Variant report

Variant	rs10158595
Chromosome Location	chr1:169520364-169520365
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	chr1:169519013..169520404-chr1:169662765..169663989,4	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10919186	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.92[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12121164	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12143223	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13306344	0.96[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs13306345	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1894695	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1894696	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1988608	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2187952	0.81[CEU][hapmap]
rs2239851	0.85[GIH][hapmap]
rs2298909	1.00[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs2420375	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2420376	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2420377	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3766110	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3766111	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3766112	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3766113	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4524	0.81[GIH][hapmap]
rs4525	0.85[GIH][hapmap]
rs4656685	0.83[GIH][hapmap]
rs6016	0.81[GIH][hapmap]
rs6017	0.85[GIH][hapmap]
rs6662593	0.85[GIH][hapmap]
rs6672595	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9287092	0.81[EUR][1000 genomes]
rs929130	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9332595	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.97[LWK][hapmap];0.96[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9332596	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs9332600	0.85[GIH][hapmap]
rs9332619	0.85[GIH][hapmap]
rs9332620	0.85[GIH][hapmap]
rs9332627	0.85[GIH][hapmap]
rs9332643	0.80[GIH][hapmap]
rs970741	0.83[GIH][hapmap];0.80[LWK][hapmap]
rs974793	0.82[GIH][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10158595	DCAF6	cis	parietal	SCAN
rs10158595	C1orf129	cis	cerebellum	SCAN
rs10158595	CREG1	cis	parietal	SCAN
rs10158595	C1orf112	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169498400-169524000	Weak transcription	Placenta	Placenta
2	chr1:169500200-169526800	Weak transcription	Left Ventricle	heart
3	chr1:169505800-169534800	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr1:169506200-169542800	Weak transcription	Right Ventricle	heart
5	chr1:169507000-169530800	Strong transcription	Monocytes-CD14+_RO01746	blood
6	chr1:169513600-169525800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr1:169516000-169531400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr1:169517200-169530400	Strong transcription	Primary monocytes fromperipheralblood	blood
9	chr1:169518000-169531000	Strong transcription	HepG2	liver
10	chr1:169518400-169531000	Strong transcription	Liver	Liver
11	chr1:169519200-169523000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr1:169520000-169520600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr1:169520000-169523000	Weak transcription	Primary neutrophils fromperipheralblood	blood

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