Variant report

Variant	rs16946168
Chromosome Location	chr15:92508407-92508408
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	chr15:92489785..92491813-chr15:92508129..92510292,2	MCF-7	breast:

Extended variants
information (count: 44 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10454699	0.95[CHB][hapmap];0.87[JPT][hapmap];0.83[ASN][1000 genomes]
rs10852165	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs10852166	1.00[CHB][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs11635055	0.91[CHB][hapmap];0.83[JPT][hapmap]
rs12439826	0.82[ASN][1000 genomes]
rs12901238	0.85[ASN][1000 genomes]
rs12902685	0.95[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs12903803	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs12905744	0.95[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.84[YRI][hapmap];0.90[AFR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12909480	0.91[CHB][hapmap];0.87[JPT][hapmap];0.83[ASN][1000 genomes]
rs12910715	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs12910862	0.95[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs1356417	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1400783	0.83[ASN][1000 genomes]
rs1568210	0.92[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16946157	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16946164	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2138849	0.91[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs2176452	0.96[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.85[AFR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28470895	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28513490	0.94[ASN][1000 genomes]
rs28752332	0.91[ASN][1000 genomes]
rs4312282	0.91[CHB][hapmap]
rs4932592	0.95[CHB][hapmap];0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs4932593	0.96[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.81[AFR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61155306	0.87[ASN][1000 genomes]
rs62009549	0.82[ASN][1000 genomes]
rs7165760	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7171131	0.91[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs7171921	0.83[ASN][1000 genomes]
rs7172099	0.92[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7172159	0.96[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7178673	0.97[ASN][1000 genomes]
rs7178734	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7179815	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8025507	0.94[ASN][1000 genomes]
rs8027160	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs8040046	0.92[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs953888	0.91[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs976216	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9920069	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048635	chr15:92073294-92557339	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv870094	chr15:92367354-92631647	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv534110	chr15:92397220-92592961	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92498200-92555000	Weak transcription	Gastric	stomach
2	chr15:92500200-92509600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr15:92500800-92508600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr15:92500800-92508800	Weak transcription	Ovary	ovary
5	chr15:92506000-92508800	Weak transcription	Lung	lung
6	chr15:92506000-92509000	Weak transcription	Placenta	Placenta
7	chr15:92506000-92513600	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr15:92506000-92517600	Weak transcription	Colonic Mucosa	Colon
9	chr15:92506400-92508600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr15:92507200-92509000	Enhancers	HMEC	breast
11	chr15:92507400-92509200	Enhancers	Brain Hippocampus Middle	brain
12	chr15:92507600-92510200	Enhancers	Right Ventricle	heart
13	chr15:92507600-92510400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr15:92507600-92512200	Enhancers	Breast Myoepithelial Primary Cells	Breast
15	chr15:92507600-92514400	Enhancers	Fetal Heart	heart
16	chr15:92507600-92516400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr15:92507800-92509800	Enhancers	Esophagus	oesophagus
18	chr15:92507800-92509800	Enhancers	Right Atrium	heart
19	chr15:92507800-92510200	Enhancers	Skeletal Muscle Male	skeletal muscle
20	chr15:92507800-92510400	Enhancers	Left Ventricle	heart
21	chr15:92507800-92513200	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr15:92508000-92508600	Enhancers	A549	lung
23	chr15:92508000-92508600	Enhancers	Osteobl	bone
24	chr15:92508000-92509000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr15:92508000-92509000	Enhancers	Primary hematopoietic stem cells short term culture	blood
26	chr15:92508000-92509200	Enhancers	Spleen	Spleen
27	chr15:92508000-92514000	Enhancers	Brain Angular Gyrus	brain
28	chr15:92508000-92515000	Enhancers	Brain Cingulate Gyrus	brain
29	chr15:92508200-92508600	Enhancers	Primary T helper cells PMA-I stimulated	--
30	chr15:92508200-92508600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
31	chr15:92508200-92508800	Enhancers	Muscle Satellite Cultured Cells	--
32	chr15:92508200-92508800	Enhancers	Monocytes-CD14+_RO01746	blood
33	chr15:92508200-92509000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr15:92508200-92509000	Enhancers	Primary monocytes fromperipheralblood	blood
35	chr15:92508200-92509200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
36	chr15:92508200-92509200	Enhancers	Brain Substantia Nigra	brain
37	chr15:92508200-92509200	Enhancers	HSMM	muscle
38	chr15:92508200-92509400	Enhancers	Brain Anterior Caudate	brain
39	chr15:92508200-92509600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr15:92508200-92510200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr15:92508200-92510200	Enhancers	HSMMtube	muscle
42	chr15:92508400-92509200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr15:92508400-92509600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr15:92508400-92509600	Enhancers	Aorta	Aorta
45	chr15:92508400-92509600	Enhancers	Fetal Muscle Trunk	muscle
46	chr15:92508400-92509600	Flanking Active TSS	NHEK	skin
47	chr15:92508400-92509800	Enhancers	Adipose Nuclei	Adipose
48	chr15:92508400-92509800	Enhancers	Fetal Muscle Leg	muscle
49	chr15:92508400-92510200	Flanking Active TSS	Hela-S3	cervix
50	chr15:92508400-92510200	Enhancers	NHDF-Ad	bronchial

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