Variant report

Variant	rs12905744
Chromosome Location	chr15:92518451-92518452
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:92515850..92520116-chr15:92521478..92524897,5	MCF-7	breast:
2	chr15:92495221..92497782-chr15:92516330..92519314,2	MCF-7	breast:
3	chr15:92509487..92513090-chr15:92516971..92519490,3	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	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10852164	0.85[CEU][hapmap]
rs10852165	0.95[CHB][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs10852166	0.95[CHB][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs11635055	0.95[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs12439826	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs12901238	0.95[ASN][1000 genomes]
rs12902685	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12903803	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs12909480	0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12910715	0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12910862	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs12916491	0.95[ASN][1000 genomes]
rs1356417	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1400783	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1568210	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16946157	0.85[AFR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16946164	0.85[AFR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16946168	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]
rs2138849	0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2176452	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28470895	0.88[AFR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35973922	0.95[ASN][1000 genomes]
rs4312282	0.95[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs4932592	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs4932593	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62009549	0.95[ASN][1000 genomes]
rs7165760	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7171131	0.84[CHB][hapmap];0.89[JPT][hapmap]
rs7171921	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7172099	0.90[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7172159	1.00[CEU][hapmap];0.84[CHB][hapmap];0.81[JPT][hapmap];0.82[YRI][hapmap];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7178673	0.84[ASN][1000 genomes]
rs7178734	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7179815	0.95[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.84[YRI][hapmap];0.80[AFR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8025507	0.82[ASN][1000 genomes]
rs8027160	0.84[CHB][hapmap];0.88[JPT][hapmap]
rs8040046	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs953888	0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs976216	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9920069	0.90[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.91[EUR][1000 genomes];0.80[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:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92498200-92555000	Weak transcription	Gastric	stomach
2	chr15:92509600-92519200	Enhancers	Brain Hippocampus Middle	brain
3	chr15:92514000-92518600	Weak transcription	Psoas Muscle	Psoas
4	chr15:92514000-92523200	Weak transcription	Aorta	Aorta
5	chr15:92514200-92518600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr15:92514200-92518600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr15:92515400-92519800	Enhancers	Left Ventricle	heart
8	chr15:92515600-92519200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr15:92515800-92519200	Enhancers	Breast Myoepithelial Primary Cells	Breast
10	chr15:92515800-92519200	Enhancers	Brain Cingulate Gyrus	brain
11	chr15:92516000-92521200	Enhancers	Right Atrium	heart
12	chr15:92516200-92519000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr15:92516200-92519200	Enhancers	Fetal Heart	heart
14	chr15:92516200-92519200	Enhancers	Right Ventricle	heart
15	chr15:92516400-92518600	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr15:92516400-92519200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr15:92516400-92519200	Enhancers	Brain Substantia Nigra	brain
18	chr15:92516400-92519200	Enhancers	Lung	lung
19	chr15:92516400-92519200	Enhancers	HMEC	breast
20	chr15:92516600-92518800	Enhancers	Ovary	ovary
21	chr15:92516600-92518800	Enhancers	A549	lung
22	chr15:92516600-92519000	Enhancers	Brain Angular Gyrus	brain
23	chr15:92516600-92519200	Enhancers	Brain Anterior Caudate	brain
24	chr15:92516600-92519200	Enhancers	Brain Inferior Temporal Lobe	brain
25	chr15:92516800-92519000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr15:92516800-92519000	Enhancers	Skeletal Muscle Male	skeletal muscle
27	chr15:92516800-92519200	Enhancers	Esophagus	oesophagus
28	chr15:92517000-92519000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
29	chr15:92517400-92519000	Enhancers	NHEK	skin
30	chr15:92517600-92518800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
31	chr15:92517600-92518800	Enhancers	Fetal Brain Male	brain
32	chr15:92517600-92519000	Enhancers	Pancreas	Pancrea
33	chr15:92518000-92518800	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr15:92518000-92518800	Enhancers	iPS-18 Cell Line	embryonic stem cell
35	chr15:92518000-92519000	Enhancers	iPS-15b Cell Line	embryonic stem cell
36	chr15:92518000-92519200	Enhancers	Fetal Muscle Leg	muscle
37	chr15:92518000-92524400	Weak transcription	Spleen	Spleen
38	chr15:92518200-92518800	Enhancers	ES-I3 Cell Line	embryonic stem cell
39	chr15:92518200-92518800	Enhancers	Hela-S3	cervix
40	chr15:92518200-92519000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
41	chr15:92518200-92526000	Weak transcription	Rectal Mucosa Donor 31	rectum
42	chr15:92518400-92518800	Enhancers	Primary hematopoietic stem cells short term culture	blood
43	chr15:92518400-92519000	Enhancers	HSMMtube	muscle
44	chr15:92518400-92519200	Enhancers	Fetal Muscle Trunk	muscle
45	chr15:92518400-92519200	Enhancers	Skeletal Muscle Female	skeletal muscle

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