Variant report

Variant	rs55829894
Chromosome Location	chr15:78398959-78398960
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:78394209..78398078-chr15:78398123..78400882,3	MCF-7	breast:
2	chr15:78392111..78393882-chr15:78397751..78399759,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11630013	1.00[ASN][1000 genomes]
rs11635115	1.00[ASN][1000 genomes]
rs11635268	1.00[ASN][1000 genomes]
rs16969502	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17398057	1.00[ASN][1000 genomes]
rs17399424	1.00[ASN][1000 genomes]
rs34057735	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4438275	1.00[ASN][1000 genomes]
rs4887008	1.00[ASN][1000 genomes]
rs55914317	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55921592	0.94[AFR][1000 genomes]
rs57778149	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59075488	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60790001	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61347580	0.82[EUR][1000 genomes]
rs62008166	1.00[ASN][1000 genomes]
rs62008596	1.00[ASN][1000 genomes]
rs62011475	1.00[ASN][1000 genomes]
rs62011476	1.00[ASN][1000 genomes]
rs62011479	1.00[ASN][1000 genomes]
rs62011482	1.00[ASN][1000 genomes]
rs62011483	1.00[ASN][1000 genomes]
rs62011509	1.00[ASN][1000 genomes]
rs62011510	1.00[ASN][1000 genomes]
rs62011512	1.00[ASN][1000 genomes]
rs62011516	1.00[ASN][1000 genomes]
rs62011518	1.00[ASN][1000 genomes]
rs62011519	1.00[ASN][1000 genomes]
rs62011521	1.00[ASN][1000 genomes]
rs7163268	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7163579	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7165474	1.00[ASN][1000 genomes]
rs7182599	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7183671	1.00[ASN][1000 genomes]
rs74024166	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74024170	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8028842	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs894298	1.00[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	nsv529491	chr15:77932659-78751516	Genic enhancers Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	esv274890	chr15:78396447-78402258	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78385200-78400600	Weak transcription	Pancreas	Pancrea
2	chr15:78392000-78400600	Strong transcription	Thymus	Thymus
3	chr15:78393200-78406000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr15:78393400-78401200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
5	chr15:78393800-78399200	Enhancers	Primary T cells fromperipheralblood	blood
6	chr15:78394200-78399200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr15:78394800-78399000	Enhancers	Primary T helper cells fromperipheralblood	blood
8	chr15:78395000-78405600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr15:78395200-78399000	Enhancers	Duodenum Mucosa	Duodenum
10	chr15:78395400-78405600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr15:78395600-78399200	Genic enhancers	Fetal Intestine Small	intestine
12	chr15:78395800-78400200	Strong transcription	Fetal Brain Female	brain
13	chr15:78396000-78400000	Strong transcription	Brain Germinal Matrix	brain
14	chr15:78396000-78405400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr15:78396200-78399000	Enhancers	GM12878-XiMat	blood
16	chr15:78396200-78399200	Enhancers	Placenta	Placenta
17	chr15:78396200-78400600	Weak transcription	Primary B cells from peripheral blood	blood
18	chr15:78396200-78400600	Weak transcription	Right Atrium	heart
19	chr15:78396200-78405600	Weak transcription	Brain Anterior Caudate	brain
20	chr15:78396200-78421800	Weak transcription	Right Ventricle	heart
21	chr15:78396400-78404000	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr15:78396400-78405400	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr15:78396600-78405400	Weak transcription	Primary neutrophils fromperipheralblood	blood
24	chr15:78396600-78405600	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr15:78396600-78423800	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr15:78396800-78399000	Genic enhancers	Fetal Intestine Large	intestine
27	chr15:78396800-78401400	Strong transcription	Fetal Stomach	stomach
28	chr15:78397000-78400600	Weak transcription	Fetal Lung	lung
29	chr15:78397000-78405600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr15:78397200-78400600	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr15:78397600-78400600	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr15:78397600-78401200	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr15:78397600-78421400	Weak transcription	Fetal Muscle Leg	muscle
34	chr15:78398000-78399000	Strong transcription	Stomach Smooth Muscle	stomach
35	chr15:78398000-78399000	Enhancers	HUVEC	blood vessel
36	chr15:78398000-78399200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr15:78398200-78399000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr15:78398200-78399000	Enhancers	HSMM	muscle
39	chr15:78398400-78399600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr15:78398400-78400000	Enhancers	HepG2	liver
41	chr15:78398400-78405400	Weak transcription	H1 Cell Line	embryonic stem cell
42	chr15:78398400-78405600	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr15:78398400-78423200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr15:78398600-78400400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
45	chr15:78398600-78400600	Strong transcription	Fetal Thymus	thymus
46	chr15:78398600-78400600	Weak transcription	Osteobl	bone
47	chr15:78398600-78400800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr15:78398600-78405200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr15:78398600-78405600	Weak transcription	Cortex derived primary cultured neurospheres	brain
50	chr15:78398600-78413200	Weak transcription	Spleen	Spleen

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