Variant report

Variant	rs10895098
Chromosome Location	chr11:101207201-101207202
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:41)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:41 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:100948856..100949860-chr11:101206555..101207879,10	MCF-7	breast:
2	chr11:101047489..101050587-chr11:101203983..101207285,5	MCF-7	breast:
3	chr11:101196226..101198633-chr11:101205839..101207653,2	MCF-7	breast:
4	chr11:101049025..101049989-chr11:101206619..101207414,6	MCF-7	breast:
5	chr11:101206531..101207825-chr11:101312105..101313129,9	MCF-7	breast:
6	chr11:101206834..101209402-chr11:101310886..101313505,3	MCF-7	breast:
7	chr11:101206973..101209603-chr11:101215324..101218804,5	MCF-7	breast:
8	chr11:100999600..101001375-chr11:101205118..101207274,2	MCF-7	breast:
9	chr11:101169688..101170959-chr11:101206618..101208220,14	MCF-7	breast:
10	chr11:100994260..100996186-chr11:101205184..101207862,2	MCF-7	breast:
11	chr11:101169612..101170938-chr11:101206459..101207982,49	MCF-7	breast:
12	chr11:101206469..101207289-chr11:101222618..101223186,3	MCF-7	breast:
13	chr11:100904253..100906019-chr11:101206902..101208929,2	MCF-7	breast:
14	chr11:100904579..100905396-chr11:101206625..101207596,7	MCF-7	breast:
15	chr11:101206514..101207511-chr11:101306955..101307872,5	MCF-7	breast:
16	chr11:100870075..100870912-chr11:101206818..101207630,4	MCF-7	breast:
17	chr11:101199110..101202861-chr11:101204946..101208642,5	MCF-7	breast:
18	chr11:101206623..101207549-chr11:101308479..101309551,5	MCF-7	breast:
19	chr11:101206810..101207732-chr11:101222286..101223259,5	MCF-7	breast:
20	chr11:101207064..101211213-chr11:101212680..101214368,3	MCF-7	breast:
21	chr11:101206446..101207671-chr11:101306899..101307918,17	MCF-7	breast:
22	chr11:101206647..101207551-chr11:101312233..101313047,5	MCF-7	breast:
23	chr11:101206473..101207424-chr11:101222333..101223259,4	MCF-7	breast:
24	chr11:101206532..101207579-chr11:101312064..101313386,25	MCF-7	breast:
25	chr11:100904442..100905396-chr11:101206625..101207402,5	MCF-7	breast:
26	chr11:101171234..101171833-chr11:101206736..101207619,3	MCF-7	breast:
27	chr11:100926600..100927336-chr11:101206798..101207521,2	MCF-7	breast:
28	chr11:101170121..101171100-chr11:101206775..101207627,3	MCF-7	breast:
29	chr11:101049025..101049983-chr11:101206619..101207429,6	MCF-7	breast:
30	chr11:100949085..100949664-chr11:101206913..101207439,2	MCF-7	breast:
31	chr11:101206639..101207593-chr11:101306941..101307918,9	MCF-7	breast:
32	chr11:101048952..101049967-chr11:101206917..101207587,3	MCF-7	breast:
33	chr11:101206779..101209574-chr11:101209606..101213423,7	MCF-7	breast:
34	chr11:100904624..100905561-chr11:101206740..101208111,4	MCF-7	breast:
35	chr11:101206549..101207524-chr11:101312064..101313238,15	MCF-7	breast:
36	chr11:100948856..100949840-chr11:101206730..101207879,3	MCF-7	breast:
37	chr11:100870113..100871129-chr11:101206662..101207932,9	MCF-7	breast:
38	chr11:100989945..101004314-chr11:101189639..101211497,76	MCF-7	breast:
39	chr11:101171271..101171853-chr11:101206763..101207375,3	MCF-7	breast:
40	chr11:101169612..101170938-chr11:101206459..101207622,28	MCF-7	breast:
41	chr11:101207023..101207643-chr11:101308563..101309330,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000082175	Chromatin interaction

Extended variants
information (count: 116 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:111)

rs_ID	r²[population]
rs10458946	0.83[EUR][1000 genomes]
rs10791460	0.85[EUR][1000 genomes]
rs10791461	0.85[EUR][1000 genomes]
rs10895097	0.94[ASW][hapmap];0.90[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.90[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10895099	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11224719	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.85[MKK][hapmap];0.86[TSI][hapmap];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11224720	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11224722	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11224723	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11224725	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11224728	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11224729	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap];0.91[TSI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11224748	0.84[EUR][1000 genomes]
rs11224752	0.83[EUR][1000 genomes]
rs11224753	0.83[EUR][1000 genomes]
rs11224754	0.83[EUR][1000 genomes]
rs11224755	0.83[EUR][1000 genomes]
rs11224756	0.83[EUR][1000 genomes]
rs11224758	0.83[EUR][1000 genomes]
rs12223715	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12226605	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12575087	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12576141	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12790159	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12792457	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12795880	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12795968	0.83[EUR][1000 genomes]
rs12796333	0.83[EUR][1000 genomes]
rs12798288	0.83[EUR][1000 genomes]
rs12802904	0.83[EUR][1000 genomes]
rs12803560	0.83[EUR][1000 genomes]
rs12803803	0.83[EUR][1000 genomes]
rs12803811	0.83[EUR][1000 genomes]
rs12804031	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12804791	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12806219	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1938972	0.88[EUR][1000 genomes]
rs1938978	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1938979	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1938980	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1938987	0.87[EUR][1000 genomes]
rs1938991	0.83[EUR][1000 genomes]
rs1938994	0.95[CEU][hapmap];0.85[GIH][hapmap];0.94[TSI][hapmap];0.93[EUR][1000 genomes]
rs1943766	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1943767	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1943768	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2155047	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2155048	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2508354	0.85[EUR][1000 genomes]
rs2508357	0.85[EUR][1000 genomes]
rs2508358	0.85[EUR][1000 genomes]
rs2508359	0.87[EUR][1000 genomes]
rs2508360	0.87[EUR][1000 genomes]
rs2508362	0.87[EUR][1000 genomes]
rs2508365	0.85[EUR][1000 genomes]
rs2508366	0.85[EUR][1000 genomes]
rs2508367	0.85[EUR][1000 genomes]
rs2508369	0.85[EUR][1000 genomes]
rs2508371	0.85[EUR][1000 genomes]
rs2508372	0.85[EUR][1000 genomes]
rs2508375	0.85[EUR][1000 genomes]
rs2513146	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2513149	0.87[EUR][1000 genomes]
rs2513150	0.87[EUR][1000 genomes]
rs2513151	0.85[EUR][1000 genomes]
rs2513152	0.85[EUR][1000 genomes]
rs2513153	0.85[EUR][1000 genomes]
rs2513154	0.85[EUR][1000 genomes]
rs2513168	0.85[EUR][1000 genomes]
rs2513169	0.85[EUR][1000 genomes]
rs2513170	0.85[EUR][1000 genomes]
rs2513172	0.84[EUR][1000 genomes]
rs2513174	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs2513175	0.85[EUR][1000 genomes]
rs2513176	0.85[EUR][1000 genomes]
rs2513178	0.80[EUR][1000 genomes]
rs3018696	0.85[EUR][1000 genomes]
rs35180268	0.85[EUR][1000 genomes]
rs35452558	0.83[EUR][1000 genomes]
rs35539851	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3949114	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4388857	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4582936	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4754010	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4754750	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4754754	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57177149	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58151663	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6590848	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6590849	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.88[MKK][hapmap];0.91[TSI][hapmap];0.80[YRI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6590850	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6590854	0.85[EUR][1000 genomes]
rs66975288	0.87[EUR][1000 genomes]
rs7121801	0.85[EUR][1000 genomes]
rs72980010	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72980011	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs744021	0.83[EUR][1000 genomes]
rs7481005	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.95[MEX][hapmap];0.96[MKK][hapmap];0.94[TSI][hapmap];0.83[YRI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7924880	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.95[MEX][hapmap];0.88[MKK][hapmap];0.94[TSI][hapmap];0.80[YRI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7924990	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7925121	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7925790	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7926811	0.81[EUR][1000 genomes]
rs7928176	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7928303	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7938688	0.87[EUR][1000 genomes]
rs7939471	0.83[EUR][1000 genomes]
rs7940365	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7940483	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7948589	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9787788	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[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	nsv556131	chr11:100985777-101480017	Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
2	nsv530644	chr11:101010088-101486038	Strong transcription Weak transcription Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	esv2753322	chr11:101052790-101311790	Flanking Bivalent TSS/Enh Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv832247	chr11:101123483-101298787	Bivalent Enhancer ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv898329	chr11:101152961-101218094	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10895098	MMP27	cis	parietal	SCAN
rs10895098	MMP1	cis	parietal	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:101206200-101211600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr11:101206400-101207400	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr11:101206800-101208200	Enhancers	Pancreatic Islets	Pancreatic Islet
4	chr11:101207000-101208200	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr11:101207000-101208200	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr11:101207200-101207400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr11:101207200-101207800	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr11:101207200-101207800	Enhancers	Skeletal Muscle Female	skeletal muscle
9	chr11:101207200-101208000	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr11:101207200-101208000	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr11:101207200-101208200	Enhancers	iPS-18 Cell Line	embryonic stem cell

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