Variant report

Variant	rs7828790
Chromosome Location	chr8:90266361-90266362
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:90265140..90266864-chr8:90701198..90702017,6	MCF-7	breast:
2	chr8:90265202..90266566-chr8:90628957..90629884,16	MCF-7	breast:
3	chr8:90266351..90268017-chr8:90270603..90272276,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000251136	Chromatin interaction

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10086145	0.93[EUR][1000 genomes]
rs10102049	0.93[EUR][1000 genomes]
rs10107649	0.84[EUR][1000 genomes]
rs1011271	0.86[EUR][1000 genomes]
rs1037333	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10504876	0.88[EUR][1000 genomes]
rs1114316	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11785662	0.86[EUR][1000 genomes]
rs11785864	0.85[EUR][1000 genomes]
rs12547059	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12549342	0.88[EUR][1000 genomes]
rs13252577	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13253403	0.94[AFR][1000 genomes]
rs13254433	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13262086	0.93[EUR][1000 genomes]
rs13273491	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13278618	0.93[EUR][1000 genomes]
rs13279324	0.91[EUR][1000 genomes]
rs1383035	0.91[EUR][1000 genomes]
rs1383036	0.86[EUR][1000 genomes]
rs1383037	0.86[EUR][1000 genomes]
rs1479898	0.93[EUR][1000 genomes]
rs1600505	0.94[EUR][1000 genomes]
rs1600506	0.94[EUR][1000 genomes]
rs16893960	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1824967	0.91[EUR][1000 genomes]
rs1842297	0.91[EUR][1000 genomes]
rs2068088	0.90[EUR][1000 genomes]
rs2127502	0.89[AFR][1000 genomes]
rs2198094	0.93[EUR][1000 genomes]
rs2219864	0.90[EUR][1000 genomes]
rs2338697	0.88[EUR][1000 genomes]
rs2879240	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs318261	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs35369616	0.86[EUR][1000 genomes]
rs35981062	0.86[EUR][1000 genomes]
rs4246119	0.85[EUR][1000 genomes]
rs4266696	0.85[EUR][1000 genomes]
rs4268168	0.90[EUR][1000 genomes]
rs4291311	0.86[EUR][1000 genomes]
rs4380986	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4493948	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4506265	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4509384	0.90[EUR][1000 genomes]
rs4588905	0.86[EUR][1000 genomes]
rs4960969	0.86[EUR][1000 genomes]
rs4961128	0.85[EUR][1000 genomes]
rs4961129	0.84[EUR][1000 genomes]
rs58699294	0.82[EUR][1000 genomes]
rs6469976	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6983174	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6989492	0.86[EUR][1000 genomes]
rs6990609	0.86[EUR][1000 genomes]
rs7012184	0.86[EUR][1000 genomes]
rs7014069	0.86[EUR][1000 genomes]
rs72665939	0.81[EUR][1000 genomes]
rs7817287	0.86[EUR][1000 genomes]
rs7818117	0.84[EUR][1000 genomes]
rs7818636	0.93[EUR][1000 genomes]
rs7820067	0.86[EUR][1000 genomes]
rs7821252	0.91[EUR][1000 genomes]
rs7824161	0.94[AFR][1000 genomes]
rs7826977	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7835780	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7837196	0.92[EUR][1000 genomes]
rs7837625	0.93[EUR][1000 genomes]
rs7840648	0.86[EUR][1000 genomes]
rs7843823	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9656807	0.85[EUR][1000 genomes]
rs9656936	0.85[EUR][1000 genomes]
rs989108	0.82[JPT][hapmap];0.93[EUR][1000 genomes]
rs999542	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs999543	0.88[EUR][1000 genomes]
rs999544	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv465735	chr8:89760311-90729507	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv611714	chr8:89760311-90729507	Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Weak transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	nsv1024956	chr8:90104423-90459539	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv539671	chr8:90104423-90459539	Active TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv1032886	chr8:90253748-90398240	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:90265200-90266400	Enhancers	Primary T helper cells PMA-I stimulated	--
2	chr8:90265200-90266600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
3	chr8:90265400-90266400	Enhancers	Primary T helper naive cells from peripheral blood	blood
4	chr8:90265400-90266600	Enhancers	Primary T cells from cord blood	blood
5	chr8:90265400-90266600	Enhancers	HMEC	breast
6	chr8:90265400-90266800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr8:90265600-90266800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr8:90265800-90266400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr8:90265800-90266400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr8:90265800-90266400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr8:90265800-90266600	Enhancers	Primary T cells fromperipheralblood	blood
12	chr8:90265800-90266600	Enhancers	NHEK	skin
13	chr8:90266000-90266600	Enhancers	Primary T helper cells fromperipheralblood	blood
14	chr8:90266200-90269600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr8:90266200-90272000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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