Variant report

Variant	rs10759527
Chromosome Location	chr9:99996634-99996635
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10122063	0.85[CEU][hapmap]
rs10125198	0.85[CEU][hapmap]
rs10125824	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10435868	0.84[CEU][hapmap]
rs10448274	0.85[CEU][hapmap]
rs10759521	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs10759526	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10817273	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10817286	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs10981278	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10981297	0.95[JPT][hapmap]
rs10981890	0.81[CEU][hapmap]
rs10981919	0.95[CHB][hapmap]
rs10981931	0.81[CEU][hapmap];0.95[CHB][hapmap]
rs12685723	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs1542506	0.81[CEU][hapmap];0.95[CHB][hapmap]
rs1947717	0.88[CEU][hapmap]
rs2169456	0.85[CEU][hapmap]
rs2242187	0.88[CEU][hapmap]
rs2306097	0.88[CEU][hapmap]
rs3747489	0.85[CEU][hapmap]
rs3747493	0.88[CEU][hapmap]
rs3747496	0.88[CEU][hapmap]
rs4237189	0.85[CEU][hapmap]
rs4313271	0.88[CEU][hapmap]
rs4366181	0.88[CEU][hapmap]
rs4523385	0.84[CEU][hapmap]
rs4742689	0.95[CHB][hapmap]
rs4743076	0.84[CEU][hapmap]
rs4743077	0.88[CEU][hapmap]
rs4743084	0.85[CEU][hapmap]
rs4743087	0.95[CHB][hapmap]
rs4743088	0.84[CEU][hapmap];0.95[CHB][hapmap]
rs6478025	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6478095	0.88[CEU][hapmap]
rs7858579	0.96[AFR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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:6)

SNP	Gene	Cis/trans	Tissue	Source
rs10759527	RP11-520B13.4	cis	Esophagus Muscularis	GTEx
rs10759527	VN1R51P	cis	Thyroid	GTEx
rs10759527	CCDC180	cis	Artery Tibial	GTEx
rs10759527	ANKRD18CP	cis	Thyroid	GTEx
rs10759527	RP11-498P14.5	cis	lung	GTEx
rs10759527	RP11-520B13.4	cis	Thyroid	GTEx

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:99992200-99999600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr9:99994600-99998200	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr9:99994600-99998400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr9:99994800-99999000	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr9:99995000-99998400	Weak transcription	Dnd41	blood
6	chr9:99995600-99999000	Weak transcription	HepG2	liver
7	chr9:99995600-99999600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr9:99995600-99999800	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr9:99995800-99997400	Weak transcription	K562	blood
10	chr9:99995800-99998200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr9:99995800-99998400	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr9:99995800-99998400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr9:99995800-99999000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr9:99995800-99999600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr9:99995800-99999600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr9:99996000-99999000	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr9:99996000-99999600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr9:99996200-99999200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr9:99996600-99999000	Weak transcription	HUES48 Cell Line	embryonic stem cell

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