Variant report

Variant	rs7938502
Chromosome Location	chr11:10053412-10053413
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:10051045..10052894-chr11:10053055..10055381,2	MCF-7	breast:

Extended variants
information (count: 114 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs10840315	1.00[CHB][hapmap]
rs10840325	1.00[CHB][hapmap]
rs10840327	0.90[CEU][hapmap];1.00[CHB][hapmap]
rs10840330	0.86[CEU][hapmap]
rs10840333	0.86[CEU][hapmap]
rs10840334	0.86[CEU][hapmap]
rs10840337	0.91[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840338	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840344	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840359	0.87[EUR][1000 genomes]
rs10840375	0.80[EUR][1000 genomes]
rs11042511	1.00[CHB][hapmap]
rs11042526	1.00[CHB][hapmap]
rs11042543	0.86[CEU][hapmap];1.00[CHB][hapmap]
rs11042550	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs11042556	1.00[CHB][hapmap]
rs11042559	0.91[CEU][hapmap];1.00[CHB][hapmap];0.91[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs11042561	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs11042571	1.00[CHB][hapmap];0.91[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042578	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042579	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042580	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11042593	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042595	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042601	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042609	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042615	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11042618	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042623	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042627	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042632	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11042641	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11600251	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11600489	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11602465	0.91[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs11602515	0.91[CEU][hapmap];1.00[CHB][hapmap]
rs11603440	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11606561	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11607582	1.00[CHB][hapmap]
rs11607682	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11607703	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12360783	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12362938	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12364676	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12417184	0.89[CEU][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12418212	1.00[CEU][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12418619	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12419564	1.00[CHB][hapmap]
rs12419923	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12420734	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12420950	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12421096	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12421179	0.90[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12421200	0.95[CEU][hapmap];1.00[CHB][hapmap];0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12421931	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12808226	1.00[CHB][hapmap]
rs1372807	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs1442737	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17270804	1.00[CHB][hapmap]
rs17271847	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17355675	1.00[CHB][hapmap]
rs17355924	1.00[CHB][hapmap]
rs17356792	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17359113	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1822292	0.95[CEU][hapmap]
rs1867135	0.82[EUR][1000 genomes]
rs2197171	1.00[CEU][hapmap]
rs2403227	0.86[CEU][hapmap]
rs2403229	0.86[CEU][hapmap]
rs2403292	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs28731164	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34683105	0.84[EUR][1000 genomes]
rs4281477	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs4478985	0.84[EUR][1000 genomes]
rs4529876	0.85[EUR][1000 genomes]
rs4576815	0.86[CEU][hapmap]
rs4625455	0.91[CEU][hapmap]
rs4909915	0.91[CEU][hapmap];1.00[CHB][hapmap]
rs4909917	0.86[CEU][hapmap]
rs4910075	1.00[CHB][hapmap]
rs4910080	0.88[CEU][hapmap];1.00[CHB][hapmap]
rs4910081	0.90[CEU][hapmap];1.00[CHB][hapmap]
rs4910084	1.00[CHB][hapmap]
rs4910086	0.86[CEU][hapmap]
rs4910095	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs4910098	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56853694	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61877048	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61877049	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61878582	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61878587	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61878622	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61878636	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7114303	0.91[CEU][hapmap];0.85[EUR][1000 genomes]
rs7123453	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7123820	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7131445	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7924875	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7928959	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7931804	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7935934	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7938491	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7938647	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7938788	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs7945980	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7946995	0.87[EUR][1000 genomes]
rs7947306	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7948215	0.81[EUR][1000 genomes]
rs7950447	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv896989	chr11:9951968-10059623	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
3	nsv553475	chr11:10019879-10059623	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv553476	chr11:10024311-10117435	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9991200-10060000	Weak transcription	Colon Smooth Muscle	Colon
2	chr11:10001400-10066200	Weak transcription	Pancreas	Pancrea
3	chr11:10024800-10054000	Weak transcription	Hela-S3	cervix
4	chr11:10030600-10054000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr11:10030600-10065800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr11:10035200-10065800	Weak transcription	Stomach Smooth Muscle	stomach
7	chr11:10036000-10055600	Weak transcription	NHEK	skin
8	chr11:10036200-10062800	Weak transcription	Adipose Nuclei	Adipose
9	chr11:10040400-10065800	Weak transcription	HSMM	muscle
10	chr11:10042000-10055800	Weak transcription	HMEC	breast
11	chr11:10042200-10054800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr11:10042200-10064400	Weak transcription	Fetal Intestine Small	intestine
13	chr11:10042200-10066000	Weak transcription	Fetal Muscle Leg	muscle
14	chr11:10042200-10066000	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr11:10042200-10066200	Weak transcription	Rectal Smooth Muscle	rectum
16	chr11:10042600-10066000	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr11:10042800-10054200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr11:10043400-10065600	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr11:10043800-10054400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr11:10043800-10061000	Weak transcription	Primary hematopoietic stem cells	blood
21	chr11:10043800-10063800	Weak transcription	Primary T cells from cord blood	blood
22	chr11:10043800-10065400	Weak transcription	A549	lung
23	chr11:10043800-10065600	Weak transcription	HepG2	liver
24	chr11:10046400-10054000	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr11:10046400-10065800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr11:10046400-10065800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr11:10048400-10053800	Weak transcription	Fetal Stomach	stomach
28	chr11:10048600-10064600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr11:10048800-10053800	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr11:10048800-10061200	Weak transcription	HUVEC	blood vessel
31	chr11:10049200-10063200	Weak transcription	Primary neutrophils fromperipheralblood	blood
32	chr11:10049200-10065000	Weak transcription	Dnd41	blood
33	chr11:10049400-10065600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr11:10049800-10065000	Weak transcription	Fetal Intestine Large	intestine
35	chr11:10049800-10065600	Weak transcription	Fetal Muscle Trunk	muscle
36	chr11:10049800-10066000	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr11:10049800-10066000	Weak transcription	Fetal Kidney	kidney
38	chr11:10050000-10054000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
39	chr11:10050200-10053800	Weak transcription	H1 Cell Line	embryonic stem cell
40	chr11:10050200-10053800	Weak transcription	Fetal Lung	lung
41	chr11:10050200-10055600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr11:10050200-10059000	Weak transcription	Primary T cells fromperipheralblood	blood
43	chr11:10050200-10066000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr11:10050200-10066800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr11:10050600-10053600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr11:10050600-10053800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr11:10050600-10064200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr11:10050600-10065000	Weak transcription	Placenta	Placenta
49	chr11:10051400-10053800	Weak transcription	NHLF	lung
50	chr11:10051400-10057200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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