Variant report

Variant	rs7078691
Chromosome Location	chr10:44062527-44062528
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:44060724..44063218-chr10:44066954..44069931,3	MCF-7	breast:

Extended variants
information (count: 63 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10793442	0.96[ASN][1000 genomes]
rs10793443	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10899827	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10899828	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11238585	0.94[ASN][1000 genomes]
rs11238588	0.97[ASN][1000 genomes]
rs12354445	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12415781	0.85[ASN][1000 genomes]
rs12784891	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1338565	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1832470	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2230660	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2230661	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2393938	0.98[ASN][1000 genomes]
rs2393939	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2393942	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2393959	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2393960	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2860340	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2999270	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2999271	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2999272	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2999273	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2999274	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2999277	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2999278	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2999279	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2999280	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3006379	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3006380	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3006383	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3006384	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3006385	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3763789	0.98[ASN][1000 genomes]
rs4948747	0.92[ASN][1000 genomes]
rs6593359	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7079328	0.94[ASN][1000 genomes]
rs7086537	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7089577	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7091995	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7092156	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7101356	0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7893169	0.96[ASN][1000 genomes]
rs7894102	0.96[ASN][1000 genomes]
rs7897611	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7906129	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7913084	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7915227	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9326506	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9422385	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9422388	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9422540	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9422541	0.95[ASN][1000 genomes]
rs9422543	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9422544	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9422545	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9422546	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9422547	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9422549	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9422550	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9422555	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9422557	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[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	esv1798523	chr10:44051698-44070754	Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7078691	ZNF239	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:44050400-44069200	Weak transcription	Fetal Thymus	thymus
2	chr10:44053000-44069000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr10:44053000-44069200	Weak transcription	Thymus	Thymus
4	chr10:44053200-44062600	Weak transcription	Brain Germinal Matrix	brain
5	chr10:44053200-44062800	Weak transcription	Brain Cingulate Gyrus	brain
6	chr10:44053200-44066600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr10:44053200-44068400	Weak transcription	NHDF-Ad	bronchial
8	chr10:44053200-44068800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr10:44053200-44068800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr10:44053200-44068800	Weak transcription	Hela-S3	cervix
11	chr10:44053200-44068800	Weak transcription	HSMMtube	muscle
12	chr10:44053400-44062800	Weak transcription	Adipose Nuclei	Adipose
13	chr10:44053400-44068800	Weak transcription	Brain Substantia Nigra	brain
14	chr10:44053600-44062600	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr10:44053600-44062800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr10:44053600-44064400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr10:44053600-44064600	Weak transcription	NHLF	lung
18	chr10:44053600-44068200	Weak transcription	Fetal Kidney	kidney
19	chr10:44053600-44068600	Weak transcription	NH-A	brain
20	chr10:44053600-44068800	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr10:44053600-44068800	Weak transcription	Psoas Muscle	Psoas
22	chr10:44053600-44068800	Weak transcription	Right Ventricle	heart
23	chr10:44053600-44069000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr10:44053600-44069200	Weak transcription	Left Ventricle	heart
25	chr10:44053800-44063200	Weak transcription	Brain Angular Gyrus	brain
26	chr10:44053800-44066600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr10:44053800-44068600	Weak transcription	Duodenum Mucosa	Duodenum
28	chr10:44053800-44068800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr10:44053800-44069000	Weak transcription	HSMM	muscle
30	chr10:44054200-44062800	Weak transcription	Rectal Smooth Muscle	rectum
31	chr10:44054200-44069000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr10:44054400-44066400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr10:44055000-44062800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr10:44055000-44062800	Weak transcription	Osteobl	bone
35	chr10:44055000-44063000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr10:44055000-44069000	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr10:44055000-44069000	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr10:44055000-44069600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr10:44055200-44063000	Weak transcription	Primary T cells fromperipheralblood	blood
40	chr10:44055200-44068800	Weak transcription	Fetal Brain Male	brain
41	chr10:44055400-44062600	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr10:44055400-44070000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr10:44056000-44062800	Weak transcription	Liver	Liver
44	chr10:44056000-44068400	Weak transcription	Placenta Amnion	Placenta Amnion
45	chr10:44056000-44068800	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr10:44056200-44069000	Weak transcription	Primary B cells from peripheral blood	blood
47	chr10:44056200-44069400	Weak transcription	Gastric	stomach
48	chr10:44056800-44062800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr10:44056800-44066600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
50	chr10:44056800-44067000	Strong transcription	HUES64 Cell Line	embryonic stem cell

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