Variant report

Variant	rs2235452
Chromosome Location	chr1:209778093-209778094
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	chr1:209751620..209753341-chr1:209777265..209778868,2	MCF-7	breast:
2	chr1:209776929..209778715-chr1:209779809..209782231,2	K562	blood:

Variant related genes	Relation type
ENSG00000008118	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11119313	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11801272	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12402938	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12408760	0.84[EUR][1000 genomes]
rs12734177	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2235449	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2235453	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2235454	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2235455	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34741019	0.80[EUR][1000 genomes]
rs35104617	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35458333	0.80[EUR][1000 genomes]
rs35498535	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35503098	0.97[EUR][1000 genomes]
rs35508847	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35553417	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35856006	0.80[EUR][1000 genomes]
rs55814069	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs74157978	0.92[ASN][1000 genomes]
rs74157980	0.92[ASN][1000 genomes]
rs7517804	0.87[EUR][1000 genomes]
rs7517839	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7533785	0.93[YRI][hapmap]
rs7553120	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs760833	0.92[TSI][hapmap]
rs9430004	0.81[LWK][hapmap];0.96[YRI][hapmap]
rs9787069	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999901	chr1:209600631-210205379	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv1014034	chr1:209759648-210501731	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:209764200-209780400	Weak transcription	Fetal Brain Male	brain
2	chr1:209764600-209791200	Weak transcription	Brain Anterior Caudate	brain
3	chr1:209769800-209781000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr1:209769800-209781200	Weak transcription	Spleen	Spleen
5	chr1:209771000-209780600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr1:209771000-209787600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr1:209772200-209783000	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr1:209774200-209780400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr1:209774800-209780400	Weak transcription	HMEC	breast
10	chr1:209775200-209778400	Enhancers	Primary neutrophils fromperipheralblood	blood
11	chr1:209775600-209791400	Weak transcription	Brain Hippocampus Middle	brain
12	chr1:209775800-209780200	Weak transcription	NHEK	skin
13	chr1:209775800-209780400	Weak transcription	Osteobl	bone
14	chr1:209775800-209789800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr1:209776000-209778200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr1:209776000-209790200	Weak transcription	Brain Germinal Matrix	brain
17	chr1:209776000-209791000	Weak transcription	Brain Cingulate Gyrus	brain
18	chr1:209776400-209780000	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr1:209776600-209778400	Strong transcription	Brain Angular Gyrus	brain
20	chr1:209776800-209781200	Strong transcription	Brain Inferior Temporal Lobe	brain
21	chr1:209777200-209778400	Enhancers	Fetal Heart	heart
22	chr1:209777600-209779600	Weak transcription	Fetal Lung	lung
23	chr1:209777800-209793000	Weak transcription	Ovary	ovary
24	chr1:209777800-209796600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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