Variant report

Variant	rs10829294
Chromosome Location	chr10:27909972-27909973
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	chr10:27909294..27910994-chr10:27914195..27916114,2	MCF-7	breast:

Extended variants
information (count: 105 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:99)

rs_ID	r²[population]
rs1002861	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1027342	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10458687	0.81[ASN][1000 genomes]
rs10508722	1.00[EUR][1000 genomes]
rs10508724	0.86[EUR][1000 genomes]
rs10764699	0.86[EUR][1000 genomes]
rs10764718	1.00[EUR][1000 genomes]
rs10764719	1.00[EUR][1000 genomes]
rs10764725	0.83[ASN][1000 genomes]
rs10826346	0.86[EUR][1000 genomes]
rs10829285	1.00[EUR][1000 genomes]
rs10829286	1.00[EUR][1000 genomes]
rs10829289	0.81[ASN][1000 genomes]
rs10829290	0.81[ASN][1000 genomes]
rs10829291	0.80[ASN][1000 genomes]
rs10829292	0.82[ASN][1000 genomes]
rs10829293	0.81[ASN][1000 genomes]
rs10829296	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10829302	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10829304	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10829305	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11006697	1.00[EUR][1000 genomes]
rs11006698	1.00[EUR][1000 genomes]
rs11006699	1.00[EUR][1000 genomes]
rs11006700	1.00[EUR][1000 genomes]
rs11015826	0.86[EUR][1000 genomes]
rs11015832	0.86[EUR][1000 genomes]
rs11015833	0.86[EUR][1000 genomes]
rs11015836	0.83[EUR][1000 genomes]
rs11015840	0.86[EUR][1000 genomes]
rs11015856	0.86[EUR][1000 genomes]
rs11015857	0.86[EUR][1000 genomes]
rs11015858	0.86[EUR][1000 genomes]
rs11015875	0.86[EUR][1000 genomes]
rs11015898	1.00[EUR][1000 genomes]
rs11015908	0.83[ASN][1000 genomes]
rs11015923	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11015927	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11015928	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11015935	0.92[ASN][1000 genomes]
rs11015936	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11015938	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11015942	0.86[AMR][1000 genomes]
rs11015946	1.00[EUR][1000 genomes]
rs11015948	1.00[EUR][1000 genomes]
rs11015957	1.00[EUR][1000 genomes]
rs11015958	0.86[EUR][1000 genomes]
rs11015969	1.00[EUR][1000 genomes]
rs11015973	1.00[EUR][1000 genomes]
rs11015980	1.00[EUR][1000 genomes]
rs11015981	1.00[EUR][1000 genomes]
rs12217955	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12218027	1.00[EUR][1000 genomes]
rs12218420	0.86[EUR][1000 genomes]
rs12219258	0.86[EUR][1000 genomes]
rs12219316	0.91[AMR][1000 genomes]
rs12219955	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12220217	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12220463	0.86[EUR][1000 genomes]
rs12257550	0.86[EUR][1000 genomes]
rs12264856	1.00[EUR][1000 genomes]
rs12411785	1.00[MEX][hapmap];0.95[AMR][1000 genomes]
rs12411792	0.95[AMR][1000 genomes]
rs12411804	0.86[EUR][1000 genomes]
rs12412077	0.91[AMR][1000 genomes]
rs12569521	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12571836	0.86[EUR][1000 genomes]
rs12572531	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1687728	0.84[ASN][1000 genomes]
rs1690678	0.95[ASN][1000 genomes]
rs1690688	0.86[ASN][1000 genomes]
rs1690689	0.85[ASN][1000 genomes]
rs1690690	0.88[ASN][1000 genomes]
rs17756134	0.86[EUR][1000 genomes]
rs17756253	0.86[EUR][1000 genomes]
rs1907388	0.86[EUR][1000 genomes]
rs2242356	0.86[EUR][1000 genomes]
rs2451928	0.87[ASN][1000 genomes]
rs2934710	0.87[ASN][1000 genomes]
rs57812861	1.00[EUR][1000 genomes]
rs72629759	0.86[EUR][1000 genomes]
rs72629760	0.86[EUR][1000 genomes]
rs72629761	0.86[EUR][1000 genomes]
rs72629762	0.86[EUR][1000 genomes]
rs72629763	0.86[EUR][1000 genomes]
rs72629764	0.86[EUR][1000 genomes]
rs72629766	1.00[EUR][1000 genomes]
rs72629767	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72629772	1.00[EUR][1000 genomes]
rs72629774	1.00[EUR][1000 genomes]
rs72629775	1.00[EUR][1000 genomes]
rs72629776	1.00[EUR][1000 genomes]
rs72629777	1.00[EUR][1000 genomes]
rs72629778	1.00[EUR][1000 genomes]
rs72631837	1.00[EUR][1000 genomes]
rs72631838	1.00[EUR][1000 genomes]
rs72631839	1.00[EUR][1000 genomes]
rs7358151	0.86[EUR][1000 genomes]
rs8181307	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv550241	chr10:27569521-28025771	Enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv1045257	chr10:27572440-27926946	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv1053952	chr10:27659365-27915029	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
4	esv3368825	chr10:27864181-28043820	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv894985	chr10:27869503-27957785	Bivalent Enhancer Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv894986	chr10:27904646-27957785	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27904000-27913800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr10:27904400-27914000	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr10:27904400-27914600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr10:27907200-27913600	Enhancers	Fetal Muscle Leg	muscle
5	chr10:27907600-27910200	Enhancers	HSMMtube	muscle
6	chr10:27908200-27910400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr10:27908200-27910800	Enhancers	Fetal Stomach	stomach
8	chr10:27908600-27910800	Enhancers	Adipose Nuclei	Adipose
9	chr10:27909000-27911800	Weak transcription	Fetal Muscle Trunk	muscle
10	chr10:27909200-27910000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr10:27909200-27910400	Enhancers	Rectal Smooth Muscle	rectum
12	chr10:27909400-27910000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr10:27909400-27910200	Enhancers	Brain Inferior Temporal Lobe	brain
14	chr10:27909400-27910400	Enhancers	Placenta	Placenta
15	chr10:27909400-27910600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr10:27909400-27910600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr10:27909400-27910600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr10:27909400-27910600	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr10:27909400-27910600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr10:27909400-27910600	Enhancers	HMEC	breast
21	chr10:27909400-27910800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr10:27909400-27910800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr10:27909400-27910800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
24	chr10:27909400-27910800	Enhancers	Fetal Lung	lung
25	chr10:27909400-27910800	Flanking Active TSS	Osteobl	bone
26	chr10:27909400-27911000	Enhancers	Placenta Amnion	Placenta Amnion
27	chr10:27909600-27910000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr10:27909600-27910000	Flanking Active TSS	Stomach Smooth Muscle	stomach
29	chr10:27909600-27910400	Weak transcription	Aorta	Aorta
30	chr10:27909600-27910600	Enhancers	NHEK	skin
31	chr10:27909800-27910200	Enhancers	H9 Cell Line	embryonic stem cell
32	chr10:27909800-27910200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr10:27909800-27910200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr10:27909800-27910200	Enhancers	Colon Smooth Muscle	Colon
35	chr10:27909800-27910200	Weak transcription	Psoas Muscle	Psoas
36	chr10:27909800-27910200	Active TSS	HSMM	muscle
37	chr10:27909800-27910400	Flanking Active TSS	Ovary	ovary
38	chr10:27909800-27910400	Enhancers	NHDF-Ad	bronchial
39	chr10:27909800-27910800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr10:27909800-27914000	Weak transcription	Brain Germinal Matrix	brain

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