Variant report

Variant	rs58509950
Chromosome Location	chr15:56375880-56375881
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	chr15:56375041..56376639-chr15:56378973..56381059,2	MCF-7	breast:

Extended variants
information (count: 152 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:149)

rs_ID	r²[population]
rs10518839	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10518842	0.86[AMR][1000 genomes]
rs10518843	0.86[AMR][1000 genomes]
rs10851604	0.86[AMR][1000 genomes]
rs11071246	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11071250	0.88[AMR][1000 genomes]
rs11071253	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11071255	0.86[AMR][1000 genomes]
rs11629674	0.86[AMR][1000 genomes]
rs11629809	0.86[AMR][1000 genomes]
rs11630394	0.86[AMR][1000 genomes]
rs11631518	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11631910	0.84[AMR][1000 genomes]
rs11631915	0.86[AMR][1000 genomes]
rs11632023	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11632081	0.86[AMR][1000 genomes]
rs11632087	0.86[AMR][1000 genomes]
rs11632394	0.86[AMR][1000 genomes]
rs11632619	0.86[AMR][1000 genomes]
rs11634404	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11634455	0.86[AMR][1000 genomes]
rs11634689	0.84[AMR][1000 genomes]
rs11636035	0.86[AMR][1000 genomes]
rs11636040	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11637515	0.86[AMR][1000 genomes]
rs11637998	0.84[AMR][1000 genomes]
rs11638709	0.86[AMR][1000 genomes]
rs12443118	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12591093	0.88[AMR][1000 genomes]
rs12591151	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12591236	0.86[AMR][1000 genomes]
rs12591980	0.86[AMR][1000 genomes]
rs12592130	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12592690	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12592881	0.86[AMR][1000 genomes]
rs12592899	0.86[AMR][1000 genomes]
rs12593096	0.82[AMR][1000 genomes]
rs12593439	0.86[AMR][1000 genomes]
rs12593569	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12593713	0.86[AMR][1000 genomes]
rs12593752	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12594038	0.86[AMR][1000 genomes]
rs12594103	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12594121	0.86[AMR][1000 genomes]
rs12594245	0.86[AMR][1000 genomes]
rs12594860	0.86[AMR][1000 genomes]
rs12594908	0.86[AMR][1000 genomes]
rs12595072	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12595323	0.84[AMR][1000 genomes]
rs12595366	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12595428	0.86[AMR][1000 genomes]
rs12595490	0.86[AMR][1000 genomes]
rs12595496	0.86[AMR][1000 genomes]
rs12595557	0.86[AMR][1000 genomes]
rs12595649	0.86[AMR][1000 genomes]
rs1550586	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs16976734	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs16976792	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs16976801	0.86[AMR][1000 genomes]
rs16976810	0.86[AMR][1000 genomes]
rs16976821	0.86[AMR][1000 genomes]
rs16976831	0.86[AMR][1000 genomes]
rs16976832	0.86[AMR][1000 genomes]
rs17841131	0.86[AMR][1000 genomes]
rs1867089	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1879344	0.86[AMR][1000 genomes]
rs1879345	0.86[AMR][1000 genomes]
rs1879347	0.86[AMR][1000 genomes]
rs1879349	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2414465	0.86[AMR][1000 genomes]
rs2414467	0.86[AMR][1000 genomes]
rs2414468	0.86[AMR][1000 genomes]
rs2414471	0.86[AMR][1000 genomes]
rs2414472	0.86[AMR][1000 genomes]
rs2899596	0.86[AMR][1000 genomes]
rs2899597	0.86[AMR][1000 genomes]
rs34383693	0.86[EUR][1000 genomes]
rs34401800	0.86[AMR][1000 genomes]
rs35371323	0.93[AMR][1000 genomes]
rs35607436	0.86[AMR][1000 genomes]
rs3803459	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4142481	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs55942364	0.86[AMR][1000 genomes]
rs55946012	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs55957636	0.86[AMR][1000 genomes]
rs56083605	0.86[AMR][1000 genomes]
rs56156930	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs56215018	0.86[AMR][1000 genomes]
rs56323443	0.81[AFR][1000 genomes]
rs56398703	0.86[AMR][1000 genomes]
rs57310185	0.93[AMR][1000 genomes]
rs58036957	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs58084889	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs58934221	0.86[AMR][1000 genomes]
rs59025920	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs60210425	0.86[AMR][1000 genomes]
rs61072507	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61270078	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs61373424	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs61500930	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs66670902	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs68187092	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72736464	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72736479	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72736495	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72736498	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72738604	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72738605	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72738607	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72738608	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72738615	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs72738616	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs72738618	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs72738620	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs72738631	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs72738636	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72738638	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72738646	0.86[AMR][1000 genomes]
rs72738648	0.86[AMR][1000 genomes]
rs72738654	0.86[AMR][1000 genomes]
rs72738656	0.86[AMR][1000 genomes]
rs72738658	0.86[AMR][1000 genomes]
rs72738659	0.86[AMR][1000 genomes]
rs72738660	0.86[AMR][1000 genomes]
rs72738662	0.86[AMR][1000 genomes]
rs72738664	0.86[AMR][1000 genomes]
rs72738666	0.86[AMR][1000 genomes]
rs72738667	0.86[AMR][1000 genomes]
rs72738668	0.86[AMR][1000 genomes]
rs72738674	0.86[AMR][1000 genomes]
rs72738675	0.86[AMR][1000 genomes]
rs72738676	0.86[AMR][1000 genomes]
rs72738679	0.84[AMR][1000 genomes]
rs72738680	0.86[AMR][1000 genomes]
rs72738682	0.86[AMR][1000 genomes]
rs72738683	0.86[AMR][1000 genomes]
rs72738684	0.86[AMR][1000 genomes]
rs72738685	0.86[AMR][1000 genomes]
rs72738686	0.86[AMR][1000 genomes]
rs72738694	0.86[AMR][1000 genomes]
rs72738696	0.86[AMR][1000 genomes]
rs72738697	0.86[AMR][1000 genomes]
rs72738701	0.86[AMR][1000 genomes]
rs72740503	0.86[AMR][1000 genomes]
rs72740506	0.86[AMR][1000 genomes]
rs72740508	0.86[AMR][1000 genomes]
rs72740509	0.86[AMR][1000 genomes]
rs764014	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs8030605	0.86[AMR][1000 genomes]

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	esv2761872	chr15:56211065-56426501	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv833018	chr15:56325799-56492535	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1045906	chr15:56333180-56473614	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56363600-56383800	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr15:56369800-56385600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr15:56374800-56381600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr15:56375000-56381600	Weak transcription	HMEC	breast
5	chr15:56375000-56385000	Weak transcription	NHEK	skin
6	chr15:56375000-56385800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr15:56375000-56386000	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr15:56375200-56379600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr15:56375200-56382800	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr15:56375200-56384600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr15:56375400-56385400	Weak transcription	Placenta	Placenta
12	chr15:56375600-56386200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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