Variant report

Variant	rs55913172
Chromosome Location	chr15:45936632-45936633
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:45934455..45936874-chr15:45938212..45940753,2	MCF-7	breast:
2	chr15:45936300..45938060-chr15:45941234..45942847,2	MCF-7	breast:
3	chr15:45931549..45933106-chr15:45935286..45937099,2	K562	blood:
4	chr15:45931689..45934379-chr15:45936432..45937938,2	MCF-7	breast:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs16945097	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16946621	0.80[EUR][1000 genomes]
rs17627219	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1966763	0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs55755923	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs55806911	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56081351	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56190351	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56259807	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56304405	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56375332	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56395216	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs57291883	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs59593563	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs60351453	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60378269	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61209164	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs68044128	0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7164956	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7165827	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7178395	0.91[EUR][1000 genomes]
rs7178879	0.82[ASN][1000 genomes]
rs7179265	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7179903	0.82[ASN][1000 genomes]
rs7181436	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72713106	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72713107	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72713168	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72713169	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72713171	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72713172	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72713175	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72713177	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72713178	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72713182	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72713185	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72713191	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72713197	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72713199	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72713201	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72715003	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72715005	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72715008	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72715010	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72715014	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72715019	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72715020	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72715077	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72715082	0.83[EUR][1000 genomes]
rs8041902	0.94[EUR][1000 genomes];0.82[ASN][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	nsv904188	chr15:45801035-45941689	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv904189	chr15:45821158-46298458	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv904190	chr15:45892672-45960897	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	27 gene(s)	inside rSNPs	n/a
4	nsv904191	chr15:45902779-46381874	Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
5	nsv526945	chr15:45935755-45941689	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:45929000-45939000	Enhancers	Stomach Mucosa	stomach
2	chr15:45930000-45937800	Weak transcription	Right Ventricle	heart
3	chr15:45930400-45936800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr15:45930400-45940800	Weak transcription	Fetal Thymus	thymus
5	chr15:45930600-45940800	Weak transcription	Thymus	Thymus
6	chr15:45930800-45936800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr15:45931000-45938800	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr15:45933800-45951200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr15:45934200-45936800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr15:45934200-45937200	Enhancers	Lung	lung
11	chr15:45934200-45938600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr15:45934200-45961600	Weak transcription	Fetal Kidney	kidney
13	chr15:45934400-45936800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr15:45934400-45938800	Enhancers	NHLF	lung
15	chr15:45934600-45936800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr15:45934600-45936800	Enhancers	Rectal Mucosa Donor 31	rectum
17	chr15:45934600-45937000	Weak transcription	Placenta	Placenta
18	chr15:45934600-45937400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr15:45934600-45937400	Enhancers	A549	lung
20	chr15:45934600-45937600	Weak transcription	Ovary	ovary
21	chr15:45934800-45936800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
22	chr15:45934800-45936800	Weak transcription	Right Atrium	heart
23	chr15:45934800-45936800	Weak transcription	Small Intestine	intestine
24	chr15:45934800-45937000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
25	chr15:45934800-45937000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr15:45934800-45937000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr15:45934800-45937800	Weak transcription	Brain Hippocampus Middle	brain
28	chr15:45934800-45937800	Weak transcription	Gastric	stomach
29	chr15:45934800-45937800	Weak transcription	Left Ventricle	heart
30	chr15:45934800-45945800	Weak transcription	Primary hematopoietic stem cells	blood
31	chr15:45935000-45936800	Weak transcription	Duodenum Mucosa	Duodenum
32	chr15:45935000-45937000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr15:45935000-45937000	Weak transcription	Adipose Nuclei	Adipose
34	chr15:45935000-45937200	Weak transcription	Fetal Stomach	stomach
35	chr15:45935000-45937400	Weak transcription	Pancreatic Islets	Pancreatic Islet
36	chr15:45935000-45937600	Weak transcription	Aorta	Aorta
37	chr15:45935000-45937600	Weak transcription	HSMMtube	muscle
38	chr15:45935000-45937600	Weak transcription	NH-A	brain
39	chr15:45935200-45936800	Weak transcription	Colon Smooth Muscle	Colon
40	chr15:45935200-45937000	Enhancers	Primary neutrophils fromperipheralblood	blood
41	chr15:45935200-45937000	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr15:45935200-45937200	Weak transcription	HSMM	muscle
43	chr15:45935200-45937400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr15:45935400-45936800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr15:45935400-45936800	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr15:45935400-45936800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr15:45935400-45936800	Weak transcription	Psoas Muscle	Psoas
48	chr15:45935400-45936800	Enhancers	Rectal Mucosa Donor 29	rectum
49	chr15:45935400-45936800	Weak transcription	Skeletal Muscle Male	skeletal muscle
50	chr15:45935400-45936800	Weak transcription	Hela-S3	cervix

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