Variant report

Variant	rs10509580
Chromosome Location	chr10:91506704-91506705
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10082364	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10128186	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1028817	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10727	0.95[CEU][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];0.92[TSI][hapmap]
rs10785898	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10881622	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10881625	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10881676	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11185854	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11185869	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11185893	0.82[ASN][1000 genomes]
rs1326201	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1326259	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1326262	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1359623	1.00[CHD][hapmap];0.81[ASN][1000 genomes]
rs1359625	0.95[CEU][hapmap];0.86[CHB][hapmap];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1409321	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1409359	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1536314	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1555879	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1886996	1.00[ASW][hapmap];0.95[CEU][hapmap];0.85[CHD][hapmap];0.85[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];0.89[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1926138	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2026552	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2104499	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.81[MEX][hapmap];0.94[MKK][hapmap];0.97[TSI][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2148275	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2148277	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2900752	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3740038	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933509	0.83[ASN][1000 genomes]
rs4933510	0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap];0.86[ASN][1000 genomes]
rs4934490	0.90[ASW][hapmap];0.95[CEU][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.81[LWK][hapmap];0.90[MKK][hapmap];0.97[TSI][hapmap];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4934495	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4934499	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6586211	0.95[CEU][hapmap];0.82[CHB][hapmap];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6586214	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6586215	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6586221	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7069937	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7071283	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7072760	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7073626	0.90[ASW][hapmap];0.95[CEU][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.81[MEX][hapmap];0.98[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7073802	0.95[CEU][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];0.90[TSI][hapmap];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7077193	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7079174	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7079243	0.95[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7084946	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs729044	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7909502	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7912458	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7919758	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7919861	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs943128	0.90[ASW][hapmap];0.95[CEU][hapmap];0.88[CHB][hapmap];0.92[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.97[MKK][hapmap];0.95[TSI][hapmap];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs943130	0.81[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	nsv1054572	chr10:91471956-91537070	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv1046241	chr10:91478562-91614437	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv869080	chr10:91498641-91712834	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10509580	FAS	cis	parietal	SCAN

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91461600-91546600	Weak transcription	Small Intestine	intestine
2	chr10:91463400-91521600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr10:91466600-91506800	Strong transcription	HUES64 Cell Line	embryonic stem cell
4	chr10:91467600-91538400	Weak transcription	Fetal Heart	heart
5	chr10:91467800-91507200	Weak transcription	Fetal Brain Male	brain
6	chr10:91469600-91523600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr10:91472600-91530200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr10:91474600-91530200	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr10:91476000-91522400	Weak transcription	Placenta	Placenta
10	chr10:91476400-91508000	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr10:91478400-91524200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr10:91478400-91542400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr10:91479600-91510200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr10:91479600-91522400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr10:91480800-91542200	Weak transcription	Fetal Kidney	kidney
16	chr10:91483200-91523600	Weak transcription	Brain Hippocampus Middle	brain
17	chr10:91485000-91532600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr10:91489800-91520400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr10:91492000-91522000	Weak transcription	Adipose Nuclei	Adipose
20	chr10:91493800-91508600	Strong transcription	Fetal Thymus	thymus
21	chr10:91495800-91506800	Strong transcription	HUES48 Cell Line	embryonic stem cell
22	chr10:91495800-91507000	Strong transcription	Dnd41	blood
23	chr10:91496200-91508600	Strong transcription	HUES6 Cell Line	embryonic stem cell
24	chr10:91498400-91518200	Weak transcription	K562	blood
25	chr10:91499200-91518000	Weak transcription	NHDF-Ad	bronchial
26	chr10:91499800-91515600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr10:91500200-91510200	Weak transcription	HUVEC	blood vessel
28	chr10:91501200-91507000	Strong transcription	Hela-S3	cervix
29	chr10:91501600-91506800	Strong transcription	GM12878-XiMat	blood
30	chr10:91503600-91506800	Strong transcription	Primary T helper cells PMA-I stimulated	--
31	chr10:91503800-91507000	Strong transcription	H1 Cell Line	embryonic stem cell
32	chr10:91503800-91507600	Weak transcription	Aorta	Aorta
33	chr10:91504000-91507000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr10:91504000-91507000	Strong transcription	Primary B cells from cord blood	blood
35	chr10:91504200-91506800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr10:91504200-91531800	Weak transcription	Colon Smooth Muscle	Colon
37	chr10:91504200-91544200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr10:91504400-91506800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr10:91504600-91506800	Strong transcription	Cortex derived primary cultured neurospheres	brain
40	chr10:91504800-91506800	Strong transcription	NHEK	skin
41	chr10:91504800-91507000	Weak transcription	Colonic Mucosa	Colon
42	chr10:91504800-91507600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr10:91505000-91536600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
44	chr10:91505600-91506800	Strong transcription	Duodenum Mucosa	Duodenum
45	chr10:91505600-91507000	Strong transcription	Primary hematopoietic stem cells	blood
46	chr10:91506000-91520200	Weak transcription	Osteobl	bone
47	chr10:91506200-91506800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr10:91506200-91520200	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr10:91506200-91522000	Weak transcription	Fetal Muscle Leg	muscle
50	chr10:91506400-91506800	Weak transcription	Pancreas	Pancrea

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