Variant report

Variant	rs56268009
Chromosome Location	chr8:87504587-87504588
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:87499255..87503133-chr8:87503921..87506529,4	MCF-7	breast:
2	chr8:87504016..87505775-chr8:87515683..87517674,2	K562	blood:
3	chr8:87502703..87505600-chr8:87516765..87518527,2	MCF-7	breast:
4	chr8:87501630..87504632-chr8:87506781..87509503,3	K562	blood:

Variant related genes	Relation type
ENSG00000254088	Chromatin interaction
ENSG00000176623	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10088389	0.85[AMR][1000 genomes]
rs10092164	0.83[AMR][1000 genomes]
rs10093238	0.83[AMR][1000 genomes]
rs10093379	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10095129	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10096443	0.83[AMR][1000 genomes]
rs10956853	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11782512	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12543887	0.81[AMR][1000 genomes]
rs13251647	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3213911	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34895735	0.81[AMR][1000 genomes]
rs3883910	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3903247	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4961194	0.86[EUR][1000 genomes]
rs56102132	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56122533	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56321721	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56365416	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57326273	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62510798	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62510806	0.82[EUR][1000 genomes]
rs62510845	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6471345	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6471349	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6471351	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6471352	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6471354	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6981299	0.85[AMR][1000 genomes]
rs6988601	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6994005	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6996052	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7460251	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7460439	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7461624	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7465350	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7820697	0.86[EUR][1000 genomes]
rs7822494	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3349873	chr8:87185763-87603726	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv1023510	chr8:87429001-87874948	Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv933966	chr8:87454655-87591558	ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv968514	chr8:87495999-87514855	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs56268009	FAM82B	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:87441800-87507600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr8:87457400-87507400	Weak transcription	Brain Angular Gyrus	brain
3	chr8:87474000-87517000	Weak transcription	Small Intestine	intestine
4	chr8:87481800-87507400	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr8:87481800-87507600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr8:87481800-87507600	Weak transcription	Esophagus	oesophagus
7	chr8:87482000-87507600	Weak transcription	Fetal Brain Male	brain
8	chr8:87482000-87508200	Weak transcription	Fetal Heart	heart
9	chr8:87482000-87508400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr8:87482200-87507600	Weak transcription	Colonic Mucosa	Colon
11	chr8:87482400-87517000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr8:87482800-87506600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr8:87482800-87519600	Weak transcription	HUVEC	blood vessel
14	chr8:87483000-87508400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr8:87483200-87505400	Weak transcription	Hela-S3	cervix
16	chr8:87487600-87507400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr8:87488200-87507400	Weak transcription	Colon Smooth Muscle	Colon
18	chr8:87488200-87507600	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr8:87488400-87519800	Weak transcription	Psoas Muscle	Psoas
20	chr8:87488800-87505400	Weak transcription	Stomach Mucosa	stomach
21	chr8:87490400-87507400	Weak transcription	HSMMtube	muscle
22	chr8:87491200-87507600	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr8:87493800-87508000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
24	chr8:87494200-87519800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr8:87495200-87506200	Weak transcription	Left Ventricle	heart
26	chr8:87495200-87506400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr8:87495200-87506800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr8:87495200-87506800	Weak transcription	Fetal Brain Female	brain
29	chr8:87495200-87507200	Weak transcription	Pancreas	Pancrea
30	chr8:87495200-87507400	Weak transcription	Aorta	Aorta
31	chr8:87495200-87507600	Weak transcription	Brain Cingulate Gyrus	brain
32	chr8:87495400-87506400	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr8:87495400-87507400	Weak transcription	Brain Hippocampus Middle	brain
34	chr8:87495600-87507600	Weak transcription	HepG2	liver
35	chr8:87495800-87507600	Weak transcription	K562	blood
36	chr8:87496600-87506600	Weak transcription	Lung	lung
37	chr8:87496600-87507400	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr8:87496600-87507600	Weak transcription	Brain Substantia Nigra	brain
39	chr8:87496600-87507800	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr8:87496600-87515800	Weak transcription	NHLF	lung
41	chr8:87496800-87504600	Strong transcription	Primary monocytes fromperipheralblood	blood
42	chr8:87496800-87505600	Weak transcription	HMEC	breast
43	chr8:87496800-87506600	Weak transcription	Thymus	Thymus
44	chr8:87496800-87507400	Weak transcription	Ovary	ovary
45	chr8:87496800-87507800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr8:87496800-87507800	Weak transcription	Spleen	Spleen
47	chr8:87497000-87506200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr8:87497000-87516000	Weak transcription	Gastric	stomach
49	chr8:87497000-87516600	Weak transcription	Right Ventricle	heart
50	chr8:87497400-87507000	Weak transcription	Brain Germinal Matrix	brain

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