Variant report

Variant	rs16942061
Chromosome Location	chr15:60336476-60336477
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	chr15:60336258..60337887-chr15:60346739..60349719,2	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10450962	0.80[EUR][1000 genomes]
rs10519023	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10851670	0.93[EUR][1000 genomes]
rs1108436	1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs1559773	1.00[EUR][1000 genomes]
rs1648246	1.00[EUR][1000 genomes]
rs1680231	1.00[EUR][1000 genomes]
rs16942041	1.00[YRI][hapmap]
rs16942049	1.00[EUR][1000 genomes]
rs16942101	0.80[EUR][1000 genomes]
rs16942152	1.00[GIH][hapmap]
rs16942154	1.00[GIH][hapmap]
rs16942155	1.00[GIH][hapmap]
rs16942157	1.00[GIH][hapmap]
rs16942159	1.00[GIH][hapmap]
rs2414658	0.93[EUR][1000 genomes]
rs2554006	1.00[EUR][1000 genomes]
rs2899653	1.00[EUR][1000 genomes]
rs2899654	1.00[EUR][1000 genomes]
rs335801	0.80[EUR][1000 genomes]
rs335810	0.80[EUR][1000 genomes]
rs57020611	1.00[EUR][1000 genomes]
rs59280158	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61628415	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7171231	0.93[EUR][1000 genomes]
rs73427232	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8023442	1.00[EUR][1000 genomes]
rs986694	0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904280	chr15:60042722-60524025	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv833028	chr15:60227565-60418112	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv569607	chr15:60303749-60347452	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1043235	chr15:60318001-60350625	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1044105	chr15:60318001-60354519	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1038620	chr15:60319463-60349494	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv542404	chr15:60319463-60349494	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv1045741	chr15:60323323-60350625	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:60334000-60344200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr15:60335600-60336600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr15:60335600-60337600	Enhancers	Thymus	Thymus
4	chr15:60335800-60338000	Enhancers	HUES6 Cell Line	embryonic stem cell
5	chr15:60336200-60337200	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr15:60336200-60337200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr15:60336200-60337400	Enhancers	H9 Cell Line	embryonic stem cell
8	chr15:60336200-60337400	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr15:60336200-60337400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr15:60336200-60337400	Enhancers	Fetal Thymus	thymus
11	chr15:60336200-60337600	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr15:60336200-60337600	Flanking Active TSS	Dnd41	blood
13	chr15:60336200-60338200	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr15:60336400-60337200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
15	chr15:60336400-60337200	Enhancers	Primary T helper naive cells from peripheral blood	blood
16	chr15:60336400-60337400	Enhancers	H1 Cell Line	embryonic stem cell
17	chr15:60336400-60337400	Enhancers	iPS-20b Cell Line	embryonic stem cell
18	chr15:60336400-60337600	Enhancers	iPS-15b Cell Line	embryonic stem cell
19	chr15:60336400-60337600	Enhancers	Primary T cells from cord blood	blood
20	chr15:60336400-60337800	Enhancers	Primary T helper naive cells fromperipheralblood	blood

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