Variant report

Variant	rs12776792
Chromosome Location	chr10:92707186-92707187
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:92696774..92699626-chr10:92704763..92707739,2	MCF-7	breast:

Extended variants
information (count: 61 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10748556	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10785977	0.82[AFR][1000 genomes]
rs10785978	0.83[AFR][1000 genomes]
rs10785983	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10881858	0.94[AFR][1000 genomes]
rs10881859	0.94[AFR][1000 genomes]
rs10881860	0.97[AFR][1000 genomes]
rs10881861	0.83[AFR][1000 genomes]
rs10881862	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10881869	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10881872	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10881873	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11186373	0.97[AFR][1000 genomes]
rs11186374	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11186375	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11186376	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11186377	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11186388	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11186394	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11186397	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11186407	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12217709	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12761951	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12774602	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12779698	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12781271	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1318550	0.84[CHD][hapmap];0.84[JPT][hapmap]
rs1334581	0.85[AMR][1000 genomes]
rs1334583	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1418814	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1439092	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1439093	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1439094	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1439095	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1561446	0.95[CEU][hapmap];0.86[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1919132	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2178206	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2420498	0.83[AFR][1000 genomes]
rs4335456	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4933201	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4933625	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4933628	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4933631	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4933633	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4933634	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7079147	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7080368	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7081190	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7083742	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7088989	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7088999	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7094853	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7099299	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs747335	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7906208	0.83[AFR][1000 genomes]
rs7909948	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7916703	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7917623	0.94[AFR][1000 genomes]
rs9325454	0.86[CEU][hapmap];0.84[JPT][hapmap]
rs9732462	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831945	chr10:92590576-92793582	Active TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs12776792	IFIT1B	cis	parietal	SCAN
rs12776792	NOC3L	cis	cerebellum	SCAN
rs12776792	RPP30	cis	parietal	SCAN

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:92704200-92707800	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr10:92704400-92707600	Enhancers	HSMM	muscle
3	chr10:92704600-92707600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr10:92704600-92708000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr10:92705000-92707600	Enhancers	NHDF-Ad	bronchial
6	chr10:92705600-92707200	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr10:92706000-92707200	Enhancers	Primary T cells from cord blood	blood
8	chr10:92706000-92707600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr10:92706000-92707600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr10:92706400-92707400	Enhancers	Primary hematopoietic stem cells	blood
11	chr10:92706400-92707400	Enhancers	Muscle Satellite Cultured Cells	--
12	chr10:92706400-92707600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr10:92706600-92707200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
14	chr10:92706800-92707200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
15	chr10:92706800-92707200	Enhancers	HUVEC	blood vessel
16	chr10:92706800-92707400	Enhancers	Primary T helper naive cells from peripheral blood	blood
17	chr10:92706800-92707400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr10:92706800-92707400	Enhancers	Primary T helper cells fromperipheralblood	blood
19	chr10:92706800-92707400	Enhancers	NH-A	brain
20	chr10:92706800-92707600	Enhancers	Primary T helper cells PMA-I stimulated	--
21	chr10:92706800-92707600	Enhancers	HSMMtube	muscle
22	chr10:92706800-92707800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr10:92706800-92707800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr10:92706800-92707800	Enhancers	Fetal Heart	heart
25	chr10:92707000-92707200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr10:92707000-92707200	Enhancers	Osteobl	bone
27	chr10:92707000-92707400	Enhancers	Primary T killer memory cells from peripheral blood	blood
28	chr10:92707000-92707400	ZNF genes & repeats	GM12878-XiMat	blood
29	chr10:92707000-92707600	Flanking Active TSS	Fetal Thymus	thymus
30	chr10:92707000-92707600	Enhancers	HMEC	breast
31	chr10:92707000-92707800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr10:92707000-92707800	Flanking Active TSS	Thymus	Thymus
33	chr10:92707000-92708000	Enhancers	Placenta	Placenta
34	chr10:92707000-92708200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr10:92707000-92708600	Flanking Active TSS	Dnd41	blood

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