Variant report

Variant	rs7178069
Chromosome Location	chr15:52694747-52694748
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	chr15:52694162..52695707-chr15:52701924..52704599,2	MCF-7	breast:
2	chr15:52683428..52686900-chr15:52692010..52696057,4	MCF-7	breast:

Extended variants
information (count: 127 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:123)

rs_ID	r²[population]
rs10518688	0.89[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1108808	1.00[EUR][1000 genomes]
rs12101973	1.00[EUR][1000 genomes]
rs13329278	1.00[EUR][1000 genomes]
rs13329402	1.00[EUR][1000 genomes]
rs13329417	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13329500	1.00[EUR][1000 genomes]
rs16964891	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16964903	1.00[JPT][hapmap];0.90[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16964910	1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs16964915	1.00[EUR][1000 genomes]
rs16964919	1.00[EUR][1000 genomes]
rs16964921	1.00[EUR][1000 genomes]
rs16964924	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16964927	1.00[JPT][hapmap];0.90[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16964928	1.00[EUR][1000 genomes]
rs16964935	1.00[JPT][hapmap];0.90[YRI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964944	1.00[JPT][hapmap];0.90[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964952	1.00[JPT][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1724577	1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2222656	1.00[JPT][hapmap]
rs2414137	1.00[EUR][1000 genomes]
rs2414138	1.00[EUR][1000 genomes]
rs2600903	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2600904	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs28366864	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28367336	1.00[EUR][1000 genomes]
rs28367508	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28374631	1.00[EUR][1000 genomes]
rs28409636	1.00[EUR][1000 genomes]
rs28409760	1.00[EUR][1000 genomes]
rs28415069	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28415349	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28415472	0.87[ASN][1000 genomes]
rs28421476	0.87[ASN][1000 genomes]
rs28426997	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28444393	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28462026	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28475475	1.00[EUR][1000 genomes]
rs28479614	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28480975	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28485251	0.87[ASN][1000 genomes]
rs28488423	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28496242	1.00[EUR][1000 genomes]
rs28499517	0.87[ASN][1000 genomes]
rs28503750	1.00[EUR][1000 genomes]
rs28508266	1.00[EUR][1000 genomes]
rs28514341	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28515624	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28532168	1.00[EUR][1000 genomes]
rs28534436	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28538563	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28552981	1.00[EUR][1000 genomes]
rs28556657	1.00[EUR][1000 genomes]
rs28564655	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28590330	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28594692	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28605633	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28613360	0.87[ASN][1000 genomes]
rs28618215	1.00[ASN][1000 genomes]
rs28633243	1.00[EUR][1000 genomes]
rs28638475	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28649737	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28650960	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28653534	1.00[EUR][1000 genomes]
rs28655190	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28660682	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28661501	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28663524	0.87[ASN][1000 genomes]
rs28669685	1.00[ASN][1000 genomes]
rs28682547	0.87[ASN][1000 genomes]
rs28693941	1.00[EUR][1000 genomes]
rs28697879	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28729511	0.87[ASN][1000 genomes]
rs28735959	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28756182	1.00[EUR][1000 genomes]
rs4499185	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4624108	1.00[EUR][1000 genomes]
rs4776042	1.00[ASN][1000 genomes]
rs4987194	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57864537	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58029714	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58812575	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7163569	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7164722	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7164872	1.00[EUR][1000 genomes]
rs7166034	1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7167181	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7167680	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7167890	0.88[ASN][1000 genomes]
rs7167916	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7168076	1.00[JPT][hapmap];0.95[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7168251	1.00[EUR][1000 genomes]
rs7169104	1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7169346	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7170622	1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7179156	1.00[JPT][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7182148	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73408408	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73408415	1.00[EUR][1000 genomes]
rs73408465	1.00[EUR][1000 genomes]
rs73408469	1.00[EUR][1000 genomes]
rs73408478	1.00[EUR][1000 genomes]
rs73410713	1.00[EUR][1000 genomes]
rs73410715	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73410759	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7342673	1.00[JPT][hapmap]
rs744501	1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8023623	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8024412	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8024624	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8027637	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8027777	1.00[EUR][1000 genomes]
rs8035199	1.00[EUR][1000 genomes]
rs8040369	1.00[EUR][1000 genomes]
rs8041819	1.00[EUR][1000 genomes]
rs8042235	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8042245	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs876549	1.00[EUR][1000 genomes]
rs9744852	1.00[EUR][1000 genomes]
rs9920195	0.87[ASN][1000 genomes]
rs9920739	1.00[EUR][1000 genomes]
rs9920749	1.00[JPT][hapmap];0.90[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1846455	chr15:52501831-52714452	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv1041421	chr15:52661342-53148286	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
4	nsv1054899	chr15:52662365-52803756	Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52644600-52730200	Weak transcription	Esophagus	oesophagus
2	chr15:52663200-52711400	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr15:52663400-52708600	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr15:52665200-52720600	Weak transcription	Pancreas	Pancrea
5	chr15:52668800-52730400	Weak transcription	Aorta	Aorta
6	chr15:52673800-52730200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr15:52674000-52703800	Weak transcription	Fetal Brain Male	brain
8	chr15:52675000-52697400	Weak transcription	Fetal Muscle Trunk	muscle
9	chr15:52676000-52705600	Weak transcription	Fetal Stomach	stomach
10	chr15:52676200-52696800	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr15:52676200-52701800	Weak transcription	Colon Smooth Muscle	Colon
12	chr15:52676400-52696800	Weak transcription	Brain Germinal Matrix	brain
13	chr15:52676400-52696800	Weak transcription	Dnd41	blood
14	chr15:52676400-52697000	Weak transcription	Rectal Smooth Muscle	rectum
15	chr15:52676400-52699600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr15:52676400-52701000	Weak transcription	HMEC	breast
17	chr15:52676400-52709800	Weak transcription	NHLF	lung
18	chr15:52676400-52721400	Weak transcription	Gastric	stomach
19	chr15:52676600-52698000	Weak transcription	Fetal Thymus	thymus
20	chr15:52676600-52701800	Weak transcription	Right Ventricle	heart
21	chr15:52676600-52706400	Weak transcription	Lung	lung
22	chr15:52676600-52718600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr15:52677000-52730000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr15:52679800-52729600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr15:52679800-52740000	Weak transcription	Spleen	Spleen
26	chr15:52680600-52719800	Weak transcription	NH-A	brain
27	chr15:52680800-52716400	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr15:52680800-52730000	Weak transcription	Brain Angular Gyrus	brain
29	chr15:52680800-52740200	Weak transcription	Thymus	Thymus
30	chr15:52681000-52696600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr15:52681000-52696800	Weak transcription	Ovary	ovary
32	chr15:52681000-52706800	Weak transcription	Brain Substantia Nigra	brain
33	chr15:52681200-52701000	Weak transcription	Duodenum Mucosa	Duodenum
34	chr15:52683800-52696800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr15:52684000-52719800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
36	chr15:52684400-52696600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr15:52684400-52696800	Weak transcription	HSMM	muscle
38	chr15:52684600-52695400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr15:52684800-52695600	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr15:52684800-52701000	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr15:52684800-52719800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr15:52684800-52730000	Weak transcription	Brain Hippocampus Middle	brain
43	chr15:52685000-52696800	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr15:52685000-52701200	Weak transcription	A549	lung
45	chr15:52685000-52717000	Weak transcription	Cortex derived primary cultured neurospheres	brain
46	chr15:52685200-52696800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr15:52685200-52701000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr15:52685400-52696000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr15:52685400-52698800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr15:52685400-52706200	Weak transcription	H9 Cell Line	embryonic stem cell

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