Variant report

Variant	rs4845045
Chromosome Location	chr1:210707065-210707066
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	chr1:210542669..210544192-chr1:210705476..210708034,2	MCF-7	breast:
2	chr1:210701301..210703665-chr1:210706894..210708903,2	MCF-7	breast:

Extended variants
information (count: 62 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10779535	1.00[CEU][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10779536	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10779537	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10863842	0.87[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs10863843	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11119527	0.94[CHB][hapmap];0.87[CHD][hapmap];0.91[ASN][1000 genomes]
rs11119530	0.84[EUR][1000 genomes]
rs11119533	0.83[CEU][hapmap];0.86[TSI][hapmap];0.84[EUR][1000 genomes]
rs11119534	0.84[CEU][hapmap];0.83[TSI][hapmap];0.84[EUR][1000 genomes]
rs11119535	0.94[CHB][hapmap];0.95[CHD][hapmap];0.86[JPT][hapmap];0.93[ASN][1000 genomes]
rs11119536	0.88[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs11119537	0.92[ASW][hapmap];1.00[CEU][hapmap];0.88[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11119539	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12029929	0.95[ASN][1000 genomes]
rs12033957	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12034950	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs12072976	0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12075603	0.91[ASN][1000 genomes]
rs12079415	0.91[JPT][hapmap]
rs12122988	0.84[EUR][1000 genomes]
rs12125970	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12126012	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12126287	0.84[EUR][1000 genomes]
rs12127018	0.84[EUR][1000 genomes]
rs12127170	0.83[CEU][hapmap];0.84[EUR][1000 genomes]
rs12127932	0.84[EUR][1000 genomes]
rs12129347	0.84[CEU][hapmap];0.83[TSI][hapmap];0.81[EUR][1000 genomes]
rs12129382	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs12136151	0.87[EUR][1000 genomes]
rs12403873	0.87[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs12404948	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12405221	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17016393	0.90[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs17016397	0.89[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17016400	0.91[JPT][hapmap]
rs17188337	0.84[EUR][1000 genomes]
rs17260515	0.87[CEU][hapmap];0.84[EUR][1000 genomes]
rs17260522	0.84[CEU][hapmap];0.86[TSI][hapmap];0.84[EUR][1000 genomes]
rs17260529	0.84[CEU][hapmap];0.86[TSI][hapmap];0.84[EUR][1000 genomes]
rs1892471	0.83[EUR][1000 genomes]
rs1892472	0.83[EUR][1000 genomes]
rs1892473	0.83[EUR][1000 genomes]
rs2069151	1.00[CEU][hapmap];0.82[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.98[TSI][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2069153	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2069154	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2069155	0.87[CHD][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs4845044	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4845046	0.94[CHB][hapmap];0.97[CHD][hapmap];0.86[JPT][hapmap];0.95[ASN][1000 genomes]
rs4845047	0.85[ASN][1000 genomes]
rs4845048	0.90[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs4845049	0.90[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs4845052	0.86[JPT][hapmap]
rs58599805	0.81[EUR][1000 genomes]
rs59289142	0.83[EUR][1000 genomes]
rs59525134	0.84[EUR][1000 genomes]
rs61828096	0.81[EUR][1000 genomes]
rs61828123	0.84[EUR][1000 genomes]
rs6680553	0.83[CEU][hapmap];0.80[EUR][1000 genomes]
rs7551813	0.81[EUR][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	nsv873148	chr1:210665583-210994339	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv549106	chr1:210698719-210736508	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1011702	chr1:210706323-210739030	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4845045	OR6C76	trans	parietal	SCAN
rs4845045	OR8G5	trans	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:210674400-210719600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:210680600-210731000	Weak transcription	HSMM	muscle
3	chr1:210700800-210708800	Weak transcription	Fetal Muscle Leg	muscle
4	chr1:210700800-210709200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr1:210703200-210708200	Weak transcription	HSMMtube	muscle
6	chr1:210704000-210709400	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr1:210704200-210708600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr1:210704200-210708800	Weak transcription	Brain Germinal Matrix	brain
9	chr1:210704400-210708400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr1:210704400-210708600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr1:210705000-210708600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr1:210706600-210708800	Weak transcription	Fetal Heart	heart

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