Variant report

Variant	rs34592472
Chromosome Location	chr9:99947305-99947306
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10521028	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10980890	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10980955	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10980992	0.88[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs10981005	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981158	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10981161	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12377244	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12378555	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12550862	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12555636	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13287095	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16905669	0.92[EUR][1000 genomes]
rs1857085	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1986462	0.96[EUR][1000 genomes]
rs34868501	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35241252	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35285539	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4014782	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4128763	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4463540	0.86[EUR][1000 genomes]
rs4743061	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4743062	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs56860287	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58003970	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7018753	0.97[EUR][1000 genomes]
rs7021506	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7848439	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7851025	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7860303	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7865758	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

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	nsv972432	chr9:99874607-99958095	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv931946	chr9:99895658-100005099	Bivalent/Poised TSS Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv893607	chr9:99906545-99996548	Enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv893608	chr9:99906545-100005128	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs34592472	VN1R51P	cis	Thyroid	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:99911600-99957600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr9:99921400-99948800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr9:99934400-99951600	Strong transcription	H1 Cell Line	embryonic stem cell
4	chr9:99934400-99957800	Strong transcription	HUES48 Cell Line	embryonic stem cell
5	chr9:99934800-99957400	Strong transcription	HUES64 Cell Line	embryonic stem cell
6	chr9:99936400-99953200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
7	chr9:99936600-99957600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
8	chr9:99936800-99951800	Strong transcription	HUES6 Cell Line	embryonic stem cell
9	chr9:99942000-99951200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr9:99942800-99962600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr9:99946000-99948000	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr9:99947200-99949200	Strong transcription	iPS-15b Cell Line	embryonic stem cell
13	chr9:99947200-99951600	Strong transcription	ES-I3 Cell Line	embryonic stem cell

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