Variant report

Variant	rs1937774
Chromosome Location	chr6:13100821-13100822
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:13100476..13102062-chr6:13103818..13105846,2	MCF-7	breast:
2	chr6:13100023..13102604-chr6:13117122..13119875,2	K562	blood:

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs11751831	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11753838	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11754531	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11755240	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11755663	0.80[CEU][hapmap]
rs11757001	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13215098	1.00[CEU][hapmap];0.82[CHB][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17323391	0.80[CEU][hapmap]
rs17375084	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1937772	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1937773	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35218818	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35654535	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4130157	1.00[CEU][hapmap];0.82[CHB][hapmap];0.88[CHD][hapmap];0.93[GIH][hapmap];0.93[MEX][hapmap];0.85[TSI][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4131857	0.87[CEU][hapmap]
rs4273675	0.82[AMR][1000 genomes]
rs4273676	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.93[MEX][hapmap];0.95[MKK][hapmap];0.97[TSI][hapmap];0.85[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4329096	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4389765	1.00[CEU][hapmap];0.82[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.88[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4537139	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4715065	0.93[CEU][hapmap]
rs4715077	1.00[CEU][hapmap];0.82[CHB][hapmap];0.88[CHD][hapmap];0.93[GIH][hapmap];0.93[MEX][hapmap];0.85[TSI][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4715088	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4715100	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4715101	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6458624	1.00[CEU][hapmap];0.82[CHB][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6907651	0.93[CEU][hapmap]
rs6912487	1.00[CEU][hapmap]
rs6918053	1.00[CEU][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.88[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6920793	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7451414	1.00[CHB][hapmap]
rs7755806	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7757631	1.00[CHB][hapmap]
rs7757960	1.00[CHB][hapmap]
rs7762659	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7762786	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7775760	1.00[CEU][hapmap];0.82[CHB][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7775901	0.86[GIH][hapmap]
rs9349440	1.00[CEU][hapmap]
rs9369762	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3521000	chr6:12561306-13128519	Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv3521001	chr6:12561306-13128519	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv817350	chr6:12922859-13137655	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv600992	chr6:12961922-13218549	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1937774	HIVEP1	cis	parietal	SCAN

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13078600-13101400	Weak transcription	Lung	lung
2	chr6:13080000-13102000	Weak transcription	Fetal Brain Female	brain
3	chr6:13080000-13105200	Weak transcription	Right Atrium	heart
4	chr6:13089000-13102000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr6:13096200-13101800	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr6:13096200-13103200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr6:13096400-13102200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr6:13097200-13106600	Weak transcription	Primary hematopoietic stem cells	blood
9	chr6:13097600-13101200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr6:13098000-13101400	Weak transcription	Pancreas	Pancrea
11	chr6:13098000-13102000	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr6:13098600-13102000	Weak transcription	Brain Substantia Nigra	brain
13	chr6:13099200-13114200	Weak transcription	Aorta	Aorta
14	chr6:13099400-13101400	Weak transcription	Brain Cingulate Gyrus	brain
15	chr6:13099800-13101400	Weak transcription	Left Ventricle	heart
16	chr6:13099800-13101400	Weak transcription	Right Ventricle	heart
17	chr6:13099800-13102200	Weak transcription	Brain Angular Gyrus	brain
18	chr6:13099800-13103000	Weak transcription	Fetal Heart	heart
19	chr6:13099800-13105800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr6:13099800-13105800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr6:13099800-13105800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr6:13100400-13101400	Weak transcription	Brain Anterior Caudate	brain

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