Variant report

Variant	rs55910715
Chromosome Location	chr15:57324710-57324711
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57209392..57212230-chr15:57324086..57325736,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000137871	Chromatin interaction
ENSG00000140262	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs12595074	0.84[EUR][1000 genomes]
rs2439917	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2470085	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2951905	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2951907	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2962988	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3087567	0.80[AMR][1000 genomes]
rs55893857	1.00[AFR][1000 genomes]
rs72731943	1.00[AFR][1000 genomes]
rs72733918	1.00[AFR][1000 genomes]
rs72733925	1.00[AFR][1000 genomes]
rs72733934	1.00[AFR][1000 genomes]
rs72751006	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72751008	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72751021	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72751027	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv542393	chr15:57115116-57341363	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv1052052	chr15:57232111-57344561	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv542394	chr15:57232111-57344561	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv904251	chr15:57241970-57575916	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57308000-57328000	Weak transcription	Gastric	stomach
2	chr15:57309400-57334600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr15:57311000-57347000	Weak transcription	Fetal Intestine Large	intestine
4	chr15:57315600-57328200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr15:57315600-57328600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr15:57316400-57328200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr15:57316400-57345400	Weak transcription	Fetal Intestine Small	intestine
8	chr15:57316600-57327800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr15:57317600-57326200	Weak transcription	Esophagus	oesophagus
10	chr15:57318600-57331000	Weak transcription	Fetal Kidney	kidney
11	chr15:57318600-57335600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr15:57320600-57325200	Enhancers	Brain Substantia Nigra	brain
13	chr15:57322400-57326600	Enhancers	Brain Angular Gyrus	brain
14	chr15:57322600-57324800	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr15:57322600-57325000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr15:57322800-57326200	Enhancers	HUES64 Cell Line	embryonic stem cell
17	chr15:57323000-57324800	Enhancers	Colon Smooth Muscle	Colon
18	chr15:57323000-57324800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr15:57323000-57325200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr15:57323400-57324800	Enhancers	Ovary	ovary
21	chr15:57323400-57324800	Enhancers	Right Atrium	heart
22	chr15:57323400-57324800	Enhancers	Right Ventricle	heart
23	chr15:57323400-57325000	Enhancers	Breast Myoepithelial Primary Cells	Breast
24	chr15:57323400-57325000	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr15:57323400-57325000	Enhancers	Left Ventricle	heart
26	chr15:57323400-57325000	Enhancers	Lung	lung
27	chr15:57323600-57325600	Weak transcription	Stomach Mucosa	stomach
28	chr15:57323600-57325600	Weak transcription	HepG2	liver
29	chr15:57323600-57328000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr15:57323800-57327600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr15:57323800-57329400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr15:57324200-57325000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr15:57324200-57325600	Weak transcription	Liver	Liver
34	chr15:57324200-57327600	Weak transcription	Pancreas	Pancrea
35	chr15:57324200-57327800	Weak transcription	Duodenum Mucosa	Duodenum
36	chr15:57324200-57328000	Weak transcription	Primary T cells from cord blood	blood
37	chr15:57324200-57328200	Weak transcription	Primary T helper cells fromperipheralblood	blood
38	chr15:57324200-57328200	Weak transcription	HSMMtube	muscle
39	chr15:57324200-57328400	Weak transcription	Primary hematopoietic stem cells	blood
40	chr15:57324200-57328600	Weak transcription	GM12878-XiMat	blood
41	chr15:57324200-57329400	Weak transcription	Primary B cells from peripheral blood	blood
42	chr15:57324200-57331400	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr15:57324200-57331800	Weak transcription	Skeletal Muscle Female	skeletal muscle
44	chr15:57324200-57332600	Weak transcription	Fetal Lung	lung
45	chr15:57324200-57337800	Weak transcription	Psoas Muscle	Psoas
46	chr15:57324200-57339000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
47	chr15:57324200-57341200	Weak transcription	Fetal Stomach	stomach
48	chr15:57324400-57324800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr15:57324400-57324800	Enhancers	Brain Cingulate Gyrus	brain
50	chr15:57324400-57324800	Weak transcription	Small Intestine	intestine

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