Variant report

Variant	rs11188424
Chromosome Location	chr10:97429660-97429661
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:97425900..97430899-chr10:97432163..97436745,6	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs11188367	0.83[EUR][1000 genomes]
rs11188382	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11188383	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11188388	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11188391	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11188405	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11188410	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11188412	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11188413	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11188415	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11188419	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11188431	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11188448	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11188450	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11188451	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11188461	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11188466	0.87[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs11188467	0.87[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs11188469	0.87[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs11188475	0.87[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs11188479	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11188481	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11188491	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11188502	0.83[EUR][1000 genomes]
rs11188508	0.83[EUR][1000 genomes]
rs11553577	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12354465	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12357211	0.92[EUR][1000 genomes]
rs12357513	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12358517	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2275760	0.83[EUR][1000 genomes]
rs3181121	0.83[EUR][1000 genomes]
rs3818833	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs41291576	0.87[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs4420188	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs56747025	0.82[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs58059905	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58169787	0.83[EUR][1000 genomes]
rs60144080	0.83[EUR][1000 genomes]
rs61587319	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61731067	0.83[EUR][1000 genomes]
rs61736814	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7070507	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7090630	0.87[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs7093453	0.83[EUR][1000 genomes]
rs7100644	0.83[EUR][1000 genomes]
rs73315224	0.83[EUR][1000 genomes]
rs73329287	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73331134	0.87[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs73333021	0.83[EUR][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	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
3	esv2760117	chr10:97426086-97436264	Strong transcription Weak transcription Enhancers Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97416600-97441000	Weak transcription	Spleen	Spleen
2	chr10:97416800-97441600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr10:97416800-97442400	Weak transcription	Small Intestine	intestine
4	chr10:97416800-97443400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr10:97417000-97434800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr10:97417000-97434800	Weak transcription	Ovary	ovary
7	chr10:97417000-97434800	Weak transcription	HUVEC	blood vessel
8	chr10:97417000-97436200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr10:97417000-97436400	Weak transcription	HMEC	breast
10	chr10:97417000-97437400	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr10:97417000-97439800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr10:97417000-97439800	Weak transcription	Brain Cingulate Gyrus	brain
13	chr10:97417000-97439800	Weak transcription	Brain Substantia Nigra	brain
14	chr10:97417000-97441000	Weak transcription	HSMMtube	muscle
15	chr10:97417000-97442400	Weak transcription	Aorta	Aorta
16	chr10:97417000-97444200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr10:97417000-97445200	Weak transcription	Colonic Mucosa	Colon
18	chr10:97417000-97445800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr10:97417000-97445800	Weak transcription	NHLF	lung
20	chr10:97417200-97430400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr10:97417200-97435400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr10:97417200-97435400	Weak transcription	Stomach Mucosa	stomach
23	chr10:97417200-97435600	Weak transcription	NH-A	brain
24	chr10:97417200-97436400	Weak transcription	NHDF-Ad	bronchial
25	chr10:97417200-97437400	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr10:97417200-97438800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr10:97417200-97438800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr10:97417200-97439000	Weak transcription	Fetal Brain Male	brain
29	chr10:97417200-97439600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr10:97417200-97439800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
31	chr10:97417200-97440000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
32	chr10:97417200-97441000	Weak transcription	Thymus	Thymus
33	chr10:97417200-97441800	Weak transcription	Brain Angular Gyrus	brain
34	chr10:97417200-97442400	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr10:97417200-97444400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
36	chr10:97417200-97445800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
37	chr10:97417400-97432600	Weak transcription	Primary T helper cells PMA-I stimulated	--
38	chr10:97417400-97439800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr10:97417600-97439000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr10:97421800-97441800	Weak transcription	Gastric	stomach
41	chr10:97422000-97434400	Weak transcription	A549	lung
42	chr10:97423000-97452000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr10:97423600-97439000	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr10:97423600-97441000	Weak transcription	Lung	lung
45	chr10:97423600-97441800	Weak transcription	Esophagus	oesophagus
46	chr10:97424000-97435400	Weak transcription	HepG2	liver
47	chr10:97424000-97439600	Weak transcription	Placenta Amnion	Placenta Amnion
48	chr10:97424000-97440000	Weak transcription	Psoas Muscle	Psoas
49	chr10:97424000-97448200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
50	chr10:97424200-97434400	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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