Variant report

Variant	rs656946
Chromosome Location	chr18:29897513-29897514
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:29896360..29897935-chr18:29901825..29904220,2	K562	blood:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10502592	0.88[CHB][hapmap]
rs11876773	0.88[CHB][hapmap]
rs1689030	0.94[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs16963285	0.88[CHB][hapmap]
rs1824304	0.88[CHB][hapmap]
rs594344	0.83[MKK][hapmap];0.86[YRI][hapmap]
rs595792	0.94[CEU][hapmap]
rs598074	0.93[EUR][1000 genomes]
rs606638	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs616601	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs618004	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs619154	0.86[JPT][hapmap];0.91[TSI][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs625361	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs638142	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs638868	0.85[YRI][hapmap]
rs643836	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs644274	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs657479	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs668857	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs671090	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs677721	0.86[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs681347	0.87[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs686196	0.88[CEU][hapmap];0.86[LWK][hapmap];0.99[MKK][hapmap];0.83[YRI][hapmap]
rs687850	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7230250	0.88[CHB][hapmap]
rs736218	0.88[CHB][hapmap]
rs8084215	0.87[AMR][1000 genomes];0.95[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	nsv1056007	chr18:29711974-29899564	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv833616	chr18:29792336-29964212	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29868200-29923800	Weak transcription	Gastric	stomach
2	chr18:29889400-29904200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr18:29890200-29898800	Weak transcription	Liver	Liver
4	chr18:29890200-29902200	Weak transcription	Spleen	Spleen
5	chr18:29890400-29904000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr18:29891000-29898400	Weak transcription	Stomach Smooth Muscle	stomach
7	chr18:29891000-29905800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr18:29891000-29914000	Weak transcription	Fetal Brain Female	brain
9	chr18:29891200-29905600	Weak transcription	Rectal Smooth Muscle	rectum
10	chr18:29893400-29897800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr18:29893400-29903200	Weak transcription	Pancreas	Pancrea
12	chr18:29894200-29897800	Weak transcription	Small Intestine	intestine
13	chr18:29895600-29897600	Enhancers	HSMM	muscle
14	chr18:29895800-29897800	Enhancers	Stomach Mucosa	stomach
15	chr18:29895800-29898600	Enhancers	Brain Cingulate Gyrus	brain
16	chr18:29895800-29898800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr18:29895800-29898800	Enhancers	Osteobl	bone
18	chr18:29896000-29899200	Enhancers	Brain Substantia Nigra	brain
19	chr18:29896200-29898400	Weak transcription	Fetal Heart	heart
20	chr18:29896400-29899200	Enhancers	Fetal Muscle Leg	muscle
21	chr18:29896600-29900000	Enhancers	Adipose Nuclei	Adipose
22	chr18:29896800-29898000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr18:29896800-29898000	Enhancers	Brain Angular Gyrus	brain
24	chr18:29896800-29898000	Enhancers	Hela-S3	cervix
25	chr18:29896800-29898400	Enhancers	Brain Anterior Caudate	brain
26	chr18:29896800-29899800	Enhancers	HepG2	liver
27	chr18:29897000-29897800	Enhancers	HUES6 Cell Line	embryonic stem cell
28	chr18:29897000-29897800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
29	chr18:29897000-29897800	Enhancers	NHEK	skin
30	chr18:29897000-29898000	Enhancers	ES-I3 Cell Line	embryonic stem cell
31	chr18:29897000-29898000	Enhancers	Fetal Intestine Small	intestine
32	chr18:29897000-29898200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr18:29897000-29898200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr18:29897000-29898200	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr18:29897000-29898200	Enhancers	NH-A	brain
36	chr18:29897000-29898400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
37	chr18:29897000-29898600	Weak transcription	Aorta	Aorta
38	chr18:29897000-29898800	Enhancers	Fetal Lung	lung
39	chr18:29897200-29897800	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr18:29897200-29898000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr18:29897200-29898000	Enhancers	HMEC	breast
42	chr18:29897200-29898200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr18:29897200-29898200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr18:29897200-29898400	Weak transcription	Fetal Muscle Trunk	muscle
45	chr18:29897200-29898600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr18:29897200-29898800	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr18:29897200-29899000	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr18:29897200-29899600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr18:29897200-29903200	Weak transcription	Psoas Muscle	Psoas
50	chr18:29897200-29903400	Weak transcription	Right Ventricle	heart

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