Variant report

Variant	rs11639164
Chromosome Location	chr15:78334447-78334448
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:78334090..78336952-chr15:78350670..78353482,2	MCF-7	breast:
2	chr15:78333663..78335514-chr15:78341566..78343908,2	K562	blood:
3	chr15:78329401..78332301-chr15:78334192..78337171,4	K562	blood:
4	chr15:78332545..78335150-chr15:78348925..78351809,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000221476	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10519182	1.00[ASW][hapmap];0.94[LWK][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs11629684	1.00[CEU][hapmap]
rs11629761	1.00[CEU][hapmap];0.86[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11634621	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12102130	1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs13329101	0.94[YRI][hapmap];0.91[AFR][1000 genomes]
rs13329302	0.91[AFR][1000 genomes]
rs16969367	1.00[ASW][hapmap];0.86[LWK][hapmap];1.00[YRI][hapmap]
rs16969405	1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs16969407	1.00[ASW][hapmap];0.94[LWK][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs16969408	0.89[AFR][1000 genomes]
rs16969414	1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs16969423	1.00[ASW][hapmap];0.86[LWK][hapmap];0.83[MKK][hapmap];1.00[YRI][hapmap]
rs16969424	1.00[ASW][hapmap];0.94[LWK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs16969430	1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs16969447	0.87[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1985487	1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs2044101	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28394000	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28417785	0.91[AFR][1000 genomes]
rs28441175	0.86[AFR][1000 genomes]
rs28451835	0.91[AFR][1000 genomes]
rs28485414	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28491820	0.91[AFR][1000 genomes]
rs28519575	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28526757	0.91[AFR][1000 genomes]
rs28579273	0.83[AFR][1000 genomes]
rs28581571	0.85[AFR][1000 genomes]
rs28590577	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28591625	0.91[AFR][1000 genomes]
rs28593221	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28647720	0.85[AFR][1000 genomes]
rs28674965	0.86[AFR][1000 genomes]
rs55930913	0.89[AFR][1000 genomes]
rs58247186	0.89[AFR][1000 genomes]
rs74027705	0.86[AFR][1000 genomes]
rs74027706	0.86[AFR][1000 genomes]
rs74027709	0.86[AFR][1000 genomes]
rs7495639	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs9920647	1.00[YRI][hapmap];0.91[AFR][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	nsv529491	chr15:77932659-78751516	Genic enhancers Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv1051558	chr15:78315542-78364947	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78296200-78358200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr15:78301400-78342200	Weak transcription	HMEC	breast
3	chr15:78303200-78342400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr15:78307200-78342000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr15:78309200-78354200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr15:78317000-78344400	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr15:78317400-78342600	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr15:78317800-78344400	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr15:78317800-78344400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr15:78321200-78343800	Weak transcription	NHEK	skin
11	chr15:78322200-78336600	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr15:78322200-78341000	Weak transcription	Brain Germinal Matrix	brain
13	chr15:78322400-78336600	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr15:78325600-78337800	Genic enhancers	Fetal Thymus	thymus
15	chr15:78327400-78339600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr15:78327600-78351400	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr15:78327800-78342000	Enhancers	Primary T killer memory cells from peripheral blood	blood
18	chr15:78328000-78334600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr15:78328000-78335400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
20	chr15:78328000-78336600	Weak transcription	Fetal Brain Female	brain
21	chr15:78328000-78336800	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr15:78328000-78341800	Weak transcription	Fetal Brain Male	brain
23	chr15:78328400-78334800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr15:78328400-78339000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr15:78328400-78342200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr15:78328600-78334600	Weak transcription	Fetal Kidney	kidney
27	chr15:78328600-78336400	Weak transcription	NH-A	brain
28	chr15:78328600-78342200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr15:78329000-78342400	Weak transcription	Fetal Heart	heart
30	chr15:78329400-78336200	Weak transcription	Colon Smooth Muscle	Colon
31	chr15:78329600-78339000	Weak transcription	Stomach Mucosa	stomach
32	chr15:78330600-78342800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
33	chr15:78331000-78334600	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
34	chr15:78331000-78334600	Weak transcription	Brain Hippocampus Middle	brain
35	chr15:78331000-78336200	Strong transcription	Fetal Stomach	stomach
36	chr15:78331000-78336600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
37	chr15:78331000-78337000	Strong transcription	HSMM	muscle
38	chr15:78331000-78339200	Weak transcription	Brain Angular Gyrus	brain
39	chr15:78331200-78336600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr15:78331200-78344400	Weak transcription	Psoas Muscle	Psoas
41	chr15:78331400-78336800	Weak transcription	Primary B cells from peripheral blood	blood
42	chr15:78331400-78339600	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr15:78331400-78348600	Weak transcription	A549	lung
44	chr15:78331600-78337400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr15:78331600-78339000	Weak transcription	Right Ventricle	heart
46	chr15:78331600-78339800	Weak transcription	HUVEC	blood vessel
47	chr15:78331600-78348600	Weak transcription	K562	blood
48	chr15:78332000-78334800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr15:78332000-78336600	Strong transcription	Fetal Intestine Large	intestine
50	chr15:78332000-78336600	Strong transcription	Placenta	Placenta

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