Variant report

Variant	rs72754089
Chromosome Location	chr15:92500715-92500716
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	chr15:92495579..92497655-chr15:92499848..92503443,3	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs16946175	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16946188	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17596562	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17596569	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28434706	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55653850	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55671921	0.81[EUR][1000 genomes]
rs55713569	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55761412	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55888073	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55915922	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55934923	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56000392	0.81[EUR][1000 genomes]
rs56016534	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56085012	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56100108	0.81[EUR][1000 genomes]
rs56168257	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56279925	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6496879	0.81[EUR][1000 genomes]
rs72751990	0.81[EUR][1000 genomes]
rs72751992	0.81[EUR][1000 genomes]
rs72751994	0.81[EUR][1000 genomes]
rs72751997	0.81[EUR][1000 genomes]
rs72754003	0.81[EUR][1000 genomes]
rs72754005	0.81[EUR][1000 genomes]
rs72754006	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754008	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754010	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754011	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754013	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754014	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754015	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754017	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754018	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754019	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754021	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754023	0.88[EUR][1000 genomes]
rs72754086	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754088	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754091	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754092	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72754094	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72755606	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72755608	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72755613	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72755617	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8027174	0.81[EUR][1000 genomes]
rs8027910	0.81[EUR][1000 genomes]
rs8034107	0.81[EUR][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	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
4	esv3387489	chr15:92499398-92501396	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv3439102	chr15:92499898-92501046	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92495400-92505400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr15:92496000-92500800	Enhancers	Left Ventricle	heart
3	chr15:92496000-92500800	Enhancers	Right Atrium	heart
4	chr15:92496400-92500800	Enhancers	Lung	lung
5	chr15:92498000-92500800	Enhancers	Ovary	ovary
6	chr15:92498000-92502200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr15:92498200-92505200	Weak transcription	Colonic Mucosa	Colon
8	chr15:92498200-92555000	Weak transcription	Gastric	stomach
9	chr15:92498400-92505200	Weak transcription	Primary neutrophils fromperipheralblood	blood
10	chr15:92498600-92503000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr15:92499000-92505200	Weak transcription	Monocytes-CD14+_RO01746	blood
12	chr15:92499200-92500800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr15:92499200-92504400	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr15:92499400-92504400	Weak transcription	Brain Hippocampus Middle	brain
15	chr15:92499600-92500800	Enhancers	NHEK	skin
16	chr15:92499600-92504200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr15:92499600-92505800	Weak transcription	Brain Cingulate Gyrus	brain
18	chr15:92499800-92503400	Weak transcription	A549	lung
19	chr15:92499800-92504600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr15:92499800-92505200	Weak transcription	Esophagus	oesophagus
21	chr15:92500000-92504400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr15:92500000-92504400	Weak transcription	Hela-S3	cervix
23	chr15:92500000-92505000	Weak transcription	Adipose Nuclei	Adipose
24	chr15:92500000-92505800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr15:92500200-92504200	Weak transcription	HMEC	breast
26	chr15:92500200-92504600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr15:92500200-92509600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr15:92500600-92500800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr15:92500600-92500800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr15:92500600-92500800	Enhancers	Brain Inferior Temporal Lobe	brain
31	chr15:92500600-92500800	Enhancers	Brain Substantia Nigra	brain
32	chr15:92500600-92500800	Enhancers	Psoas Muscle	Psoas
33	chr15:92500600-92500800	Enhancers	Right Ventricle	heart

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