Variant report

Variant	rs1557779
Chromosome Location	chr7:27994758-27994759
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	chr7:27986771..27988472-chr7:27993865..27996393,2	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10486567	0.86[LWK][hapmap]
rs11763181	0.85[CEU][hapmap];0.89[TSI][hapmap];0.90[EUR][1000 genomes]
rs12538288	0.85[CEU][hapmap]
rs16874408	0.84[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs17156078	0.84[ASW][hapmap];0.84[CHB][hapmap];0.89[CHD][hapmap];0.95[JPT][hapmap];0.91[LWK][hapmap];0.93[MKK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs17156080	0.84[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1859109	0.85[CEU][hapmap]
rs4722746	0.85[CEU][hapmap]
rs56901033	0.84[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs6462060	0.85[CEU][hapmap]
rs6958293	0.82[CEU][hapmap]
rs6968362	0.85[CEU][hapmap]
rs6968677	0.85[CEU][hapmap]
rs6970113	0.85[CEU][hapmap]
rs6972944	0.85[CEU][hapmap]
rs73299490	0.81[AFR][1000 genomes]
rs73299499	0.97[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7778340	0.85[CEU][hapmap]
rs7783410	0.85[CEU][hapmap]
rs7787507	0.85[CEU][hapmap]

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	nsv949025	chr7:27578167-28075172	Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1030685	chr7:27844038-28177301	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv1024819	chr7:27949955-28020969	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:27942400-28005600	Weak transcription	Primary monocytes fromperipheralblood	blood
2	chr7:27957600-28000800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr7:27977000-28001400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr7:27979200-28000000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr7:27980200-28000000	Weak transcription	Lung	lung
6	chr7:27980400-28000000	Weak transcription	Pancreas	Pancrea
7	chr7:27980400-28017200	Weak transcription	Aorta	Aorta
8	chr7:27987800-27998200	Weak transcription	Ovary	ovary
9	chr7:27987800-27999600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr7:27988800-28002200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr7:27989000-27996200	Weak transcription	Rectal Smooth Muscle	rectum
12	chr7:27989200-28000200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr7:27989400-27999800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr7:27989600-28006800	Weak transcription	Right Ventricle	heart
15	chr7:27990600-27999800	Weak transcription	Brain Substantia Nigra	brain
16	chr7:27990600-28000000	Weak transcription	Brain Cingulate Gyrus	brain
17	chr7:27992000-28013400	Weak transcription	Left Ventricle	heart
18	chr7:27992200-27996600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr7:27992200-27998000	Weak transcription	Psoas Muscle	Psoas
20	chr7:27992600-27995200	Weak transcription	Adipose Nuclei	Adipose
21	chr7:27993000-27995000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr7:27993000-28001800	Strong transcription	Primary B cells from cord blood	blood
23	chr7:27993200-27995800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr7:27993400-27995400	Strong transcription	Monocytes-CD14+_RO01746	blood
25	chr7:27993400-27998000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr7:27993400-28000400	Weak transcription	HSMM	muscle
27	chr7:27993400-28001000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr7:27993400-28001000	Weak transcription	Fetal Muscle Leg	muscle
29	chr7:27993600-27995600	Weak transcription	Colon Smooth Muscle	Colon
30	chr7:27993800-28000000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr7:27993800-28000000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr7:27994400-27996600	Weak transcription	Stomach Smooth Muscle	stomach
33	chr7:27994400-27997400	Weak transcription	Primary B cells from peripheral blood	blood

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