Variant report

Variant	rs3108855
Chromosome Location	chr8:110702813-110702814
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:110656100..110658662-chr8:110702004..110704480,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000248050	Chromatin interaction
ENSG00000147642	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10100734	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13254530	0.81[CHB][hapmap]
rs13270118	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1954713	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs2022930	1.00[CEU][hapmap];0.94[GIH][hapmap];0.92[MEX][hapmap];0.81[TSI][hapmap]
rs2154656	0.86[CEU][hapmap];0.82[EUR][1000 genomes]
rs2703383	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs2844243	0.82[EUR][1000 genomes]
rs2844250	1.00[CEU][hapmap]
rs3108830	0.82[EUR][1000 genomes]
rs3108834	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3108835	0.85[EUR][1000 genomes]
rs3108836	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3108841	0.89[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap];0.85[EUR][1000 genomes]
rs3108867	0.82[EUR][1000 genomes]
rs3133920	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3133923	0.82[EUR][1000 genomes]
rs3133931	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3133932	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3133933	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3133938	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3133939	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3134316	0.82[EUR][1000 genomes]
rs3134318	0.82[EUR][1000 genomes]
rs3134326	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3134328	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3134329	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3134332	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3134333	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3134335	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3134336	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3134337	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3134338	1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34147744	0.82[EUR][1000 genomes]
rs34649979	0.82[EUR][1000 genomes]
rs35642643	0.82[EUR][1000 genomes]
rs6469274	1.00[CEU][hapmap];0.89[GIH][hapmap];0.81[TSI][hapmap]
rs71526740	0.82[EUR][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs3108855	PKHD1L1	cis	multi-tissue	Pritchard
rs3108855	EIF3E	cis	parietal	SCAN
rs3108855	EBAG9	cis	lymphoblastoid	seeQTL
rs3108855	SYBU	cis	parietal	SCAN
rs3108855	PKHD1L1	cis	lymphoblastoid	seeQTL

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:110701600-110704000	Active TSS	Fetal Brain Female	brain
2	chr8:110701800-110705600	Enhancers	Fetal Brain Male	brain
3	chr8:110702400-110703000	Active TSS	Stomach Smooth Muscle	stomach
4	chr8:110702400-110703200	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr8:110702400-110704600	Active TSS	Duodenum Mucosa	Duodenum
6	chr8:110702600-110703000	Bivalent Enhancer	Fetal Intestine Small	intestine
7	chr8:110702600-110703200	Bivalent/Poised TSS	HepG2	liver
8	chr8:110702600-110704000	Active TSS	Brain Anterior Caudate	brain
9	chr8:110702600-110704400	Active TSS	Brain Angular Gyrus	brain
10	chr8:110702600-110704400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
11	chr8:110702600-110704600	Active TSS	Pancreatic Islets	Pancreatic Islet
12	chr8:110702600-110705000	Active TSS	Brain Inferior Temporal Lobe	brain
13	chr8:110702800-110703200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr8:110702800-110703200	Active TSS	Brain Hippocampus Middle	brain
15	chr8:110702800-110704800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell

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