Variant report

Variant	rs7182229
Chromosome Location	chr15:58765183-58765184
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:58623181..58625459-chr15:58764481..58766715,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128918	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs11631153	0.91[CHD][hapmap]
rs11631312	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.89[TSI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11638256	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12911658	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17190566	1.00[CEU][hapmap];0.93[CHB][hapmap];0.95[GIH][hapmap];0.86[JPT][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4775048	1.00[CEU][hapmap]
rs7161799	0.85[ASN][1000 genomes]
rs936960	1.00[CEU][hapmap];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv1042201	chr15:58520746-58780710	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv569598	chr15:58552606-58852463	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv904267	chr15:58699010-58769583	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1047048	chr15:58701400-58784800	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	esv3362898	chr15:58705732-58850860	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
8	nsv457173	chr15:58731567-58779039	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv569600	chr15:58731567-58779039	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv1043041	chr15:58744505-58876327	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
11	nsv904268	chr15:58763678-58803225	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7182229	LIPC	cis	Whole Blood	GTEx

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58743800-58770400	Enhancers	Fetal Thymus	thymus
2	chr15:58755800-58765800	Weak transcription	Gastric	stomach
3	chr15:58759400-58768400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr15:58759400-58770400	Enhancers	Placenta	Placenta
5	chr15:58759600-58765200	Weak transcription	Fetal Lung	lung
6	chr15:58759600-58765200	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr15:58760400-58770200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr15:58760600-58767000	Weak transcription	Fetal Intestine Large	intestine
9	chr15:58760800-58765200	Enhancers	HMEC	breast
10	chr15:58761000-58767200	Weak transcription	Fetal Intestine Small	intestine
11	chr15:58761400-58766600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr15:58762000-58765200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr15:58762000-58766200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr15:58762400-58765200	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr15:58762400-58765200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr15:58762400-58765200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr15:58762600-58766600	Enhancers	Placenta Amnion	Placenta Amnion
18	chr15:58762800-58765200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr15:58763000-58765200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr15:58763000-58765200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr15:58763000-58769400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr15:58763600-58765200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
23	chr15:58763600-58765200	Enhancers	Primary T killer memory cells from peripheral blood	blood
24	chr15:58763600-58765600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
25	chr15:58763800-58765400	Enhancers	Primary T cells from cord blood	blood
26	chr15:58763800-58765400	Enhancers	Primary T cells fromperipheralblood	blood
27	chr15:58763800-58766600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr15:58764000-58770200	Enhancers	Fetal Muscle Leg	muscle
29	chr15:58764000-58770200	Enhancers	Thymus	Thymus
30	chr15:58764400-58766200	Enhancers	Muscle Satellite Cultured Cells	--
31	chr15:58764600-58765200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
32	chr15:58764600-58765200	Enhancers	Primary T helper cells fromperipheralblood	blood
33	chr15:58764600-58765200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr15:58764600-58765400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
35	chr15:58764600-58766000	Enhancers	Left Ventricle	heart
36	chr15:58764600-58766400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr15:58764600-58767000	Enhancers	Primary hematopoietic stem cells short term culture	blood
38	chr15:58764600-58769600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
39	chr15:58764600-58769600	Enhancers	Cortex derived primary cultured neurospheres	brain
40	chr15:58764600-58770200	Enhancers	Spleen	Spleen
41	chr15:58764800-58765400	Enhancers	A549	lung
42	chr15:58764800-58765400	Enhancers	HUVEC	blood vessel
43	chr15:58764800-58766000	Enhancers	Skeletal Muscle Male	skeletal muscle
44	chr15:58764800-58766400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr15:58764800-58766400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr15:58764800-58766400	Enhancers	Hela-S3	cervix
47	chr15:58764800-58766400	Enhancers	NHDF-Ad	bronchial
48	chr15:58764800-58766600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr15:58764800-58766600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr15:58764800-58769600	Enhancers	HSMMtube	muscle

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