Variant report

Variant	rs10166301
Chromosome Location	chr2:189947814-189947815
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs2229495	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.91[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3923384	1.00[CEU][hapmap]
rs4128539	1.00[CEU][hapmap]
rs4666772	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs4667262	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6414122	1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6434312	1.00[CEU][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.97[AMR][1000 genomes]
rs6723725	0.85[CHD][hapmap]
rs7419570	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7556733	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[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	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv3074	chr2:189931263-189976124	Genic enhancers Strong transcription ZNF genes & repeats Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10166301	MDK	trans	brain	seeQTL

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:189895600-189965200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr2:189896200-189962400	Weak transcription	Left Ventricle	heart
3	chr2:189897000-189949000	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr2:189900800-189964400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr2:189904400-189951000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr2:189912400-189961600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr2:189915000-189950600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr2:189915400-189951000	Strong transcription	Osteobl	bone
9	chr2:189922800-189980800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr2:189929600-189951400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr2:189933000-189960400	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr2:189933000-189980200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr2:189933800-189957800	Weak transcription	Fetal Intestine Small	intestine
14	chr2:189936600-189969200	Weak transcription	Liver	Liver
15	chr2:189938200-189951200	Strong transcription	NH-A	brain
16	chr2:189938400-189951800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr2:189940000-189948000	Weak transcription	Placenta	Placenta
18	chr2:189941200-189975000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr2:189942400-189954200	Weak transcription	Ovary	ovary
20	chr2:189942800-189961800	Weak transcription	Aorta	Aorta
21	chr2:189944000-189953600	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr2:189944800-189950400	Weak transcription	HUVEC	blood vessel
23	chr2:189945600-189952800	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr2:189945800-189949800	Weak transcription	Fetal Muscle Trunk	muscle
25	chr2:189946000-189949000	Enhancers	Fetal Lung	lung
26	chr2:189946600-189949000	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr2:189946800-189948200	Enhancers	Fetal Kidney	kidney
28	chr2:189946800-189948600	Genic enhancers	NHDF-Ad	bronchial
29	chr2:189947000-189948000	Enhancers	Colon Smooth Muscle	Colon
30	chr2:189947000-189948200	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr2:189947200-189948200	Enhancers	Psoas Muscle	Psoas
32	chr2:189947200-189948200	Genic enhancers	A549	lung
33	chr2:189947200-189948600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
34	chr2:189947200-189951000	Genic enhancers	Muscle Satellite Cultured Cells	--
35	chr2:189947200-189961200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr2:189947400-189948200	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr2:189947400-189948200	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr2:189947400-189948200	Enhancers	Fetal Brain Male	brain
39	chr2:189947400-189948200	Enhancers	Fetal Intestine Large	intestine
40	chr2:189947400-189948200	Genic enhancers	Fetal Stomach	stomach
41	chr2:189947400-189948200	Enhancers	Skeletal Muscle Female	skeletal muscle
42	chr2:189947400-189948600	Genic enhancers	HSMMtube	muscle
43	chr2:189947400-189948800	Genic enhancers	Fetal Muscle Leg	muscle
44	chr2:189947400-189948800	Enhancers	Skeletal Muscle Male	skeletal muscle
45	chr2:189947400-189949000	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr2:189947400-189949400	Genic enhancers	HSMM	muscle
47	chr2:189947400-189950600	Strong transcription	Stomach Smooth Muscle	stomach
48	chr2:189947400-189951200	Genic enhancers	NHLF	lung
49	chr2:189947400-189958000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr2:189947600-189951000	Strong transcription	Adipose Nuclei	Adipose

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