Variant report

Variant	rs2456078
Chromosome Location	chr15:76558870-76558871
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	chr15:76548818..76551250-chr15:76556678..76559451,2	MCF-7	breast:

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1801591	0.96[ASN][1000 genomes]
rs1914816	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2255408	0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2291449	0.96[ASN][1000 genomes]
rs2456027	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2456033	0.85[ASN][1000 genomes]
rs2456040	0.96[ASN][1000 genomes]
rs2456042	0.96[ASN][1000 genomes]
rs2456047	0.96[ASN][1000 genomes]
rs2456053	0.92[AMR][1000 genomes]
rs2456063	0.82[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2456066	0.89[ASN][1000 genomes]
rs2456067	0.89[ASN][1000 genomes]
rs2456070	0.96[ASN][1000 genomes]
rs2456072	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2456074	0.96[ASN][1000 genomes]
rs2456075	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2460146	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2460151	0.97[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2460153	0.96[ASN][1000 genomes]
rs2460155	0.97[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2460158	0.89[ASN][1000 genomes]
rs2469211	0.89[ASN][1000 genomes]
rs2469212	0.82[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2469214	0.96[ASN][1000 genomes]
rs2469215	0.85[ASN][1000 genomes]
rs2469216	0.85[ASN][1000 genomes]
rs2469533	0.82[ASN][1000 genomes]
rs2469538	0.96[ASN][1000 genomes]
rs2469539	0.96[ASN][1000 genomes]
rs2469544	0.97[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2469552	0.85[ASN][1000 genomes]
rs2469564	0.96[ASN][1000 genomes]
rs2469568	0.81[ASN][1000 genomes]
rs2469573	0.82[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2938691	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2956875	0.89[ASN][1000 genomes]
rs2957037	0.97[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2959846	0.96[ASN][1000 genomes]
rs4636879	0.81[EUR][1000 genomes]
rs6495200	0.85[ASN][1000 genomes]
rs8042255	0.96[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	nsv833057	chr15:76367848-76585868	ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv527608	chr15:76530267-76562738	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:76513200-76559400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr15:76517400-76559400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr15:76550400-76563000	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr15:76550600-76559200	ZNF genes & repeats	Fetal Stomach	stomach
5	chr15:76550600-76560400	ZNF genes & repeats	Fetal Intestine Large	intestine
6	chr15:76550600-76562600	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
7	chr15:76550600-76563000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
8	chr15:76550600-76563200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr15:76550600-76563400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr15:76550600-76563400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr15:76550600-76563600	ZNF genes & repeats	Fetal Intestine Small	intestine
12	chr15:76550600-76564000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
13	chr15:76550600-76578400	Strong transcription	Liver	Liver
14	chr15:76552000-76559400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr15:76553400-76562800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr15:76553400-76563200	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
17	chr15:76553600-76560800	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
18	chr15:76553600-76561000	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
19	chr15:76553600-76563200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr15:76553800-76562600	ZNF genes & repeats	Primary B cells from cord blood	blood
21	chr15:76553800-76564200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr15:76554000-76560200	Weak transcription	Gastric	stomach
23	chr15:76554000-76560400	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
24	chr15:76554000-76563800	ZNF genes & repeats	Dnd41	blood
25	chr15:76554200-76561600	ZNF genes & repeats	Fetal Muscle Leg	muscle
26	chr15:76554200-76562600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
27	chr15:76554200-76562600	ZNF genes & repeats	Fetal Lung	lung
28	chr15:76554600-76560600	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
29	chr15:76554600-76563000	ZNF genes & repeats	Primary B cells from peripheral blood	blood
30	chr15:76555000-76559200	ZNF genes & repeats	Placenta	Placenta
31	chr15:76555000-76560600	ZNF genes & repeats	Fetal Muscle Trunk	muscle
32	chr15:76555000-76562600	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr15:76555000-76563200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr15:76555200-76561400	ZNF genes & repeats	Duodenum Mucosa	Duodenum
35	chr15:76555200-76562800	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr15:76555400-76561000	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
37	chr15:76555800-76559400	Weak transcription	Brain Cingulate Gyrus	brain
38	chr15:76555800-76559800	Weak transcription	HepG2	liver
39	chr15:76555800-76563200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr15:76555800-76564200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
41	chr15:76555800-76564400	Weak transcription	Right Ventricle	heart
42	chr15:76555800-76567200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr15:76555800-76574200	Strong transcription	Primary T cells fromperipheralblood	blood
44	chr15:76555800-76578800	Weak transcription	Psoas Muscle	Psoas
45	chr15:76555800-76579000	Weak transcription	NHLF	lung
46	chr15:76555800-76586000	Weak transcription	Stomach Mucosa	stomach
47	chr15:76556000-76559400	Weak transcription	HSMM	muscle
48	chr15:76556000-76559800	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr15:76556000-76559800	Weak transcription	HSMMtube	muscle
50	chr15:76556000-76560000	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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