Variant report

Variant	rs58578288
Chromosome Location	chr15:78354701-78354702
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:78346803..78349725-chr15:78352567..78355144,4	MCF-7	breast:
2	chr15:78354121..78356578-chr15:78356635..78358699,2	K562	blood:
3	chr15:78354448..78356062-chr15:78363127..78365544,2	K562	blood:
4	chr15:78347166..78349130-chr15:78354163..78355850,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000167202	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs11631578	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11634607	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11638311	0.81[ASN][1000 genomes]
rs11852768	0.97[ASN][1000 genomes]
rs12148365	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12591418	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12899061	0.94[ASN][1000 genomes]
rs12901812	0.96[ASN][1000 genomes]
rs12907701	0.95[ASN][1000 genomes]
rs12907814	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12916362	0.97[ASN][1000 genomes]
rs1348257	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1442293	0.80[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs1837913	0.80[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs2028546	0.81[ASN][1000 genomes]
rs2044099	0.84[ASN][1000 genomes]
rs2867985	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2903702	0.96[ASN][1000 genomes]
rs3803380	0.95[ASN][1000 genomes]
rs4886553	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4886554	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4886555	0.98[ASN][1000 genomes]
rs4886994	0.86[ASN][1000 genomes]
rs4886996	0.98[ASN][1000 genomes]
rs4886999	0.98[ASN][1000 genomes]
rs4887000	0.97[ASN][1000 genomes]
rs55704745	0.81[ASN][1000 genomes]
rs56317829	0.95[ASN][1000 genomes]
rs57220134	0.99[ASN][1000 genomes]
rs62011511	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7166819	0.97[ASN][1000 genomes]
rs7170746	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7173128	0.85[ASN][1000 genomes]
rs7181594	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8029562	0.92[ASN][1000 genomes]
rs9047	0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529491	chr15:77932659-78751516	Genic enhancers Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv1051558	chr15:78315542-78364947	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78296200-78358200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr15:78344800-78357600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr15:78344800-78359800	Weak transcription	Fetal Brain Female	brain
4	chr15:78346400-78356600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr15:78347000-78357400	Enhancers	Fetal Thymus	thymus
6	chr15:78347400-78367800	Enhancers	Placenta	Placenta
7	chr15:78348000-78355400	Enhancers	Primary B cells from peripheral blood	blood
8	chr15:78349400-78357400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr15:78349400-78360800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr15:78352000-78357000	Weak transcription	HMEC	breast
11	chr15:78352000-78357400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr15:78352200-78356000	Weak transcription	Gastric	stomach
13	chr15:78352200-78356200	Weak transcription	Colonic Mucosa	Colon
14	chr15:78352200-78356200	Weak transcription	Esophagus	oesophagus
15	chr15:78352800-78357600	Weak transcription	Fetal Muscle Trunk	muscle
16	chr15:78353000-78355400	Enhancers	Left Ventricle	heart
17	chr15:78353800-78356200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr15:78354000-78354800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr15:78354000-78354800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr15:78354000-78354800	Flanking Active TSS	NHDF-Ad	bronchial
21	chr15:78354000-78355000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr15:78354000-78355000	Active TSS	GM12878-XiMat	blood
23	chr15:78354200-78354800	Enhancers	ES-I3 Cell Line	embryonic stem cell
24	chr15:78354200-78354800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr15:78354200-78354800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr15:78354200-78354800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr15:78354200-78354800	Enhancers	HUES48 Cell Line	embryonic stem cell
28	chr15:78354200-78354800	Enhancers	iPS-18 Cell Line	embryonic stem cell
29	chr15:78354200-78354800	Flanking Active TSS	Primary T cells from cord blood	blood
30	chr15:78354200-78354800	Flanking Active TSS	Primary T cells fromperipheralblood	blood
31	chr15:78354200-78354800	Flanking Active TSS	Primary hematopoietic stem cells	blood
32	chr15:78354200-78354800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
33	chr15:78354200-78354800	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
34	chr15:78354200-78354800	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
35	chr15:78354200-78354800	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
36	chr15:78354200-78354800	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
37	chr15:78354200-78354800	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
38	chr15:78354200-78354800	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr15:78354200-78354800	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
40	chr15:78354200-78354800	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
41	chr15:78354200-78354800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr15:78354200-78354800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
43	chr15:78354200-78354800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr15:78354200-78354800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr15:78354200-78354800	Flanking Active TSS	Brain Anterior Caudate	brain
46	chr15:78354200-78354800	Flanking Active TSS	Duodenum Mucosa	Duodenum
47	chr15:78354200-78354800	Enhancers	Fetal Heart	heart
48	chr15:78354200-78354800	Enhancers	Fetal Stomach	stomach
49	chr15:78354200-78354800	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
50	chr15:78354200-78354800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle

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