Variant report

Variant	rs55859027
Chromosome Location	chr15:40198656-40198657
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	chr15:40198142..40201041-chr15:40203381..40204995,2	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs12373003	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs172105	0.82[EUR][1000 genomes]
rs28495043	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28573294	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs41487846	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs41497851	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4923844	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4924399	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62002531	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62002533	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62002534	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv832979	chr15:40041928-40218407	Genic enhancers Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv832983	chr15:40098766-40248839	Genic enhancers Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40184000-40199600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:40189600-40200200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr15:40190200-40199200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr15:40190200-40201200	Weak transcription	Aorta	Aorta
5	chr15:40190400-40199000	Weak transcription	HUVEC	blood vessel
6	chr15:40190800-40199800	Weak transcription	HSMMtube	muscle
7	chr15:40191000-40199400	Weak transcription	NH-A	brain
8	chr15:40193200-40199600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr15:40194600-40211000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr15:40195800-40199200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr15:40195800-40199600	Weak transcription	HSMM	muscle
12	chr15:40196000-40200200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr15:40196400-40198800	Genic enhancers	HUES48 Cell Line	embryonic stem cell
14	chr15:40196800-40199200	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr15:40197200-40199000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr15:40197200-40199400	Weak transcription	Osteobl	bone
17	chr15:40197200-40199800	Enhancers	iPS-18 Cell Line	embryonic stem cell
18	chr15:40197200-40210200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr15:40197400-40198800	Weak transcription	NHDF-Ad	bronchial
20	chr15:40197400-40199400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr15:40197400-40200600	Enhancers	H1 Cell Line	embryonic stem cell
22	chr15:40197400-40209200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr15:40197600-40199600	Weak transcription	NHEK	skin
24	chr15:40197800-40199600	Weak transcription	HMEC	breast
25	chr15:40197800-40199800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr15:40197800-40201200	Enhancers	H9 Cell Line	embryonic stem cell
27	chr15:40198000-40199600	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr15:40198000-40200400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
29	chr15:40198000-40200600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr15:40198000-40200600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr15:40198000-40200800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr15:40198200-40199400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr15:40198200-40200000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
34	chr15:40198200-40201400	Enhancers	ES-I3 Cell Line	embryonic stem cell
35	chr15:40198400-40199400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr15:40198400-40199600	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr15:40198400-40199800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr15:40198400-40200200	Genic enhancers	NHLF	lung
39	chr15:40198600-40198800	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
40	chr15:40198600-40198800	Transcr. at gene 5' and 3'	iPS-20b Cell Line	embryonic stem cell
41	chr15:40198600-40199800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr15:40198600-40199800	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
43	chr15:40198600-40201600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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