Variant report

Variant	rs2901505
Chromosome Location	chr10:93501469-93501470
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:93345296..93347976-chr10:93501392..93503311,2	K562	blood:
2	chr10:93499838..93502353-chr10:93502549..93505542,2	MCF-7	breast:
3	chr10:93168502..93170905-chr10:93500372..93503062,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165338	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10509634	0.88[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10509636	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs10748566	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10786012	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10786014	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10786019	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10881951	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10881958	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10881960	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10881966	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10881967	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10881969	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10881971	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10881975	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10881980	0.83[EUR][1000 genomes]
rs10881981	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10881985	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10881989	0.81[CEU][hapmap]
rs11186660	0.93[ASN][1000 genomes]
rs11186664	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11186665	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11186667	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11186668	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11186697	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12220444	0.83[EUR][1000 genomes]
rs12221087	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12412538	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12413090	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12413256	0.83[EUR][1000 genomes]
rs12782935	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1341263	0.88[CEU][hapmap];0.80[EUR][1000 genomes]
rs1417254	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1418160	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1418162	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1539040	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1592050	1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[YRI][hapmap];0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1856927	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1857060	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1935029	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2050913	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2066275	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2153654	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2297960	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2421692	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3758499	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4244929	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4390259	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4933219	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61874731	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs61876144	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7082350	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7087365	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7897499	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7906805	0.83[EUR][1000 genomes]
rs7912927	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7913826	0.83[EUR][1000 genomes]
rs7913999	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7918686	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7919141	0.92[CEU][hapmap];0.81[AMR][1000 genomes]
rs7921354	0.83[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	esv3420401	chr10:93497972-93502370	Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv975785	chr10:93501141-93525212	Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs2901505	TNKS2	cis	Esophagus Mucosa	GTEx
rs2901505	TNKS2-AS1	cis	Heart Left Ventricle	GTEx
rs2901505	TNKS2	cis	Thyroid	GTEx
rs2901505	TNKS2	cis	Esophagus Muscularis	GTEx
rs2901505	TNKS2	cis	Skin Sun Exposed Lower leg	GTEx
rs2901505	TNKS2	cis	Nerve Tibial	GTEx

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93500600-93504600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr10:93500800-93501600	Enhancers	Fetal Lung	lung
3	chr10:93500800-93502000	Enhancers	Liver	Liver
4	chr10:93501000-93501800	Enhancers	Fetal Stomach	stomach
5	chr10:93501200-93505200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr10:93501400-93502400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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