Variant report

Variant	rs61519543
Chromosome Location	chr4:99569268-99569269
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	chr4:99566031..99568525-chr4:99568795..99571513,2	MCF-7	breast:

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10856938	0.86[EUR][1000 genomes]
rs11097627	0.83[EUR][1000 genomes]
rs12509185	0.81[EUR][1000 genomes]
rs1881449	0.83[EUR][1000 genomes]
rs2866014	0.81[ASN][1000 genomes]
rs28744614	0.86[ASN][1000 genomes]
rs7660421	0.81[EUR][1000 genomes]
rs871474	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9307228	0.80[ASN][1000 genomes]
rs9790846	0.94[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv594940	chr4:99542475-99573350	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:99548000-99577000	Weak transcription	Esophagus	oesophagus
2	chr4:99552600-99569600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr4:99564000-99571600	Enhancers	Brain Inferior Temporal Lobe	brain
4	chr4:99564200-99570400	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr4:99564400-99575600	Weak transcription	Fetal Kidney	kidney
6	chr4:99564600-99569400	Weak transcription	Fetal Heart	heart
7	chr4:99565200-99569400	Weak transcription	HMEC	breast
8	chr4:99565200-99571200	Weak transcription	A549	lung
9	chr4:99565200-99571200	Weak transcription	NHEK	skin
10	chr4:99565200-99571400	Weak transcription	Primary hematopoietic stem cells	blood
11	chr4:99565200-99571400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr4:99565200-99571400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr4:99565800-99571200	Enhancers	Brain Anterior Caudate	brain
14	chr4:99565800-99571200	Enhancers	Brain Substantia Nigra	brain
15	chr4:99566000-99569400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr4:99566000-99570600	Enhancers	Brain Hippocampus Middle	brain
17	chr4:99566000-99571200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
18	chr4:99566000-99575200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr4:99566400-99569800	Enhancers	Brain Germinal Matrix	brain
20	chr4:99566800-99569400	Weak transcription	NH-A	brain
21	chr4:99566800-99569800	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr4:99566800-99570000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr4:99567000-99571000	Enhancers	Breast Myoepithelial Primary Cells	Breast
24	chr4:99567000-99571000	Enhancers	HUVEC	blood vessel
25	chr4:99567400-99569400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr4:99567400-99570200	Enhancers	Brain Angular Gyrus	brain
27	chr4:99567600-99574200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
28	chr4:99567600-99574400	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr4:99567600-99574800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr4:99568000-99570600	Enhancers	Muscle Satellite Cultured Cells	--
31	chr4:99568000-99570800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr4:99568200-99569400	Enhancers	Fetal Lung	lung
33	chr4:99568200-99569400	Enhancers	Osteobl	bone
34	chr4:99568200-99571600	Enhancers	Fetal Brain Female	brain
35	chr4:99568200-99571600	Enhancers	NHDF-Ad	bronchial
36	chr4:99568400-99569400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr4:99568400-99569400	Weak transcription	Small Intestine	intestine
38	chr4:99568400-99570200	Enhancers	HSMM	muscle
39	chr4:99568400-99575000	Weak transcription	Thymus	Thymus
40	chr4:99569200-99569400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr4:99569200-99569400	Enhancers	Fetal Stomach	stomach
42	chr4:99569200-99569600	Enhancers	Aorta	Aorta
43	chr4:99569200-99569600	Enhancers	Spleen	Spleen
44	chr4:99569200-99569800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr4:99569200-99569800	Flanking Active TSS	Brain Cingulate Gyrus	brain
46	chr4:99569200-99570000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr4:99569200-99570000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr4:99569200-99570000	Enhancers	Fetal Muscle Leg	muscle
49	chr4:99569200-99570000	Enhancers	Gastric	stomach
50	chr4:99569200-99570000	Enhancers	HSMMtube	muscle

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