Variant report

Variant	rs8029351
Chromosome Location	chr15:75177237-75177238
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:75176018..75178880-chr15:75197656..75199234,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178761	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs12050585	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12385940	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28844983	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4886642	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.88[YRI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6495128	0.85[AFR][1000 genomes]
rs68036747	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7182183	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72625793	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7495033	0.82[AFR][1000 genomes]
rs8025170	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8027865	0.83[LWK][hapmap];0.80[YRI][hapmap]
rs8030528	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8037152	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs872263	0.91[CEU][hapmap]

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	nsv904381	chr15:75108636-75242155	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs8029351	CYP1A1	cis	cerebellum	SCAN
rs8029351	SPESP1	cis	cerebellum	SCAN
rs8029351	ULK3	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:75166200-75181000	Weak transcription	Fetal Heart	heart
2	chr15:75175000-75177400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr15:75175200-75181000	Weak transcription	Spleen	Spleen
4	chr15:75175400-75181200	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr15:75175600-75177400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr15:75175600-75179200	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr15:75175800-75177600	Enhancers	HepG2	liver
8	chr15:75175800-75177600	Enhancers	HSMMtube	muscle
9	chr15:75175800-75177800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
10	chr15:75175800-75178000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr15:75175800-75178000	Enhancers	NHEK	skin
12	chr15:75176000-75177600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
13	chr15:75176200-75177400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr15:75176200-75178000	Enhancers	HSMM	muscle
15	chr15:75176400-75177400	Enhancers	Primary B cells from peripheral blood	blood
16	chr15:75176400-75177400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr15:75176400-75177400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr15:75176400-75177600	Enhancers	Primary T helper cells fromperipheralblood	blood
19	chr15:75176400-75177800	Enhancers	Muscle Satellite Cultured Cells	--
20	chr15:75176400-75178000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr15:75176400-75178000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr15:75176400-75179000	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr15:75176600-75177400	Enhancers	NH-A	brain
24	chr15:75176600-75177600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr15:75176600-75177800	Enhancers	Hela-S3	cervix
26	chr15:75176600-75178000	Enhancers	Adipose Nuclei	Adipose
27	chr15:75176600-75178000	Enhancers	HMEC	breast
28	chr15:75176600-75178800	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr15:75176800-75177600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr15:75176800-75177600	Enhancers	GM12878-XiMat	blood
31	chr15:75176800-75177800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr15:75176800-75177800	Enhancers	Placenta	Placenta
33	chr15:75176800-75178000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr15:75176800-75178600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr15:75176800-75178600	Enhancers	Monocytes-CD14+_RO01746	blood
36	chr15:75176800-75181200	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr15:75176800-75181400	Weak transcription	Primary hematopoietic stem cells	blood
38	chr15:75176800-75181800	Weak transcription	A549	lung
39	chr15:75177000-75177400	Enhancers	ES-I3 Cell Line	embryonic stem cell
40	chr15:75177000-75177400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr15:75177000-75177600	Enhancers	Osteobl	bone
42	chr15:75177000-75181200	Weak transcription	Primary T helper cells PMA-I stimulated	--
43	chr15:75177000-75181800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr15:75177200-75177400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr15:75177200-75177400	Enhancers	NHDF-Ad	bronchial
46	chr15:75177200-75177600	Enhancers	NHLF	lung
47	chr15:75177200-75181000	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr15:75177200-75181400	Weak transcription	Primary T cells fromperipheralblood	blood
49	chr15:75177200-75181600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
50	chr15:75177200-75181800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

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