Variant report

Variant	rs55999827
Chromosome Location	chr8:99899473-99899474
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	chr8:99898466..99900537-chr8:99903987..99905809,2	MCF-7	breast:

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10504986	1.00[ASN][1000 genomes]
rs10504987	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16897111	1.00[ASN][1000 genomes]
rs16897112	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16897115	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16897117	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16897119	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16897121	1.00[ASN][1000 genomes]
rs16897122	1.00[ASN][1000 genomes]
rs16897123	1.00[ASN][1000 genomes]
rs16897128	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17374005	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55708865	1.00[ASN][1000 genomes]
rs55807423	1.00[ASN][1000 genomes]
rs55878650	1.00[ASN][1000 genomes]
rs55892905	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55899553	1.00[ASN][1000 genomes]
rs55933347	1.00[ASN][1000 genomes]
rs55939044	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55947965	1.00[ASN][1000 genomes]
rs56088337	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56099380	1.00[ASN][1000 genomes]
rs56185259	1.00[ASN][1000 genomes]
rs56246659	1.00[ASN][1000 genomes]
rs56285208	1.00[ASN][1000 genomes]
rs56290864	1.00[ASN][1000 genomes]
rs56356780	1.00[ASN][1000 genomes]
rs67954509	1.00[ASN][1000 genomes]
rs6994994	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7010279	1.00[ASN][1000 genomes]
rs7012298	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7012465	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666665	1.00[ASN][1000 genomes]
rs72666666	1.00[ASN][1000 genomes]
rs72666673	1.00[ASN][1000 genomes]
rs72666676	1.00[ASN][1000 genomes]
rs72666678	1.00[ASN][1000 genomes]
rs72666680	1.00[ASN][1000 genomes]
rs72666684	1.00[ASN][1000 genomes]
rs72666685	1.00[ASN][1000 genomes]
rs72666688	1.00[ASN][1000 genomes]
rs72666689	1.00[ASN][1000 genomes]
rs72666690	1.00[ASN][1000 genomes]
rs72666699	1.00[ASN][1000 genomes]
rs72668403	1.00[ASN][1000 genomes]
rs72668407	1.00[ASN][1000 genomes]
rs72668412	1.00[ASN][1000 genomes]
rs72668417	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72668419	1.00[ASN][1000 genomes]
rs72668423	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72668425	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72668426	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72668428	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72668430	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72668442	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72668446	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72668447	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72668449	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72668453	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72668455	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72668456	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72668457	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72668458	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72668460	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72668461	1.00[ASN][1000 genomes]
rs72668464	1.00[ASN][1000 genomes]
rs72668467	1.00[ASN][1000 genomes]
rs72668480	1.00[ASN][1000 genomes]
rs72668495	1.00[ASN][1000 genomes]
rs72670210	1.00[ASN][1000 genomes]
rs7817630	1.00[ASN][1000 genomes]
rs7820829	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7835203	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	nsv891218	chr8:99507313-99906221	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv1027025	chr8:99672977-100115315	Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv539690	chr8:99672977-100115315	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv1031089	chr8:99715785-100399935	Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:99889600-99900000	Weak transcription	Ovary	ovary
2	chr8:99896000-99900000	Weak transcription	Fetal Muscle Leg	muscle
3	chr8:99896000-99901200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr8:99896200-99900000	Weak transcription	Fetal Stomach	stomach
5	chr8:99896200-99901000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr8:99897600-99913800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr8:99899000-99900600	Weak transcription	Liver	Liver
8	chr8:99899000-99900800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr8:99899000-99900800	Weak transcription	Adipose Nuclei	Adipose

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