Variant report

Variant	rs16866519
Chromosome Location	chr2:179627176-179627177
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:179626672..179627866-chr2:179778732..179779655,4	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10171049	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs10176708	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10179219	0.82[AMR][1000 genomes]
rs10179811	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10183237	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10183361	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10203085	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10221590	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10497519	1.00[CEU][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10497522	1.00[CEU][hapmap];0.82[YRI][hapmap];0.80[AFR][1000 genomes]
rs11888217	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11895382	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11897386	1.00[CEU][hapmap]
rs13386186	0.85[AMR][1000 genomes]
rs13392492	0.82[AMR][1000 genomes]
rs13398235	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13417645	0.86[AMR][1000 genomes]
rs13421990	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1484120	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1565288	0.89[AMR][1000 genomes]
rs16866473	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17355446	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17355623	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1905520	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2291309	0.87[AFR][1000 genomes]
rs2291312	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs2366752	1.00[CEU][hapmap]
rs2366753	0.82[EUR][1000 genomes]
rs4893852	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4893853	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4894035	0.86[AMR][1000 genomes]
rs4894037	1.00[YRI][hapmap]
rs4894040	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4894041	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4894045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4894048	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4894052	1.00[CHB][hapmap];0.85[AMR][1000 genomes]
rs72647887	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72647888	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72648950	0.86[AMR][1000 genomes]
rs7572955	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[AMR][1000 genomes];1.00[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	nsv834470	chr2:179555152-179728726	Active TSS Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv934108	chr2:179556852-179729925	Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:179483200-179655400	Weak transcription	Adipose Nuclei	Adipose
2	chr2:179533600-179669200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr2:179577800-179640800	Weak transcription	Fetal Intestine Large	intestine
4	chr2:179590800-179640400	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr2:179605400-179662400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr2:179610800-179671400	Weak transcription	Ovary	ovary
7	chr2:179614200-179645200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr2:179614400-179632400	Weak transcription	Primary hematopoietic stem cells	blood
9	chr2:179614800-179628800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr2:179617200-179627800	Weak transcription	Psoas Muscle	Psoas
11	chr2:179619000-179636000	Strong transcription	Left Ventricle	heart
12	chr2:179619200-179630400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr2:179620600-179634400	Weak transcription	Brain Anterior Caudate	brain
14	chr2:179621800-179629200	Weak transcription	Right Ventricle	heart
15	chr2:179622200-179628800	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr2:179622600-179628800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr2:179622600-179628800	Strong transcription	HSMMtube	muscle
18	chr2:179622600-179640600	Weak transcription	Pancreas	Pancrea
19	chr2:179622800-179630000	Weak transcription	Primary B cells from peripheral blood	blood
20	chr2:179623800-179631200	Weak transcription	Primary T cells fromperipheralblood	blood
21	chr2:179624000-179629000	Weak transcription	Primary T helper cells fromperipheralblood	blood
22	chr2:179624200-179627600	Weak transcription	Primary B cells from cord blood	blood
23	chr2:179624400-179627600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr2:179625200-179627600	Strong transcription	Fetal Muscle Leg	muscle
25	chr2:179625800-179628000	Strong transcription	Skeletal Muscle Female	skeletal muscle
26	chr2:179625800-179629200	Strong transcription	Skeletal Muscle Male	skeletal muscle
27	chr2:179626400-179628000	Weak transcription	Primary T cells from cord blood	blood
28	chr2:179626600-179627400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr2:179626600-179627800	Weak transcription	Fetal Heart	heart
30	chr2:179626800-179629200	Weak transcription	Fetal Muscle Trunk	muscle
31	chr2:179627000-179628800	Weak transcription	HSMM	muscle
32	chr2:179627000-179655200	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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