Variant report

Variant	rs11828568
Chromosome Location	chr11:75655438-75655439
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:75654952-75655657	H1-neurons	neurons:	n/a	n/a
2	CTCF	chr11:75655398-75655463	GM10266	blood:	n/a	n/a
3	STAT3	chr11:75655348-75655440	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr11:75632402..75634534-chr11:75653760..75656009,2	MCF-7	breast:
2	chr11:75654690..75656388-chr11:75656892..75658413,2	MCF-7	breast:
3	chr11:75645975..75650713-chr11:75652976..75655754,4	K562	blood:

Variant related genes	Relation type
ENSG00000254915	TF binding region
ENSG00000223013	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs11820368	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11822610	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11823080	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11825180	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11825311	0.82[GIH][hapmap];1.00[TSI][hapmap]
rs11825402	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11827625	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1380074	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1380075	0.91[EUR][1000 genomes]
rs1380076	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1380077	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17134442	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17134444	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17134447	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17134448	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17134477	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1995893	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2099856	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2371719	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5026790	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56366270	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58050930	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59147439	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59656978	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60175455	0.84[EUR][1000 genomes]
rs60935802	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61311719	0.83[AFR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6592616	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6592626	0.82[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs6592627	0.82[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs7104218	0.84[AFR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7107458	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs7108765	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7109235	0.82[AFR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7109363	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7111334	0.82[MKK][hapmap]
rs7113365	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7114160	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7115483	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7115657	1.00[CEU][hapmap];1.00[GIH][hapmap];0.97[EUR][1000 genomes]
rs7117696	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7120267	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7126845	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7127326	0.81[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs713275	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.89[YRI][hapmap];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73493909	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73493938	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73493942	1.00[EUR][1000 genomes]
rs73493943	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73493944	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73493952	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7927825	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7927853	0.97[EUR][1000 genomes]
rs7927868	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7931418	0.97[EUR][1000 genomes]
rs7931944	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7937633	0.94[EUR][1000 genomes]
rs7937889	0.82[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs7941207	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7946059	0.82[GIH][hapmap];1.00[TSI][hapmap]
rs7949033	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7951333	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[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	nsv897924	chr11:75424546-75678647	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv832212	chr11:75524993-75725623	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv515973	chr11:75569267-75832315	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 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	chr11:75586600-75676000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr11:75603600-75657000	Weak transcription	Primary hematopoietic stem cells	blood
3	chr11:75604600-75657600	Weak transcription	Fetal Thymus	thymus
4	chr11:75622800-75657600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr11:75625000-75682400	Weak transcription	Primary T cells from cord blood	blood
6	chr11:75625200-75656800	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr11:75625400-75657600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr11:75636400-75677400	Weak transcription	Hela-S3	cervix
9	chr11:75637000-75656400	Weak transcription	Brain Anterior Caudate	brain
10	chr11:75639400-75656800	Weak transcription	Fetal Intestine Small	intestine
11	chr11:75642800-75656600	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr11:75650000-75656400	Weak transcription	Right Atrium	heart
13	chr11:75650000-75656800	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr11:75650000-75657400	Weak transcription	NH-A	brain
15	chr11:75650800-75656200	Weak transcription	Psoas Muscle	Psoas
16	chr11:75650800-75656200	Weak transcription	Right Ventricle	heart
17	chr11:75650800-75657400	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr11:75650800-75657600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr11:75651000-75657000	Weak transcription	Fetal Lung	lung
20	chr11:75651200-75656800	Weak transcription	Duodenum Mucosa	Duodenum
21	chr11:75651800-75657000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr11:75652000-75656800	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr11:75652400-75657000	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr11:75652600-75656400	Weak transcription	Brain Cingulate Gyrus	brain
25	chr11:75652600-75656600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr11:75652800-75655800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr11:75652800-75657600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr11:75653000-75655600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr11:75653000-75656200	Weak transcription	GM12878-XiMat	blood
30	chr11:75653000-75672200	Weak transcription	Primary monocytes fromperipheralblood	blood
31	chr11:75653200-75656000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr11:75653200-75660600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr11:75653200-75672200	Weak transcription	Monocytes-CD14+_RO01746	blood
34	chr11:75653600-75656400	Weak transcription	Adipose Nuclei	Adipose
35	chr11:75653600-75657600	Weak transcription	Placenta	Placenta
36	chr11:75653800-75655800	Strong transcription	Primary B cells from cord blood	blood
37	chr11:75654000-75657800	Weak transcription	Primary neutrophils fromperipheralblood	blood
38	chr11:75654800-75655800	Enhancers	Pancreatic Islets	Pancreatic Islet
39	chr11:75654800-75655800	Enhancers	Sigmoid Colon	Sigmoid Colon
40	chr11:75654800-75657000	Enhancers	Small Intestine	intestine
41	chr11:75655200-75655600	Enhancers	Rectal Mucosa Donor 29	rectum
42	chr11:75655200-75655600	Enhancers	Stomach Mucosa	stomach
43	chr11:75655200-75656200	Weak transcription	Primary B cells from peripheral blood	blood
44	chr11:75655200-75656200	Weak transcription	Cortex derived primary cultured neurospheres	brain
45	chr11:75655200-75656400	Weak transcription	Brain Angular Gyrus	brain
46	chr11:75655400-75656400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr11:75655400-75656400	Weak transcription	Rectal Mucosa Donor 31	rectum
48	chr11:75655400-75656800	Weak transcription	Brain Hippocampus Middle	brain
49	chr11:75655400-75657000	Weak transcription	Brain Substantia Nigra	brain
50	chr11:75655400-75671200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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