Variant report

Variant	rs10108240
Chromosome Location	chr8:107737617-107737618
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TEAD4	chr8:107737241-107737714	H1-hESC	embryonic stem cell:	n/a	chr8:107737461-107737470

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:107730935..107734307-chr8:107735195..107738044,3	K562	blood:

Variant related genes	Relation type
OXR1	TF binding region

Extended variants
information (count: 51 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10086709	1.00[CEU][hapmap];0.89[JPT][hapmap]
rs10087077	0.87[EUR][1000 genomes]
rs10088694	0.88[TSI][hapmap];0.82[EUR][1000 genomes]
rs10089357	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10089618	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10089890	1.00[CEU][hapmap];0.89[JPT][hapmap];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10090534	1.00[CEU][hapmap];0.83[JPT][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10091390	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10091611	0.87[EUR][1000 genomes]
rs10092665	0.87[EUR][1000 genomes]
rs10099361	0.85[EUR][1000 genomes]
rs10100839	0.85[EUR][1000 genomes]
rs10101102	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10102112	0.85[EUR][1000 genomes]
rs10104941	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10106834	1.00[CEU][hapmap];0.89[CHD][hapmap];0.96[GIH][hapmap];0.89[JPT][hapmap];0.88[TSI][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10109609	0.88[TSI][hapmap]
rs10110610	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10283128	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs10283130	1.00[CEU][hapmap];0.95[CHB][hapmap];0.84[CHD][hapmap];0.96[GIH][hapmap];0.88[JPT][hapmap];0.94[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1115200	0.87[CEU][hapmap]
rs12543558	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[CHD][hapmap];0.96[GIH][hapmap];0.94[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12544138	0.87[EUR][1000 genomes]
rs12547372	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12547608	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12548149	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13254031	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13255878	0.87[EUR][1000 genomes]
rs13259080	0.86[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[CHD][hapmap];0.96[GIH][hapmap];0.88[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13268490	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16875002	0.87[EUR][1000 genomes]
rs16875065	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs16875066	1.00[CEU][hapmap];0.96[GIH][hapmap];0.83[JPT][hapmap];0.88[TSI][hapmap];0.87[EUR][1000 genomes]
rs1872282	1.00[CEU][hapmap];0.96[GIH][hapmap];0.83[JPT][hapmap];0.88[TSI][hapmap];0.85[EUR][1000 genomes]
rs2035514	1.00[YRI][hapmap]
rs2035515	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2126580	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28422868	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28808577	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28921395	0.87[EUR][1000 genomes]
rs35108468	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35499727	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35919651	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs36011510	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3736179	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3739323	1.00[YRI][hapmap]
rs3779996	1.00[CEU][hapmap];0.83[JPT][hapmap];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59316573	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7461484	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9297385	0.87[EUR][1000 genomes];0.82[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	nsv831419	chr8:107624709-107827801	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10108240	TM7SF4	cis	cerebellum	SCAN

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:107679200-107738200	Weak transcription	Right Ventricle	heart
2	chr8:107692000-107738400	Weak transcription	Colon Smooth Muscle	Colon
3	chr8:107694600-107738000	Weak transcription	Fetal Heart	heart
4	chr8:107707800-107737800	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr8:107710400-107738200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr8:107710400-107755400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr8:107711800-107738200	Weak transcription	Brain Angular Gyrus	brain
8	chr8:107719000-107738200	Weak transcription	NHEK	skin
9	chr8:107719200-107742400	Weak transcription	Stomach Mucosa	stomach
10	chr8:107719600-107738000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr8:107719600-107738200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr8:107719600-107738400	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr8:107719600-107739600	Weak transcription	Left Ventricle	heart
14	chr8:107719600-107762400	Weak transcription	Lung	lung
15	chr8:107719600-107765600	Weak transcription	Colonic Mucosa	Colon
16	chr8:107719600-107775200	Weak transcription	Gastric	stomach
17	chr8:107719600-107777800	Weak transcription	Esophagus	oesophagus
18	chr8:107719800-107738200	Weak transcription	Ovary	ovary
19	chr8:107719800-107753800	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr8:107720000-107738200	Weak transcription	HMEC	breast
21	chr8:107720600-107738200	Weak transcription	Aorta	Aorta
22	chr8:107720600-107738200	Weak transcription	Fetal Stomach	stomach
23	chr8:107720600-107738400	Weak transcription	Rectal Smooth Muscle	rectum
24	chr8:107721200-107738200	Weak transcription	Fetal Muscle Trunk	muscle
25	chr8:107723200-107738000	Weak transcription	K562	blood
26	chr8:107724000-107738000	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr8:107724200-107738200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
28	chr8:107724200-107738200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr8:107724200-107738200	Weak transcription	Fetal Thymus	thymus
30	chr8:107724200-107738200	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr8:107724200-107738400	Weak transcription	HUES48 Cell Line	embryonic stem cell
32	chr8:107724400-107737800	Weak transcription	Brain Anterior Caudate	brain
33	chr8:107724400-107738000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr8:107724400-107738200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr8:107724400-107738200	Weak transcription	Fetal Intestine Large	intestine
36	chr8:107724400-107738200	Weak transcription	Fetal Lung	lung
37	chr8:107724400-107738200	Weak transcription	Placenta	Placenta
38	chr8:107724800-107738000	Weak transcription	Stomach Smooth Muscle	stomach
39	chr8:107724800-107738200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr8:107724800-107738200	Weak transcription	HSMM	muscle
41	chr8:107724800-107751400	Weak transcription	Duodenum Mucosa	Duodenum
42	chr8:107725000-107738200	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr8:107725000-107738200	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr8:107727200-107738400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr8:107731600-107738000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
46	chr8:107731600-107738200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
47	chr8:107731600-107748400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
48	chr8:107733000-107738200	Weak transcription	NHDF-Ad	bronchial
49	chr8:107733000-107751200	Weak transcription	HepG2	liver
50	chr8:107733400-107737800	Weak transcription	Liver	Liver

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