Variant report

Variant	rs2475226
Chromosome Location	chr10:116246725-116246726
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	chr10:116246183..116247727-chr10:116258173..116260732,2	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11196754	0.88[CEU][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2145896	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2475228	1.00[CEU][hapmap];0.90[JPT][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2475231	0.85[ASN][1000 genomes]
rs2497701	0.83[ASN][1000 genomes]
rs2497702	0.88[AFR][1000 genomes]
rs2497703	0.89[AFR][1000 genomes]
rs6585284	0.85[CEU][hapmap];0.92[EUR][1000 genomes]
rs7067793	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7069661	0.80[YRI][hapmap]
rs7096193	0.96[CEU][hapmap];0.92[YRI][hapmap];0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9421177	0.86[CHB][hapmap];0.83[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	nsv1037308	chr10:116141946-116519765	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv540780	chr10:116141946-116519765	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116194400-116251600	Weak transcription	Small Intestine	intestine
2	chr10:116199800-116249200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr10:116214600-116263600	Weak transcription	Rectal Smooth Muscle	rectum
4	chr10:116218400-116249200	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr10:116222200-116264400	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr10:116225000-116267200	Weak transcription	Aorta	Aorta
7	chr10:116225600-116246800	Weak transcription	NHEK	skin
8	chr10:116225600-116278800	Weak transcription	HSMM	muscle
9	chr10:116227200-116247400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr10:116231200-116251600	Weak transcription	GM12878-XiMat	blood
11	chr10:116231800-116249200	Weak transcription	Pancreas	Pancrea
12	chr10:116232400-116246800	Weak transcription	HMEC	breast
13	chr10:116233000-116247600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr10:116233000-116248800	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr10:116234000-116247800	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr10:116237400-116248800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr10:116237800-116249000	Strong transcription	Primary T cells fromperipheralblood	blood
18	chr10:116238200-116251400	Strong transcription	Primary B cells from peripheral blood	blood
19	chr10:116238400-116251600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr10:116238600-116249200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
21	chr10:116239000-116248800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr10:116239400-116249200	Weak transcription	Stomach Mucosa	stomach
23	chr10:116239400-116249400	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr10:116240000-116246800	Strong transcription	HepG2	liver
25	chr10:116240400-116248400	Strong transcription	Liver	Liver
26	chr10:116240600-116250400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr10:116240800-116247000	Strong transcription	Esophagus	oesophagus
28	chr10:116241800-116251600	Strong transcription	HSMMtube	muscle
29	chr10:116242000-116247800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr10:116242400-116248000	Strong transcription	Primary T helper naive cells from peripheral blood	blood
31	chr10:116242400-116250000	Strong transcription	Duodenum Mucosa	Duodenum
32	chr10:116242800-116249000	Strong transcription	Primary T cells from cord blood	blood
33	chr10:116243000-116286200	Weak transcription	Spleen	Spleen
34	chr10:116243200-116247800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr10:116243200-116249200	Weak transcription	Brain Angular Gyrus	brain
36	chr10:116243400-116248000	Strong transcription	Fetal Intestine Large	intestine
37	chr10:116243400-116251200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr10:116243400-116251600	Strong transcription	Rectal Mucosa Donor 29	rectum
39	chr10:116243600-116246800	Strong transcription	Fetal Thymus	thymus
40	chr10:116243600-116247000	Strong transcription	Primary T helper cells PMA-I stimulated	--
41	chr10:116243600-116248000	Genic enhancers	Left Ventricle	heart
42	chr10:116243600-116249000	Strong transcription	Primary T helper cells fromperipheralblood	blood
43	chr10:116243800-116246800	Weak transcription	Skeletal Muscle Female	skeletal muscle
44	chr10:116243800-116249200	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
45	chr10:116243800-116252000	Weak transcription	Colon Smooth Muscle	Colon
46	chr10:116244000-116249400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr10:116244000-116249600	Weak transcription	Brain Cingulate Gyrus	brain
48	chr10:116244200-116248200	Weak transcription	Fetal Heart	heart
49	chr10:116244400-116247600	Strong transcription	Skeletal Muscle Male	skeletal muscle
50	chr10:116244400-116247800	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood

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