Variant report

Variant	rs10739931
Chromosome Location	chr9:95621504-95621505
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10124671	0.90[CHB][hapmap];0.94[JPT][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1040978	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10733745	0.89[EUR][1000 genomes]
rs10739930	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10739935	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10761174	0.83[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10821019	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13301210	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2057457	1.00[CEU][hapmap];0.94[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4110696	0.85[EUR][1000 genomes]
rs4465027	1.00[CEU][hapmap];0.82[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4744153	0.92[CEU][hapmap];0.81[GIH][hapmap];0.83[MEX][hapmap];0.87[EUR][1000 genomes]
rs6479432	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6479433	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7038387	0.82[CHB][hapmap];0.88[CHD][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs7040331	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7860417	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7868874	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7875611	0.81[EUR][1000 genomes]
rs965654	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831654	chr9:95542920-95720961	ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv893574	chr9:95580376-95688099	Active TSS Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10739931	ZNF484	cis	parietal	SCAN
rs10739931	ZNF484	cis	cerebellum	SCAN

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95605000-95624200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr9:95609000-95639800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:95611200-95632800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr9:95612400-95622000	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr9:95612400-95622200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr9:95612400-95624200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr9:95613400-95621600	Weak transcription	HMEC	breast
8	chr9:95614000-95624200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr9:95616200-95621600	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr9:95616200-95621800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr9:95616200-95621800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr9:95616200-95622000	Weak transcription	Esophagus	oesophagus
13	chr9:95616200-95622000	Weak transcription	Stomach Mucosa	stomach
14	chr9:95616200-95622200	Weak transcription	NHLF	lung
15	chr9:95616200-95639800	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr9:95616400-95622000	Weak transcription	Aorta	Aorta
17	chr9:95616400-95632800	Weak transcription	Gastric	stomach
18	chr9:95616400-95639800	Weak transcription	Small Intestine	intestine
19	chr9:95616600-95639600	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr9:95616800-95622000	Weak transcription	Spleen	Spleen
21	chr9:95618200-95621600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr9:95618200-95621800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr9:95618200-95621800	Weak transcription	Stomach Smooth Muscle	stomach
24	chr9:95618200-95622000	Weak transcription	Pancreas	Pancrea
25	chr9:95618200-95622200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr9:95618200-95623000	Weak transcription	Fetal Brain Male	brain
27	chr9:95618200-95630200	Weak transcription	Right Ventricle	heart
28	chr9:95618200-95639800	Weak transcription	Colonic Mucosa	Colon
29	chr9:95618400-95621600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr9:95618400-95621600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr9:95618400-95621600	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr9:95618400-95621600	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr9:95618400-95621600	Weak transcription	Colon Smooth Muscle	Colon
34	chr9:95618400-95621600	Weak transcription	Fetal Kidney	kidney
35	chr9:95618400-95621600	Weak transcription	HSMM	muscle
36	chr9:95618400-95621600	Weak transcription	HSMMtube	muscle
37	chr9:95618400-95621800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chr9:95618400-95621800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr9:95618400-95621800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
40	chr9:95618400-95621800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
41	chr9:95618400-95621800	Weak transcription	Brain Hippocampus Middle	brain
42	chr9:95618400-95621800	Weak transcription	Brain Substantia Nigra	brain
43	chr9:95618400-95621800	Weak transcription	Placenta	Placenta
44	chr9:95618400-95621800	Weak transcription	Hela-S3	cervix
45	chr9:95618400-95624600	Weak transcription	Fetal Heart	heart
46	chr9:95618400-95637600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr9:95618400-95638600	Weak transcription	K562	blood
48	chr9:95618600-95621600	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr9:95618600-95621600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
50	chr9:95618600-95621600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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