Variant report

Variant	rs56040702
Chromosome Location	chr15:92460202-92460203
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:92444403..92447778-chr15:92458135..92462014,3	MCF-7	breast:
2	chr15:92460023..92462750-chr15:92467605..92470507,2	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs11853482	0.87[EUR][1000 genomes]
rs4078179	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4561447	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55638463	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55767000	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55771916	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs55772252	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55792858	0.92[EUR][1000 genomes]
rs55829293	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55879752	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55908621	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56079731	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56292826	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56358895	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56388730	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61742322	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7165108	0.84[EUR][1000 genomes]
rs72750059	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750064	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750065	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750067	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750072	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750075	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750081	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750089	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750091	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750094	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750095	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750097	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750100	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750101	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72751903	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72751904	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72751905	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72751967	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72751974	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72751975	0.92[EUR][1000 genomes]
rs72751979	0.82[AMR][1000 genomes];0.92[EUR][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	nsv1048635	chr15:92073294-92557339	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	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
3	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

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92445800-92462000	Weak transcription	Aorta	Aorta
2	chr15:92446000-92464200	Weak transcription	Primary hematopoietic stem cells	blood
3	chr15:92446800-92462200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr15:92446800-92465000	Weak transcription	Fetal Stomach	stomach
5	chr15:92448000-92460800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr15:92451800-92460600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr15:92451800-92461000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr15:92451800-92461600	Weak transcription	Brain Cingulate Gyrus	brain
9	chr15:92451800-92470200	Weak transcription	Small Intestine	intestine
10	chr15:92452000-92461200	Weak transcription	Osteobl	bone
11	chr15:92452000-92462400	Weak transcription	HMEC	breast
12	chr15:92452000-92465200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr15:92453400-92460800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr15:92453400-92466400	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr15:92454200-92460800	Weak transcription	Adipose Nuclei	Adipose
16	chr15:92455800-92461400	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr15:92455800-92462600	Weak transcription	Pancreas	Pancrea
18	chr15:92455800-92464200	Weak transcription	Duodenum Mucosa	Duodenum
19	chr15:92457000-92460800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr15:92457000-92465600	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr15:92457200-92464800	Weak transcription	NHLF	lung
22	chr15:92457200-92467800	Weak transcription	Fetal Thymus	thymus
23	chr15:92457400-92462200	Weak transcription	Brain Anterior Caudate	brain
24	chr15:92457400-92462200	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr15:92457400-92470000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr15:92457600-92460800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr15:92457600-92461800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr15:92457600-92463600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
29	chr15:92457600-92469600	Weak transcription	Hela-S3	cervix
30	chr15:92457800-92460600	Weak transcription	Fetal Heart	heart
31	chr15:92457800-92462000	Weak transcription	Psoas Muscle	Psoas
32	chr15:92458000-92462200	Strong transcription	Primary monocytes fromperipheralblood	blood
33	chr15:92458000-92462600	Strong transcription	Monocytes-CD14+_RO01746	blood
34	chr15:92458000-92464000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr15:92458400-92460600	Weak transcription	Right Atrium	heart
36	chr15:92458400-92460800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
37	chr15:92458400-92461200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr15:92458400-92466400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
39	chr15:92458600-92461000	Strong transcription	Stomach Smooth Muscle	stomach
40	chr15:92459000-92460800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr15:92459000-92460800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr15:92459000-92461000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
43	chr15:92459000-92461400	Strong transcription	Primary T helper cells fromperipheralblood	blood
44	chr15:92459000-92461800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr15:92459000-92462800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr15:92459000-92463400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
47	chr15:92459000-92467600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
48	chr15:92459200-92460800	Strong transcription	Spleen	Spleen
49	chr15:92459200-92461000	Strong transcription	Esophagus	oesophagus
50	chr15:92459200-92461800	Strong transcription	Primary hematopoietic stem cells short term culture	blood

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