Variant report

Variant	rs17108128
Chromosome Location	chr14:79188468-79188469
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10150558	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11159377	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.87[TSI][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11159378	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.84[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11628562	0.90[CEU][hapmap]
rs11845056	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11845058	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.84[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12101009	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12432000	1.00[CHB][hapmap];0.82[CHD][hapmap];0.85[JPT][hapmap];0.85[MEX][hapmap];0.87[TSI][hapmap];0.98[ASN][1000 genomes]
rs12432585	0.81[CEU][hapmap]
rs12432833	0.81[CEU][hapmap]
rs12434689	0.88[CHB][hapmap]
rs17108125	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.84[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1863030	0.90[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];0.93[MEX][hapmap];0.87[TSI][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2081340	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55834264	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57125846	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7143966	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs72685424	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8005048	1.00[ASN][1000 genomes]
rs8013671	0.81[CHB][hapmap]
rs8013958	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs970465	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17108128	FCF1	cis	parietal	SCAN
rs17108128	C14orf174	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:79176000-79189000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr14:79176600-79188600	Weak transcription	Brain Anterior Caudate	brain
3	chr14:79181600-79188600	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr14:79187200-79190000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr14:79187400-79190000	Enhancers	Brain Germinal Matrix	brain
6	chr14:79187600-79189200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr14:79187600-79190000	Enhancers	Brain Hippocampus Middle	brain
8	chr14:79187600-79192400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr14:79187800-79189400	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr14:79188000-79188600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr14:79188400-79188800	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr14:79188400-79188800	Active TSS	Rectal Mucosa Donor 29	rectum
13	chr14:79188400-79189200	Enhancers	Brain Cingulate Gyrus	brain
14	chr14:79188400-79189200	Enhancers	Brain Substantia Nigra	brain
15	chr14:79188400-79189600	Enhancers	Brain Angular Gyrus	brain

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