Variant report

Variant	rs16879277
Chromosome Location	chr8:110302993-110302994
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:110302918..110306043-chr8:110308192..110310489,3	MCF-7	breast:
2	chr8:110300725..110303179-chr8:110304720..110306354,2	MCF-7	breast:

Extended variants
information (count: 62 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs16879261	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs16879288	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16879296	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16879302	0.84[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.91[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16879319	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1993593	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4129683	1.00[CHD][hapmap];1.00[GIH][hapmap]
rs4489305	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58645331	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59395166	0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs59606309	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs59943608	1.00[ASN][1000 genomes]
rs60785810	1.00[ASN][1000 genomes]
rs61245151	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61479312	0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs66514810	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs66540106	1.00[ASN][1000 genomes]
rs66582255	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66595116	1.00[ASN][1000 genomes]
rs66597282	1.00[ASN][1000 genomes]
rs66850941	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66894192	1.00[ASN][1000 genomes]
rs66993652	1.00[ASN][1000 genomes]
rs67013559	1.00[ASN][1000 genomes]
rs67022633	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs67131445	1.00[ASN][1000 genomes]
rs67145203	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67220317	1.00[ASN][1000 genomes]
rs67285523	1.00[ASN][1000 genomes]
rs67650612	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67741834	0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs67743002	0.86[ASN][1000 genomes]
rs67793872	0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs67919153	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs67974558	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs68134891	1.00[ASN][1000 genomes]
rs6990184	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6994530	1.00[ASN][1000 genomes]
rs72680756	1.00[ASN][1000 genomes]
rs72682635	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72682688	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73303253	1.00[ASN][1000 genomes]
rs73303256	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73311376	1.00[ASN][1000 genomes]
rs73311383	0.94[ASN][1000 genomes]
rs73311385	1.00[ASN][1000 genomes]
rs73311386	1.00[ASN][1000 genomes]
rs73311387	1.00[ASN][1000 genomes]
rs73311394	1.00[ASN][1000 genomes]
rs73311400	1.00[ASN][1000 genomes]
rs73313204	1.00[ASN][1000 genomes]
rs7817013	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7823896	1.00[ASN][1000 genomes]
rs7829028	1.00[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023204	chr8:110169573-110303085	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1031663	chr8:110177432-110303085	Weak transcription Genic enhancers Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv891273	chr8:110219735-110475874	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	nsv891274	chr8:110224047-110308776	Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv891275	chr8:110224047-110319234	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv891276	chr8:110232329-110308776	Weak transcription Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv891278	chr8:110251998-110308776	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
8	nsv891279	chr8:110268104-110450092	Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16879277	GPR183	trans	lymphoblastoid	seeQTL

Chromatin state (count:95 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:110211200-110311600	Weak transcription	Right Ventricle	heart
2	chr8:110236200-110308800	Weak transcription	Thymus	Thymus
3	chr8:110236200-110309200	Weak transcription	Stomach Smooth Muscle	stomach
4	chr8:110236600-110344200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr8:110238000-110311600	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr8:110242400-110305000	Weak transcription	NHLF	lung
7	chr8:110247000-110311400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr8:110252400-110304800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr8:110255600-110305400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr8:110258400-110311200	Weak transcription	Lung	lung
11	chr8:110275000-110304400	Weak transcription	Osteobl	bone
12	chr8:110276600-110305000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr8:110278200-110311200	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr8:110284000-110304200	Weak transcription	NHDF-Ad	bronchial
15	chr8:110284000-110304400	Weak transcription	NH-A	brain
16	chr8:110284000-110305400	Weak transcription	Hela-S3	cervix
17	chr8:110284000-110306800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr8:110284400-110304400	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr8:110284400-110344400	Weak transcription	Fetal Lung	lung
20	chr8:110285600-110304800	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr8:110285600-110305400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr8:110285600-110311400	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr8:110286400-110311400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr8:110287200-110305400	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr8:110287400-110303800	Weak transcription	HUVEC	blood vessel
26	chr8:110288000-110305400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr8:110288200-110305400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr8:110288200-110311800	Weak transcription	K562	blood
29	chr8:110288600-110344200	Weak transcription	Ovary	ovary
30	chr8:110289200-110311200	Weak transcription	Gastric	stomach
31	chr8:110290800-110303200	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr8:110291800-110304600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr8:110291800-110305400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr8:110292000-110333200	Weak transcription	HepG2	liver
35	chr8:110292800-110304400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr8:110292800-110304800	Weak transcription	Monocytes-CD14+_RO01746	blood
37	chr8:110292800-110311400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr8:110293000-110343600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr8:110293400-110304400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr8:110293400-110305000	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr8:110293400-110305600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
42	chr8:110293400-110309200	Weak transcription	Liver	Liver
43	chr8:110294200-110311000	Weak transcription	Fetal Intestine Small	intestine
44	chr8:110294200-110311600	Weak transcription	HSMM	muscle
45	chr8:110294600-110304400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr8:110294600-110311200	Weak transcription	Esophagus	oesophagus
47	chr8:110294600-110314600	Weak transcription	Pancreas	Pancrea
48	chr8:110294800-110303200	Weak transcription	HMEC	breast
49	chr8:110296000-110311400	Weak transcription	Duodenum Mucosa	Duodenum
50	chr8:110296200-110305400	Weak transcription	Primary T killer memory cells from peripheral blood	blood

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