Variant report

Variant	rs7095666
Chromosome Location	chr10:18939467-18939468
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	chr10:18938647..18942217-chr10:18945513..18950534,9	MCF-7	breast:
2	chr10:18937279..18942257-chr10:18944156..18951752,16	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165997	Chromatin interaction
ENSG00000152487	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10732437	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10741086	1.00[CHB][hapmap]
rs10741120	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10741131	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10764584	1.00[CHD][hapmap]
rs10764587	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs10764661	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10828834	0.82[CEU][hapmap];0.91[GIH][hapmap];0.86[TSI][hapmap]
rs10828879	1.00[CHD][hapmap];0.81[YRI][hapmap]
rs10828906	1.00[CHD][hapmap];0.80[MEX][hapmap]
rs10829156	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.81[MKK][hapmap];0.83[TSI][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829157	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829199	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1917209	1.00[ASN][1000 genomes]
rs1917823	0.82[CEU][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4316423	0.92[EUR][1000 genomes]
rs4338439	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4456162	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs4475830	1.00[ASN][1000 genomes]
rs4484992	1.00[CHB][hapmap]
rs4606373	1.00[ASN][1000 genomes]
rs4634984	1.00[ASN][1000 genomes]
rs4636555	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs4748476	1.00[CHB][hapmap]
rs4748479	1.00[ASN][1000 genomes]
rs4748493	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs4748494	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs4748502	0.94[EUR][1000 genomes]
rs4748504	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4748505	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs4748507	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62636215	0.89[ASN][1000 genomes]
rs6482516	1.00[CHD][hapmap];0.89[YRI][hapmap]
rs6482534	1.00[CHB][hapmap];0.82[LWK][hapmap];1.00[ASN][1000 genomes]
rs6482545	0.89[ASN][1000 genomes]
rs6482546	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6482565	0.97[EUR][1000 genomes]
rs6482567	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7075678	0.84[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7077786	0.88[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7081271	1.00[CHD][hapmap];0.82[GIH][hapmap]
rs7081435	1.00[CHB][hapmap];0.96[YRI][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7082235	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7084709	0.81[EUR][1000 genomes]
rs7090926	0.89[ASN][1000 genomes]
rs7092437	1.00[CHB][hapmap]
rs7093907	0.88[CEU][hapmap];1.00[CHB][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7097534	0.84[EUR][1000 genomes]
rs7098721	1.00[ASN][1000 genomes]
rs7099307	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7100884	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7895709	1.00[CHB][hapmap];0.82[LWK][hapmap];1.00[ASN][1000 genomes]
rs7895775	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7908550	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7909552	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap];0.82[AFR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7910506	1.00[CHD][hapmap]
rs7911922	1.00[ASN][1000 genomes]
rs7918933	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7923072	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8181345	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9731044	0.90[EUR][1000 genomes];1.00[ASN][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	nsv550042	chr10:18683267-18994583	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv466762	chr10:18932172-18976659	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv550121	chr10:18932172-18976659	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs7095666	OAT	trans	lymphoblastoid	seeQTL
rs7095666	OLAH	cis	parietal	SCAN
rs7095666	NSUN6	cis	cerebellum	SCAN
rs7095666	ARL5B	cis	cerebellum	SCAN
rs7095666	RPP38	cis	cerebellum	SCAN
rs7095666	NSUN6	cis	parietal	SCAN

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18916800-18939800	Weak transcription	Aorta	Aorta
2	chr10:18916800-18940200	Weak transcription	Spleen	Spleen
3	chr10:18917000-18939600	Weak transcription	Placenta	Placenta
4	chr10:18917000-18939800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr10:18917000-18940200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr10:18917000-18940200	Weak transcription	Lung	lung
7	chr10:18922600-18939600	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr10:18926000-18940200	Weak transcription	Small Intestine	intestine
9	chr10:18927400-18939600	Weak transcription	Pancreas	Pancrea
10	chr10:18928800-18939600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr10:18928800-18939600	Weak transcription	Gastric	stomach
12	chr10:18931000-18939600	Weak transcription	Fetal Muscle Leg	muscle
13	chr10:18937000-18939600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
14	chr10:18937000-18939600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr10:18937000-18941400	Active TSS	GM12878-XiMat	blood
16	chr10:18937200-18939600	Weak transcription	Fetal Muscle Trunk	muscle
17	chr10:18937200-18939600	Weak transcription	Left Ventricle	heart
18	chr10:18937400-18939600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
19	chr10:18937400-18939600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr10:18937600-18939600	Flanking Active TSS	Dnd41	blood
21	chr10:18937600-18941400	Active TSS	K562	blood
22	chr10:18937800-18940800	Active TSS	Liver	Liver
23	chr10:18937800-18941000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
24	chr10:18938200-18939600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr10:18938200-18939600	Enhancers	Primary B cells from peripheral blood	blood
26	chr10:18938200-18939800	Active TSS	Brain Angular Gyrus	brain
27	chr10:18938200-18940000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
28	chr10:18938200-18941200	Active TSS	HUES64 Cell Line	embryonic stem cell
29	chr10:18938200-18941400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr10:18938400-18939600	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr10:18938400-18939600	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr10:18938400-18939600	Enhancers	Skeletal Muscle Female	skeletal muscle
33	chr10:18938400-18939800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr10:18938400-18941200	Active TSS	ES-I3 Cell Line	embryonic stem cell
35	chr10:18938400-18941200	Active TSS	HUES48 Cell Line	embryonic stem cell
36	chr10:18938400-18941200	Active TSS	HUES6 Cell Line	embryonic stem cell
37	chr10:18938400-18941200	Active TSS	iPS-20b Cell Line	embryonic stem cell
38	chr10:18938600-18939600	Active TSS	Brain Anterior Caudate	brain
39	chr10:18938600-18939600	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
40	chr10:18938600-18940000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr10:18938600-18941200	Active TSS	H1 Cell Line	embryonic stem cell
42	chr10:18938600-18941200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr10:18938600-18941200	Active TSS	Ovary	ovary
44	chr10:18938600-18941400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr10:18938600-18941400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr10:18938800-18939600	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
47	chr10:18938800-18940000	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
48	chr10:18938800-18940200	Active TSS	Fetal Brain Male	brain
49	chr10:18938800-18940800	Active TSS	iPS-18 Cell Line	embryonic stem cell
50	chr10:18938800-18941200	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin

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