Variant report

Variant	rs10769953
Chromosome Location	chr11:8778352-8778353
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:8775891..8778545-chr11:8784812..8786511,2	K562	blood:
2	chr11:8776493..8778441-chr11:8825146..8827348,2	MCF-7	breast:
3	chr11:8702183..8705528-chr11:8775853..8778688,3	K562	blood:

Variant related genes	Relation type
ENSG00000166441	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10160684	0.90[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10500705	1.00[CEU][hapmap];0.90[GIH][hapmap];0.92[MEX][hapmap];0.95[TSI][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10500707	1.00[CEU][hapmap];0.92[GIH][hapmap];0.92[MEX][hapmap];0.95[TSI][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10732515	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10734636	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10734637	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10743087	0.95[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.89[TSI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10743088	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10743089	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.89[TSI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10769952	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10769954	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10769959	0.95[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1079452	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.89[TSI][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11042058	1.00[CEU][hapmap];0.85[GIH][hapmap];0.98[TSI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11042066	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11042068	1.00[CEU][hapmap];0.95[GIH][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11042077	0.85[GIH][hapmap];0.83[MEX][hapmap];0.87[TSI][hapmap]
rs11603335	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2173999	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2292045	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2292046	0.95[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2873297	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34090393	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34524863	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34599227	0.88[EUR][1000 genomes]
rs35098775	0.89[EUR][1000 genomes]
rs35670750	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3763920	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.89[TSI][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3812762	0.90[CEU][hapmap];0.87[MEX][hapmap];0.91[TSI][hapmap];0.84[EUR][1000 genomes]
rs3842991	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3844099	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3844100	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3850933	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3862352	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4929910	0.95[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.89[TSI][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4929934	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4929936	1.00[CEU][hapmap];0.95[GIH][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6484008	0.86[CEU][hapmap];0.83[GIH][hapmap];0.81[JPT][hapmap];0.96[MEX][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes]
rs6484425	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7120004	0.86[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.84[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7934519	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7952335	0.84[CEU][hapmap];0.84[AMR][1000 genomes]
rs905289	0.91[CEU][hapmap];0.83[GIH][hapmap];0.81[JPT][hapmap];0.96[MEX][hapmap];0.89[TSI][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs10769953	RPL27A	cis	cerebellum	SCAN
rs10769953	OR51F1	cis	parietal	SCAN
rs10769953	MRPL17	cis	cerebellum	SCAN
rs10769953	RPL27A	cis	parietal	SCAN
rs10769953	STK33	cis	cerebellum	SCAN
rs10769953	SNORA45	cis	cerebellum	SCAN

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:8746600-8783000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr11:8753000-8780600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr11:8754600-8778400	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr11:8755800-8780800	Weak transcription	Brain Cingulate Gyrus	brain
5	chr11:8763400-8781000	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr11:8767000-8779800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr11:8769200-8778800	Weak transcription	Fetal Kidney	kidney
8	chr11:8769400-8781000	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr11:8771200-8778800	Weak transcription	Stomach Mucosa	stomach
10	chr11:8771400-8779600	Weak transcription	Gastric	stomach
11	chr11:8772200-8778800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr11:8772200-8781200	Weak transcription	Lung	lung
13	chr11:8772200-8782600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr11:8772400-8778800	Weak transcription	NHEK	skin
15	chr11:8772400-8780400	Weak transcription	Placenta	Placenta
16	chr11:8772400-8782800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr11:8772400-8787000	Weak transcription	Brain Hippocampus Middle	brain
18	chr11:8772400-8788400	Weak transcription	Hela-S3	cervix
19	chr11:8772600-8778400	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr11:8775400-8780000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr11:8775400-8782800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr11:8775600-8778600	Weak transcription	HMEC	breast
23	chr11:8776000-8779400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr11:8776000-8781800	Enhancers	NHDF-Ad	bronchial
25	chr11:8776200-8778800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr11:8776600-8779000	Enhancers	Right Atrium	heart
27	chr11:8777000-8779400	Enhancers	Osteobl	bone
28	chr11:8777000-8780200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr11:8777000-8781200	Weak transcription	Fetal Lung	lung
30	chr11:8777200-8778400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr11:8777200-8778600	Enhancers	Breast Myoepithelial Primary Cells	Breast
32	chr11:8777200-8779200	Enhancers	Right Ventricle	heart
33	chr11:8777200-8779200	Genic enhancers	HSMM	muscle
34	chr11:8777200-8782200	Enhancers	Psoas Muscle	Psoas
35	chr11:8777400-8779000	Enhancers	Muscle Satellite Cultured Cells	--
36	chr11:8777400-8779200	Enhancers	HSMMtube	muscle
37	chr11:8777400-8779400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr11:8777400-8779600	Enhancers	Adipose Nuclei	Adipose
39	chr11:8777400-8780000	Enhancers	NH-A	brain
40	chr11:8777400-8780200	Enhancers	Pancreas	Pancrea
41	chr11:8777400-8780400	Enhancers	Stomach Smooth Muscle	stomach
42	chr11:8777400-8780600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr11:8777400-8780600	Enhancers	Colon Smooth Muscle	Colon
44	chr11:8777400-8780600	Enhancers	Fetal Muscle Leg	muscle
45	chr11:8777400-8783400	Enhancers	NHLF	lung
46	chr11:8777400-8784000	Enhancers	Skeletal Muscle Female	skeletal muscle
47	chr11:8777400-8784200	Enhancers	Fetal Intestine Large	intestine
48	chr11:8777400-8784200	Enhancers	Left Ventricle	heart
49	chr11:8777400-8795800	Enhancers	Rectal Smooth Muscle	rectum
50	chr11:8777600-8778600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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