Variant report

Variant	rs10851519
Chromosome Location	chr15:52801088-52801089
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	chr15:52800525..52802072-chr15:52819994..52822179,2	MCF-7	breast:
2	chr15:52799417..52803271-chr15:52809477..52812870,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000197535	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12442200	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs1612233	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1669867	0.84[YRI][hapmap]
rs1693488	1.00[AMR][1000 genomes]
rs1693490	0.91[MKK][hapmap];0.96[YRI][hapmap];1.00[AMR][1000 genomes]
rs1693491	0.96[YRI][hapmap];1.00[AMR][1000 genomes]
rs1693498	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1693503	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1693504	0.84[YRI][hapmap];0.86[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs1693509	0.90[MKK][hapmap];0.81[YRI][hapmap]
rs1724582	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1724607	0.90[MKK][hapmap];0.81[YRI][hapmap]
rs1724609	1.00[TSI][hapmap]
rs1724619	0.84[YRI][hapmap];0.86[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs1724620	0.85[AMR][1000 genomes]
rs1724629	0.81[YRI][hapmap]
rs1724641	0.83[YRI][hapmap]
rs2414157	0.94[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2453987	0.93[ASW][hapmap];0.97[LWK][hapmap];0.98[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2462845	0.86[ASW][hapmap];0.90[MKK][hapmap];0.96[YRI][hapmap];0.81[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2462852	1.00[AMR][1000 genomes]
rs2646030	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs2693464	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2693471	0.96[YRI][hapmap];1.00[AMR][1000 genomes]
rs2950061	0.85[AMR][1000 genomes]
rs7176554	0.82[AFR][1000 genomes];1.00[AMR][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	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv1041421	chr15:52661342-53148286	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv1054899	chr15:52662365-52803756	Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	esv1832020	chr15:52702400-52901914	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52774600-52802600	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr15:52778600-52812400	Weak transcription	Right Ventricle	heart
3	chr15:52785000-52801200	Weak transcription	Right Atrium	heart
4	chr15:52786400-52812400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr15:52789600-52806600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr15:52792000-52801600	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr15:52792000-52815200	Weak transcription	NHLF	lung
8	chr15:52794600-52803400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr15:52795000-52802800	Weak transcription	Colon Smooth Muscle	Colon
10	chr15:52795400-52801200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr15:52796800-52801600	Weak transcription	HSMM	muscle
12	chr15:52796800-52802200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr15:52796800-52803200	Weak transcription	NHDF-Ad	bronchial
14	chr15:52796800-52811200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr15:52796800-52819400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr15:52796800-52820000	Weak transcription	Primary T cells from cord blood	blood
17	chr15:52797000-52815200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr15:52797400-52810200	Weak transcription	Primary B cells from cord blood	blood
19	chr15:52797600-52803200	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr15:52797600-52819800	Weak transcription	Primary T cells fromperipheralblood	blood
21	chr15:52797800-52801600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr15:52797800-52801600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr15:52797800-52801600	Weak transcription	Primary T helper cells fromperipheralblood	blood
24	chr15:52797800-52802800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr15:52797800-52803200	Weak transcription	Adipose Nuclei	Adipose
26	chr15:52797800-52805800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr15:52798000-52801200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr15:52798000-52801600	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr15:52798200-52803200	Weak transcription	NHEK	skin
30	chr15:52798200-52805800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr15:52798800-52803800	Enhancers	Brain Cingulate Gyrus	brain
32	chr15:52799000-52802000	Enhancers	Brain Hippocampus Middle	brain
33	chr15:52799400-52804600	Enhancers	Brain Angular Gyrus	brain
34	chr15:52799600-52801600	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr15:52799800-52801600	Weak transcription	Fetal Heart	heart
36	chr15:52800000-52801200	Weak transcription	Psoas Muscle	Psoas
37	chr15:52800000-52801400	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr15:52800000-52802600	Weak transcription	Left Ventricle	heart
39	chr15:52800200-52804000	Enhancers	Brain Inferior Temporal Lobe	brain
40	chr15:52800600-52801200	Enhancers	Fetal Brain Female	brain
41	chr15:52800600-52802200	Enhancers	iPS-15b Cell Line	embryonic stem cell
42	chr15:52800600-52802600	Enhancers	Brain Substantia Nigra	brain
43	chr15:52800600-52803800	Enhancers	Skeletal Muscle Male	skeletal muscle
44	chr15:52800600-52804000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
45	chr15:52800800-52801200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr15:52800800-52801600	Enhancers	HSMMtube	muscle
47	chr15:52800800-52803800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
48	chr15:52800800-52808600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
49	chr15:52801000-52801400	Weak transcription	Brain Anterior Caudate	brain
50	chr15:52801000-52802400	Enhancers	Primary T regulatory cells fromperipheralblood	blood

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