

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:23135600-23138200	Enhancers	Brain Hippocampus Middle	brain
2	chr10:23136200-23140400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr10:23137000-23138000	Enhancers	Brain Angular Gyrus	brain
4	chr10:23137000-23140400	Enhancers	Brain Inferior Temporal Lobe	brain
5	chr10:23137000-23140600	Enhancers	Brain Cingulate Gyrus	brain
6	chr10:23137200-23138000	Enhancers	Brain Anterior Caudate	brain
7	chr10:23137600-23138200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr10:23137600-23138200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr10:23137600-23138200	Enhancers	Gastric	stomach
10	chr10:23137600-23138200	Enhancers	Stomach Smooth Muscle	stomach
11	chr10:23137600-23138400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr10:23137600-23138400	Enhancers	Spleen	Spleen
13	chr10:23137600-23138600	Enhancers	Pancreas	Pancrea
14	chr10:23137600-23138600	Enhancers	Right Ventricle	heart
15	chr10:23137600-23139800	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr10:23137600-23139800	Enhancers	Left Ventricle	heart
17	chr10:23137600-23139800	Enhancers	Right Atrium	heart
18	chr10:23137600-23140800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
19	chr10:23137800-23138000	Enhancers	Skeletal Muscle Male	skeletal muscle
20	chr10:23137800-23138200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr10:23137800-23138200	Enhancers	Adipose Nuclei	Adipose
22	chr10:23137800-23138200	Enhancers	HepG2	liver
23	chr10:23137800-23138400	Enhancers	Primary T helper naive cells from peripheral blood	blood
24	chr10:23137800-23138400	Enhancers	Aorta	Aorta
25	chr10:23137800-23138400	Flanking Active TSS	Brain Substantia Nigra	brain
26	chr10:23137800-23138400	Enhancers	Colon Smooth Muscle	Colon
27	chr10:23137800-23138600	Enhancers	Psoas Muscle	Psoas
28	chr10:23137800-23139400	Enhancers	Cortex derived primary cultured neurospheres	brain

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