Variant report

Variant	rs16964528
Chromosome Location	chr15:52092824-52092825
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52089220..52092399-chr15:52092458..52095936,3	K562	blood:
2	chr15:52087845..52094257-chr15:52120068..52124048,9	MCF-7	breast:
3	chr15:52087804..52093803-chr15:52117139..52123482,14	MCF-7	breast:
4	chr15:52092315..52094838-chr15:52147516..52150199,2	MCF-7	breast:
5	chr15:52091331..52093041-chr15:52113410..52115469,2	MCF-7	breast:
6	chr15:52088548..52091371-chr15:52091695..52094863,3	K562	blood:
7	chr15:52077466..52080327-chr15:52092211..52093843,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138594	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1350173	0.81[EUR][1000 genomes]
rs16953082	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs16964486	0.83[EUR][1000 genomes]
rs16964488	0.81[EUR][1000 genomes]
rs16964505	0.88[EUR][1000 genomes]
rs16964506	0.88[EUR][1000 genomes]
rs16964507	0.88[EUR][1000 genomes]
rs16964508	0.88[EUR][1000 genomes]
rs16964510	0.88[EUR][1000 genomes]
rs16964518	0.88[EUR][1000 genomes]
rs16964532	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs16964555	0.88[EUR][1000 genomes]
rs16964561	0.88[EUR][1000 genomes]
rs16964579	0.88[EUR][1000 genomes]
rs16964585	0.88[EUR][1000 genomes]
rs16964596	0.88[EUR][1000 genomes]
rs16964639	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs16964645	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs17705373	0.91[EUR][1000 genomes]
rs2570232	0.82[EUR][1000 genomes]
rs2623256	0.82[EUR][1000 genomes]
rs3751595	0.83[EUR][1000 genomes]
rs3794529	0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4775971	0.93[EUR][1000 genomes]
rs56221158	0.86[EUR][1000 genomes]
rs60398357	0.81[EUR][1000 genomes]
rs7165594	0.83[EUR][1000 genomes]
rs7166954	0.88[EUR][1000 genomes]
rs7167759	0.83[EUR][1000 genomes]
rs7174616	0.81[EUR][1000 genomes]
rs7175121	0.81[EUR][1000 genomes]
rs7179971	0.88[EUR][1000 genomes]
rs7180093	0.88[EUR][1000 genomes]
rs73405349	0.81[EUR][1000 genomes]
rs73405355	0.81[EUR][1000 genomes]
rs73405356	0.81[EUR][1000 genomes]
rs73405364	0.83[EUR][1000 genomes]
rs73405388	0.81[EUR][1000 genomes]
rs7342575	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs74015721	0.81[EUR][1000 genomes]
rs74015757	0.93[EUR][1000 genomes]
rs74015761	0.93[EUR][1000 genomes]
rs8036648	0.83[EUR][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	nsv569409	chr15:52028914-52268144	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	esv3361968	chr15:52087428-52107237	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52052200-52101800	Weak transcription	Colonic Mucosa	Colon
2	chr15:52052600-52106600	Weak transcription	HSMM	muscle
3	chr15:52060200-52103400	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr15:52060800-52101200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr15:52060800-52102600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr15:52060800-52105400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr15:52061600-52112000	Weak transcription	NHLF	lung
8	chr15:52061800-52098600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr15:52074000-52100000	Weak transcription	NHDF-Ad	bronchial
10	chr15:52074800-52102800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr15:52076400-52098400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr15:52076800-52104400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr15:52077200-52098600	Weak transcription	Fetal Brain Male	brain
14	chr15:52079000-52098400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr15:52079200-52098600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr15:52080000-52099000	Weak transcription	Colon Smooth Muscle	Colon
17	chr15:52080800-52102600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr15:52085400-52095600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr15:52085800-52105200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr15:52085800-52108800	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr15:52086200-52093000	Weak transcription	Liver	Liver
22	chr15:52086400-52098400	Weak transcription	Brain Substantia Nigra	brain
23	chr15:52086600-52093200	Weak transcription	Fetal Lung	lung
24	chr15:52086800-52093000	Weak transcription	Placenta	Placenta
25	chr15:52088600-52093400	Strong transcription	Thymus	Thymus
26	chr15:52089000-52095000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr15:52089000-52106400	Weak transcription	HSMMtube	muscle
28	chr15:52089200-52093600	Weak transcription	Small Intestine	intestine
29	chr15:52089200-52107200	Strong transcription	Monocytes-CD14+_RO01746	blood
30	chr15:52089400-52099200	Weak transcription	Duodenum Mucosa	Duodenum
31	chr15:52089600-52101200	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr15:52089800-52098400	Weak transcription	Fetal Intestine Large	intestine
33	chr15:52089800-52101000	Weak transcription	Fetal Intestine Small	intestine
34	chr15:52090400-52093200	Strong transcription	Duodenum Smooth Muscle	Duodenum
35	chr15:52090400-52095000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr15:52090400-52104400	Strong transcription	Primary monocytes fromperipheralblood	blood
37	chr15:52090600-52093400	Strong transcription	Fetal Stomach	stomach
38	chr15:52090600-52096800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
39	chr15:52091000-52093200	Strong transcription	Brain Germinal Matrix	brain
40	chr15:52091000-52098200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr15:52091200-52098600	Weak transcription	Skeletal Muscle Male	skeletal muscle
42	chr15:52091200-52104600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
43	chr15:52091200-52109400	Weak transcription	Gastric	stomach
44	chr15:52091400-52098400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr15:52091400-52098400	Weak transcription	Esophagus	oesophagus
46	chr15:52091400-52098400	Weak transcription	Rectal Smooth Muscle	rectum
47	chr15:52091400-52099400	Weak transcription	Pancreas	Pancrea
48	chr15:52091400-52103600	Weak transcription	Rectal Mucosa Donor 29	rectum
49	chr15:52091600-52094600	Weak transcription	Brain Cingulate Gyrus	brain
50	chr15:52091600-52095800	Weak transcription	Brain Hippocampus Middle	brain

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