Variant report

Variant	rs540146
Chromosome Location	chr4:20546056-20546057
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:20420248..20420749-chr4:20545895..20546523,2	MCF-7	breast:
2	chr4:20423666..20425699-chr4:20545912..20547306,15	MCF-7	breast:
3	chr4:20430173..20430714-chr4:20546050..20546559,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10516357	0.81[CEU][hapmap];1.00[CHB][hapmap];0.93[TSI][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12501870	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[TSI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12506323	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12507257	0.93[TSI][hapmap]
rs13132881	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs13148960	0.90[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17620615	0.86[CEU][hapmap];1.00[CHB][hapmap];0.82[MEX][hapmap];0.96[TSI][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17620814	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs1870261	0.89[EUR][1000 genomes]
rs2290750	0.86[CEU][hapmap];0.88[MEX][hapmap];0.93[TSI][hapmap];0.88[EUR][1000 genomes]
rs2290751	0.86[CEU][hapmap];0.96[TSI][hapmap];0.88[EUR][1000 genomes]
rs34230344	0.87[EUR][1000 genomes]
rs34337410	0.89[EUR][1000 genomes]
rs34443398	0.83[ASN][1000 genomes]
rs34529351	0.86[EUR][1000 genomes]
rs34830832	0.83[ASN][1000 genomes]
rs3775833	0.96[TSI][hapmap]
rs511804	0.86[CEU][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56350231	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61790681	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61790682	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61790683	0.87[EUR][1000 genomes]
rs664462	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs6827219	0.86[CEU][hapmap];0.89[EUR][1000 genomes]
rs6853061	0.89[EUR][1000 genomes]
rs7655615	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829875	chr4:20502895-20680956	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA	89 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	chr4:20492000-20599800	Weak transcription	Aorta	Aorta
2	chr4:20511800-20576200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr4:20519400-20571000	Weak transcription	Adipose Nuclei	Adipose
4	chr4:20524200-20555200	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr4:20525200-20555400	Weak transcription	Stomach Smooth Muscle	stomach
6	chr4:20530000-20546400	Weak transcription	Pancreas	Pancrea
7	chr4:20530400-20555400	Weak transcription	NHEK	skin
8	chr4:20533000-20578000	Weak transcription	NHLF	lung
9	chr4:20533800-20576200	Weak transcription	Left Ventricle	heart
10	chr4:20534600-20552800	Weak transcription	Brain Anterior Caudate	brain
11	chr4:20534800-20576400	Weak transcription	Fetal Brain Male	brain
12	chr4:20535800-20593600	Weak transcription	Fetal Kidney	kidney
13	chr4:20536000-20548600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr4:20536000-20552400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr4:20536000-20554800	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr4:20536000-20555200	Weak transcription	Fetal Muscle Trunk	muscle
17	chr4:20536600-20572200	Weak transcription	Placenta	Placenta
18	chr4:20536800-20618600	Weak transcription	Spleen	Spleen
19	chr4:20537800-20552600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr4:20537800-20552600	Weak transcription	Colon Smooth Muscle	Colon
21	chr4:20537800-20552800	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr4:20538000-20553200	Weak transcription	Fetal Stomach	stomach
23	chr4:20539000-20552800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr4:20541200-20546800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr4:20541200-20552800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr4:20543600-20549600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr4:20543600-20549800	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr4:20545000-20546800	Weak transcription	NHDF-Ad	bronchial
29	chr4:20545000-20547400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr4:20545000-20549800	Weak transcription	Osteobl	bone
31	chr4:20545000-20552600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr4:20545200-20546800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr4:20545200-20546800	Weak transcription	Fetal Lung	lung

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