Variant report

Variant	rs10962256
Chromosome Location	chr9:16019790-16019791
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 175 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:171)

rs_ID	r²[population]
rs10733306	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10733307	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10738417	0.85[CHB][hapmap];0.81[JPT][hapmap]
rs10738418	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10738419	0.92[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];0.91[JPT][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10738420	0.96[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10738421	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10738422	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10738423	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10738424	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10738430	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10756714	0.85[CHB][hapmap]
rs10756715	0.81[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap]
rs10756720	0.85[CHB][hapmap];0.88[CHD][hapmap];0.81[JPT][hapmap];0.88[TSI][hapmap]
rs10756722	0.88[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap]
rs10756723	0.85[AFR][1000 genomes]
rs10756724	0.96[CEU][hapmap];0.84[CHB][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10756725	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10756726	1.00[ASW][hapmap];0.88[CEU][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];0.91[JPT][hapmap];1.00[LWK][hapmap];0.86[TSI][hapmap];0.86[AFR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10756728	0.82[ASW][hapmap];0.92[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];0.91[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10756729	0.82[ASW][hapmap];0.92[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10756730	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10756731	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10756733	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10756734	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10756735	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10756736	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10756739	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10756742	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10810461	0.82[ASW][hapmap];0.85[CHB][hapmap];0.85[CHD][hapmap];0.81[JPT][hapmap];1.00[LWK][hapmap]
rs10810462	0.85[CEU][hapmap];0.85[CHB][hapmap]
rs10810479	0.88[CEU][hapmap];0.89[CHB][hapmap]
rs10810483	0.88[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap]
rs10810484	0.82[ASW][hapmap];0.88[CEU][hapmap];0.90[CHB][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];0.88[TSI][hapmap]
rs10810485	0.88[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10810486	0.88[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap]
rs10810487	0.84[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap]
rs10810488	1.00[ASW][hapmap];0.88[CEU][hapmap];0.85[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];0.86[JPT][hapmap];1.00[LWK][hapmap];0.88[TSI][hapmap]
rs10810494	1.00[ASW][hapmap];0.88[CEU][hapmap];0.87[CHD][hapmap];0.95[GIH][hapmap];0.81[TSI][hapmap];0.86[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs10810497	0.86[AFR][1000 genomes]
rs10810498	0.86[AFR][1000 genomes]
rs10810501	0.92[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10810502	0.82[ASW][hapmap];0.92[CEU][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];0.91[JPT][hapmap];1.00[LWK][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10810503	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10810505	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10810506	0.92[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10810507	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10810508	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10810509	1.00[ASW][hapmap];0.92[CEU][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];0.91[JPT][hapmap];1.00[LWK][hapmap];0.86[TSI][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10810510	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10810514	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10810517	0.82[EUR][1000 genomes]
rs10810518	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10810519	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10810520	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10810521	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10810522	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10810523	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10810524	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10810526	0.85[CHB][hapmap];0.90[JPT][hapmap];0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10810528	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10962225	0.88[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap]
rs10962227	0.88[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap]
rs10962244	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11788695	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12379234	0.87[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap]
rs12379466	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1328269	0.83[ASN][1000 genomes]
rs1328273	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1328274	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1328275	0.82[EUR][1000 genomes]
rs1328276	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1328277	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1328278	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1328279	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1328280	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1328283	0.92[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap]
rs1328296	0.93[AFR][1000 genomes]
rs1341732	0.90[CHB][hapmap]
rs1359951	0.85[ASN][1000 genomes]
rs1359952	0.80[CHB][hapmap]
rs1359954	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1359957	0.87[AFR][1000 genomes]
rs1410444	0.88[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.85[AMR][1000 genomes]
rs1410450	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1410451	0.90[CHB][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1590749	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1590750	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1887664	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1887666	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1887667	0.80[EUR][1000 genomes]
rs1887668	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1891212	0.81[TSI][hapmap]
rs1927698	0.88[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap]
rs1984246	0.81[TSI][hapmap]
rs2017943	0.83[ASN][1000 genomes]
rs2026661	0.93[AFR][1000 genomes]
rs2149233	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2225181	0.80[CHB][hapmap]
rs2225182	0.90[CHB][hapmap];0.91[JPT][hapmap];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2382551	0.82[EUR][1000 genomes]
rs2891003	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2987009	0.80[CHB][hapmap];0.86[JPT][hapmap]
rs2987010	0.86[JPT][hapmap]
rs2987011	0.80[CHB][hapmap];0.86[JPT][hapmap]
rs2987012	0.80[CHB][hapmap];0.86[JPT][hapmap]
rs2987013	0.80[CHB][hapmap];0.86[JPT][hapmap]
rs2987014	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs2987023	0.81[ASN][1000 genomes]
rs2987039	0.84[ASN][1000 genomes]
rs2987041	0.84[ASN][1000 genomes]
rs2987042	0.84[ASN][1000 genomes]
rs2987079	0.83[ASN][1000 genomes]
rs2987081	0.84[ASN][1000 genomes]
rs2987086	0.84[ASN][1000 genomes]
rs2987096	0.83[ASN][1000 genomes]
rs2987099	0.88[ASN][1000 genomes]
rs3008666	0.80[CHB][hapmap];0.86[JPT][hapmap]
rs3008681	0.80[CHB][hapmap];0.81[JPT][hapmap]
rs3008710	0.88[ASN][1000 genomes]
rs3008715	0.88[ASN][1000 genomes]
rs3008717	0.88[ASN][1000 genomes]
rs3008719	0.84[ASN][1000 genomes]
rs3008723	0.84[ASN][1000 genomes]
rs3008726	0.84[ASN][1000 genomes]
rs3008727	0.84[ASN][1000 genomes]
rs3008728	0.84[ASN][1000 genomes]
rs3008729	0.83[ASN][1000 genomes]
rs3008730	0.84[ASN][1000 genomes]
rs3008732	0.82[ASN][1000 genomes]
rs3008747	0.80[CHB][hapmap];0.86[JPT][hapmap]
rs3008748	0.80[CHB][hapmap];0.86[JPT][hapmap]
rs3008749	0.80[CHB][hapmap];0.86[JPT][hapmap]
rs3008753	0.80[CHB][hapmap];0.86[JPT][hapmap]
rs3824502	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4247294	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4472620	0.88[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.85[AMR][1000 genomes]
rs4475627	0.83[ASN][1000 genomes]
rs4582646	0.88[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap]
rs4740628	0.81[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap]
rs4740629	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4740631	0.80[EUR][1000 genomes]
rs4740632	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4741545	0.82[ASW][hapmap];1.00[LWK][hapmap]
rs4741546	1.00[LWK][hapmap]
rs4741548	0.84[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap]
rs4741552	1.00[ASW][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];0.85[GIH][hapmap];0.91[JPT][hapmap];1.00[LWK][hapmap];0.81[TSI][hapmap];0.86[AFR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4741553	0.92[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.86[AFR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4741557	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4741558	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4741561	0.93[AFR][1000 genomes]
rs4961433	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4961526	0.86[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs7027202	0.81[TSI][hapmap]
rs7040690	0.80[EUR][1000 genomes]
rs723756	0.84[ASN][1000 genomes]
rs735962	0.80[CHB][hapmap]
rs752489	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs752490	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs769151	1.00[ASW][hapmap];0.88[CEU][hapmap];0.87[CHD][hapmap];0.95[GIH][hapmap];1.00[LWK][hapmap];0.86[TSI][hapmap];0.86[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs7873925	0.83[EUR][1000 genomes]
rs9406581	0.84[ASN][1000 genomes]
rs943787	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs943788	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs943789	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs961117	0.88[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.80[AMR][1000 genomes]
rs9792412	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9969685	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9969791	0.92[CEU][hapmap];0.85[CHB][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9969816	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9969817	0.88[EUR][1000 genomes];0.83[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	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv892637	chr9:15926508-16060746	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv949463	chr9:15970668-16377360	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv831521	chr9:15974174-16106565	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10962256	C9orf93	cis	cerebellum	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16018200-16028600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr9:16018400-16022400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr9:16019600-16022400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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