Variant report

Variant	rs7688779
Chromosome Location	chr4:16271393-16271394
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	chr4:16255755..16258519-chr4:16270641..16272535,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000242358	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10002625	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10939659	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10939661	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11946067	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13102329	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13110673	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13111956	0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13120292	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13121695	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13131868	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13132621	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16893287	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34019415	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34274223	0.94[EUR][1000 genomes]
rs34880816	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35281534	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35892656	0.94[EUR][1000 genomes]
rs36104258	0.94[EUR][1000 genomes]
rs4698139	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4698140	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4698142	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4698468	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4698480	0.88[CEU][hapmap]
rs9994269	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1004821	chr4:16055996-16830629	Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv537046	chr4:16055996-16830629	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv537047	chr4:16182060-16375787	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv537048	chr4:16226406-16375787	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:16235400-16272800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr4:16258200-16278600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr4:16258600-16272000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr4:16259400-16272200	Weak transcription	Fetal Intestine Large	intestine
5	chr4:16261600-16272200	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr4:16268000-16272000	Weak transcription	Pancreas	Pancrea
7	chr4:16268200-16272200	Weak transcription	Fetal Intestine Small	intestine
8	chr4:16268400-16272000	Weak transcription	Primary B cells from peripheral blood	blood
9	chr4:16269600-16271800	Enhancers	Primary neutrophils fromperipheralblood	blood
10	chr4:16270200-16272000	Enhancers	NHEK	skin
11	chr4:16270200-16274000	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr4:16270400-16271400	Enhancers	Aorta	Aorta
13	chr4:16270400-16271400	Enhancers	Fetal Stomach	stomach
14	chr4:16270400-16272000	Enhancers	NHDF-Ad	bronchial
15	chr4:16270400-16273400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr4:16270400-16273400	Enhancers	HMEC	breast
17	chr4:16270600-16271400	Enhancers	Monocytes-CD14+_RO01746	blood
18	chr4:16270600-16271600	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr4:16270600-16272000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr4:16270600-16272000	Enhancers	Primary monocytes fromperipheralblood	blood
21	chr4:16270600-16272800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr4:16270600-16272800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr4:16270600-16273800	Weak transcription	Left Ventricle	heart
24	chr4:16270800-16271400	Flanking Active TSS	Osteobl	bone
25	chr4:16270800-16272400	Enhancers	Fetal Muscle Leg	muscle
26	chr4:16270800-16272400	Enhancers	HSMMtube	muscle
27	chr4:16270800-16272600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr4:16270800-16272600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr4:16270800-16272600	Enhancers	HSMM	muscle
30	chr4:16270800-16273600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr4:16271000-16271400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr4:16271000-16272600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr4:16271000-16272600	Enhancers	Muscle Satellite Cultured Cells	--
34	chr4:16271000-16272600	Enhancers	Adipose Nuclei	Adipose
35	chr4:16271000-16272600	Enhancers	NHLF	lung
36	chr4:16271000-16272800	Enhancers	NH-A	brain
37	chr4:16271000-16273000	Enhancers	Primary hematopoietic stem cells	blood
38	chr4:16271200-16271400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr4:16271200-16272600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr4:16271200-16273600	Enhancers	Primary B cells from cord blood	blood

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