Variant report

Variant	rs11553577
Chromosome Location	chr10:97453464-97453465
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:97453328..97454140-chr4:2010232..2010748,2	NB4	blood:
2	chr10:97414876..97416556-chr10:97452777..97454283,2	MCF-7	breast:
3	chr10:97416004..97416752-chr10:97453272..97453815,2	MCF-7	breast:
4	chr10:97453319..97454115-chr7:17337855..17338662,2	Hela-S3	cervix:

Variant related genes	Relation type
ENSG00000059573	Chromatin interaction
ENSG00000237773	Chromatin interaction
ENSG00000106546	Chromatin interaction
ENSG00000185049	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs11188367	0.82[CEU][hapmap];0.80[EUR][1000 genomes]
rs11188382	0.81[EUR][1000 genomes]
rs11188383	0.81[EUR][1000 genomes]
rs11188388	0.90[EUR][1000 genomes]
rs11188391	0.85[EUR][1000 genomes]
rs11188405	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11188410	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11188412	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11188413	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11188415	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11188419	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11188423	0.88[JPT][hapmap]
rs11188424	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11188431	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11188433	0.88[JPT][hapmap]
rs11188448	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11188450	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11188451	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11188461	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11188466	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11188467	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11188469	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11188475	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11188479	0.81[EUR][1000 genomes]
rs11188481	0.81[EUR][1000 genomes]
rs11188491	0.81[EUR][1000 genomes]
rs11188502	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs11188508	0.81[EUR][1000 genomes]
rs12354465	0.85[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.80[EUR][1000 genomes]
rs12357211	0.90[EUR][1000 genomes]
rs12357513	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.80[EUR][1000 genomes]
rs12358517	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12784530	0.88[JPT][hapmap]
rs2275760	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs2282305	0.88[JPT][hapmap]
rs3176882	0.85[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap]
rs3181121	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];0.81[EUR][1000 genomes]
rs3818833	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41291576	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4420188	0.81[EUR][1000 genomes]
rs56747025	0.85[EUR][1000 genomes]
rs58059905	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58169787	0.81[EUR][1000 genomes]
rs60144080	0.81[EUR][1000 genomes]
rs61587319	0.90[EUR][1000 genomes]
rs61731067	0.81[EUR][1000 genomes]
rs61736814	0.80[EUR][1000 genomes]
rs7070507	0.81[EUR][1000 genomes]
rs7073937	1.00[JPT][hapmap]
rs7090630	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7093453	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.81[EUR][1000 genomes]
rs7100644	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs73315224	0.81[EUR][1000 genomes]
rs73329287	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73331134	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73333021	0.81[EUR][1000 genomes]
rs7893577	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv526180	chr10:97332195-97511037	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv531923	chr10:97366055-97725757	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97451800-97453800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr10:97452200-97454000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr10:97452200-97454200	Active TSS	HUES64 Cell Line	embryonic stem cell
4	chr10:97452400-97453600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
5	chr10:97452400-97453600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr10:97452400-97453800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr10:97452400-97453800	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr10:97452400-97453800	Active TSS	HSMM	muscle
9	chr10:97452400-97454200	Active TSS	HUES48 Cell Line	embryonic stem cell
10	chr10:97452400-97454200	Active TSS	iPS-18 Cell Line	embryonic stem cell
11	chr10:97452400-97454200	Active TSS	iPS-20b Cell Line	embryonic stem cell
12	chr10:97452400-97454200	Active TSS	A549	lung
13	chr10:97452400-97454400	Active TSS	Breast Myoepithelial Primary Cells	Breast
14	chr10:97452600-97453600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr10:97452600-97453600	Flanking Active TSS	Adipose Nuclei	Adipose
16	chr10:97452600-97453800	Active TSS	H9 Cell Line	embryonic stem cell
17	chr10:97452600-97453800	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr10:97452600-97453800	Active TSS	HUES6 Cell Line	embryonic stem cell
19	chr10:97452600-97453800	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr10:97452600-97453800	Flanking Active TSS	Primary B cells from cord blood	blood
21	chr10:97452600-97453800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
22	chr10:97452600-97453800	Active TSS	NHDF-Ad	bronchial
23	chr10:97452600-97454000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr10:97452600-97454200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr10:97452600-97454200	Active TSS	Ovary	ovary
26	chr10:97452600-97454200	Active TSS	Right Atrium	heart
27	chr10:97452600-97454200	Active TSS	NHLF	lung
28	chr10:97452600-97454400	Active TSS	Pancreatic Islets	Pancreatic Islet
29	chr10:97452800-97453600	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
30	chr10:97452800-97453600	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
31	chr10:97452800-97453600	Flanking Active TSS	Placenta	Placenta
32	chr10:97452800-97453800	Active TSS	ES-I3 Cell Line	embryonic stem cell
33	chr10:97452800-97453800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
34	chr10:97452800-97453800	Active TSS	H1 Cell Line	embryonic stem cell
35	chr10:97452800-97453800	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr10:97452800-97453800	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr10:97452800-97453800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr10:97452800-97453800	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
39	chr10:97452800-97453800	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr10:97452800-97453800	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
41	chr10:97452800-97453800	Active TSS	Aorta	Aorta
42	chr10:97452800-97453800	Active TSS	Pancreas	Pancrea
43	chr10:97452800-97453800	Active TSS	Stomach Mucosa	stomach
44	chr10:97452800-97453800	Active TSS	HSMMtube	muscle
45	chr10:97452800-97453800	Active TSS	NHEK	skin
46	chr10:97452800-97454000	Active TSS	Fetal Intestine Large	intestine
47	chr10:97452800-97454000	Active TSS	Fetal Muscle Trunk	muscle
48	chr10:97452800-97454000	Active TSS	GM12878-XiMat	blood
49	chr10:97452800-97454200	Active TSS	K562	blood
50	chr10:97453000-97453600	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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