Variant report

Variant	rs8037164
Chromosome Location	chr15:92564085-92564086
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:92562839..92565166-chr15:92567346..92570436,4	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs12101386	0.82[ASW][hapmap];0.94[CEU][hapmap];0.82[GIH][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.95[TSI][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12101393	0.94[CEU][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12101918	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12102086	0.94[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12148221	1.00[ASN][1000 genomes]
rs12148486	1.00[ASN][1000 genomes]
rs12148487	0.84[GIH][hapmap];0.88[MEX][hapmap];1.00[ASN][1000 genomes]
rs12148507	1.00[ASN][1000 genomes]
rs12899011	0.83[CEU][hapmap];0.95[GIH][hapmap];0.88[MEX][hapmap];0.86[TSI][hapmap];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12899322	1.00[ASN][1000 genomes]
rs12905261	1.00[CEU][hapmap];0.94[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12905735	0.88[CEU][hapmap];0.94[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12906208	0.94[CEU][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12910801	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16946261	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16946268	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16946270	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16946314	0.94[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28465497	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28729478	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34463319	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34781129	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35472418	1.00[ASN][1000 genomes]
rs4444317	0.94[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57163574	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58431213	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66615128	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71411124	1.00[ASN][1000 genomes]
rs71465725	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72757415	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72757416	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72757417	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72757418	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72757419	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7498044	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8023391	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8037338	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8037343	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8043343	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv870094	chr15:92367354-92631647	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv534110	chr15:92397220-92592961	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv984212	chr15:92562075-92570410	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	n/a

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs8037164	SLCO3A1	cis	cerebellum	SCAN
rs8037164	PRC1	cis	cerebellum	SCAN
rs8037164	ZNF710	cis	parietal	SCAN

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92554200-92566200	Enhancers	Right Atrium	heart
2	chr15:92555400-92564200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr15:92555600-92565600	Weak transcription	Gastric	stomach
4	chr15:92555600-92570600	Weak transcription	Monocytes-CD14+_RO01746	blood
5	chr15:92555600-92576200	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr15:92555800-92564200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr15:92556000-92564200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr15:92556800-92565000	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr15:92556800-92565200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr15:92557800-92567000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr15:92558000-92571200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr15:92558600-92568600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr15:92559400-92564400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr15:92561400-92565200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
15	chr15:92561800-92564400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr15:92561800-92564600	Enhancers	Pancreas	Pancrea
17	chr15:92561800-92565000	Weak transcription	Brain Angular Gyrus	brain
18	chr15:92562000-92567800	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr15:92562200-92565000	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr15:92562400-92564800	Weak transcription	Brain Anterior Caudate	brain
21	chr15:92562600-92564400	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr15:92562600-92570600	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr15:92562800-92565400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr15:92562800-92565800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr15:92562800-92566400	Enhancers	Adipose Nuclei	Adipose
26	chr15:92562800-92569600	Enhancers	Fetal Heart	heart
27	chr15:92562800-92574600	Weak transcription	Esophagus	oesophagus
28	chr15:92563000-92564800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr15:92563200-92564200	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr15:92563200-92564600	Weak transcription	Brain Hippocampus Middle	brain
31	chr15:92563200-92564800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr15:92563200-92565000	Weak transcription	Lung	lung
33	chr15:92563400-92564200	Weak transcription	Right Ventricle	heart
34	chr15:92563400-92566000	Weak transcription	Left Ventricle	heart
35	chr15:92563600-92565400	Enhancers	Ovary	ovary
36	chr15:92563800-92564400	Enhancers	Osteobl	bone
37	chr15:92563800-92565200	Enhancers	Spleen	Spleen
38	chr15:92563800-92567000	Weak transcription	Brain Substantia Nigra	brain
39	chr15:92563800-92568200	Enhancers	Aorta	Aorta
40	chr15:92564000-92564400	Enhancers	Primary T killer memory cells from peripheral blood	blood
41	chr15:92564000-92566200	Enhancers	Primary hematopoietic stem cells short term culture	blood
42	chr15:92564000-92567200	Weak transcription	Brain Cingulate Gyrus	brain

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