Variant report

Variant	rs17354968
Chromosome Location	chr10:117677134-117677135
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	chr10:117667036..117669073-chr10:117674958..117677197,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000107518	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10490986	0.82[CHB][hapmap];0.85[EUR][1000 genomes]
rs10490987	0.84[CEU][hapmap];0.82[CHB][hapmap];0.87[EUR][1000 genomes]
rs10490988	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];0.90[TSI][hapmap];0.81[EUR][1000 genomes]
rs10787611	0.82[EUR][1000 genomes]
rs10787612	0.84[GIH][hapmap];0.81[TSI][hapmap];0.82[EUR][1000 genomes]
rs1476795	1.00[CHD][hapmap]
rs1541466	1.00[CHD][hapmap]
rs1547947	1.00[CHD][hapmap]
rs17093700	1.00[CHD][hapmap]
rs17093786	0.84[CEU][hapmap];0.82[CHB][hapmap];0.89[EUR][1000 genomes]
rs17094083	1.00[ASW][hapmap]
rs17269525	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs17269882	1.00[ASW][hapmap];0.84[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.93[TSI][hapmap];0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17269917	0.83[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17270580	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];0.86[MEX][hapmap];0.97[TSI][hapmap];0.87[EUR][1000 genomes]
rs17270699	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];0.86[MEX][hapmap];0.90[TSI][hapmap];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17354680	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs1860402	1.00[CHD][hapmap]
rs2024179	1.00[CHD][hapmap]
rs2054533	0.84[CEU][hapmap];0.84[GIH][hapmap];0.82[TSI][hapmap];0.83[EUR][1000 genomes]
rs2249295	0.84[CEU][hapmap];0.87[CHD][hapmap];0.83[GIH][hapmap];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2254619	1.00[CHD][hapmap]
rs2263622	0.80[EUR][1000 genomes]
rs2615874	0.87[CHD][hapmap]
rs2615880	0.83[EUR][1000 genomes]
rs2615884	0.85[CHD][hapmap];0.84[GIH][hapmap];0.80[TSI][hapmap];0.82[EUR][1000 genomes]
rs2620959	1.00[CHB][hapmap];0.84[EUR][1000 genomes]
rs2620960	0.84[CEU][hapmap];0.82[EUR][1000 genomes]
rs2620961	0.84[GIH][hapmap];0.84[TSI][hapmap];0.80[EUR][1000 genomes]
rs2860341	1.00[CHD][hapmap]
rs2901061	1.00[CHD][hapmap]
rs2901094	1.00[CHD][hapmap]
rs2960641	1.00[CHD][hapmap]
rs2960674	1.00[CHD][hapmap]
rs2960686	1.00[CHD][hapmap]
rs2960689	1.00[CHD][hapmap]
rs3781514	1.00[ASW][hapmap]
rs55782493	0.87[EUR][1000 genomes]
rs55917752	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs56045626	0.83[EUR][1000 genomes]
rs57211763	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs58744761	0.87[EUR][1000 genomes]
rs61319078	0.89[EUR][1000 genomes]
rs67778998	0.85[EUR][1000 genomes]
rs67945700	0.85[EUR][1000 genomes]
rs72832833	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72832834	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72832836	0.88[EUR][1000 genomes]
rs73365760	0.87[EUR][1000 genomes]
rs8416	1.00[ASW][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17354968	NANOS1	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:117657000-117677800	Weak transcription	HSMM	muscle
2	chr10:117658200-117677600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr10:117658200-117695400	Weak transcription	Aorta	Aorta

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