Variant report

Variant	rs10761240
Chromosome Location	chr9:96361922-96361923
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:96356589..96359432-chr9:96360730..96362532,3	MCF-7	breast:
2	chr9:96353399..96355498-chr9:96360574..96362233,2	MCF-7	breast:
3	chr9:96360523..96363170-chr9:96791187..96793107,2	MCF-7	breast:
4	chr13:19663485..19664146-chr9:96361818..96362350,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000158079	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10114002	0.82[CHD][hapmap]
rs10116422	0.82[CHD][hapmap]
rs10117225	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10117691	0.81[CHB][hapmap];0.89[JPT][hapmap]
rs10123378	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.82[TSI][hapmap];0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10156602	0.95[CHB][hapmap];0.80[ASN][1000 genomes]
rs10739951	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10761238	0.85[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.94[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10761239	0.85[CHB][hapmap]
rs10761241	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10761242	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10761243	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10821160	0.81[CEU][hapmap]
rs10821164	0.85[CHB][hapmap]
rs10821166	0.85[CHB][hapmap]
rs10821168	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.94[JPT][hapmap];0.95[MEX][hapmap];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10821169	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821173	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821174	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10821175	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10821176	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10821179	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10821180	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10821181	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10992792	0.83[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10992797	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992798	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992799	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10992800	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10992804	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10992805	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10992860	0.82[MEX][hapmap]
rs1132004	0.91[MEX][hapmap]
rs11791934	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12238738	0.91[MEX][hapmap]
rs13291079	0.93[CEU][hapmap];0.86[EUR][1000 genomes]
rs13294381	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1412048	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.91[MEX][hapmap];0.82[TSI][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1412049	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2001610	0.86[MEX][hapmap]
rs2398845	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2398846	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2398847	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2895249	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3750359	0.91[MEX][hapmap]
rs4568663	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.96[MKK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7040340	0.82[MEX][hapmap]
rs7857266	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]

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	nsv824984	chr9:96310933-96375022	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1040891	chr9:96361529-96397338	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96341800-96362200	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr9:96345000-96362600	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr9:96349000-96365800	Weak transcription	Rectal Smooth Muscle	rectum
4	chr9:96352400-96366000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr9:96352400-96369200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr9:96352400-96384600	Weak transcription	NHLF	lung
7	chr9:96352600-96362400	Weak transcription	Fetal Lung	lung
8	chr9:96355200-96362600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr9:96355200-96362800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr9:96355200-96362800	Weak transcription	Brain Angular Gyrus	brain
11	chr9:96356400-96364000	Enhancers	Primary T helper cells PMA-I stimulated	--
12	chr9:96356600-96365600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr9:96356800-96362600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr9:96357000-96362200	Weak transcription	Small Intestine	intestine
15	chr9:96357000-96362400	Weak transcription	HSMM	muscle
16	chr9:96357000-96362600	Weak transcription	A549	lung
17	chr9:96357000-96367000	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr9:96357200-96362400	Weak transcription	Hela-S3	cervix
19	chr9:96357200-96362800	Weak transcription	HMEC	breast
20	chr9:96357400-96362400	Weak transcription	NHEK	skin
21	chr9:96357600-96364200	Enhancers	Pancreas	Pancrea
22	chr9:96357600-96364600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr9:96357800-96362600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr9:96358200-96363000	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr9:96358200-96363600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
26	chr9:96358400-96363000	Enhancers	Right Atrium	heart
27	chr9:96358400-96364000	Enhancers	Skeletal Muscle Male	skeletal muscle
28	chr9:96358400-96365200	Enhancers	Primary B cells from peripheral blood	blood
29	chr9:96359200-96364000	Enhancers	Primary T cells fromperipheralblood	blood
30	chr9:96359400-96362600	Enhancers	Primary T cells from cord blood	blood
31	chr9:96359600-96363000	Enhancers	Ovary	ovary
32	chr9:96359600-96363200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr9:96359600-96363200	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
34	chr9:96359600-96363600	Enhancers	Primary T helper naive cells from peripheral blood	blood
35	chr9:96359600-96363800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
36	chr9:96359600-96363800	Enhancers	Sigmoid Colon	Sigmoid Colon
37	chr9:96359600-96364200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
38	chr9:96359600-96364200	Enhancers	Lung	lung
39	chr9:96359600-96364400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
40	chr9:96359600-96364400	Enhancers	Left Ventricle	heart
41	chr9:96359800-96363200	Enhancers	Cortex derived primary cultured neurospheres	brain
42	chr9:96359800-96363400	Enhancers	Primary T killer memory cells from peripheral blood	blood
43	chr9:96359800-96363600	Enhancers	Fetal Thymus	thymus
44	chr9:96360000-96363000	Enhancers	Fetal Brain Female	brain
45	chr9:96360000-96363600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
46	chr9:96360000-96363600	Enhancers	Brain Substantia Nigra	brain
47	chr9:96360000-96364000	Enhancers	Brain Inferior Temporal Lobe	brain
48	chr9:96360000-96365000	Enhancers	Brain Germinal Matrix	brain
49	chr9:96360200-96362000	Genic enhancers	Fetal Muscle Trunk	muscle
50	chr9:96360200-96362200	Enhancers	Right Ventricle	heart

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