Variant report

Variant	rs3176628
Chromosome Location	chr9:100460537-100460538
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	NFIC	chr9:100459889-100460696	ECC-1	luminal epithelium:	n/a	chr9:100460328-100460345
2	MXI1	chr9:100457686-100460675	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr9:100457791..100462084-chr9:100462112..100466505,5	K562	blood:
2	chr9:100393846..100397319-chr9:100457855..100461087,4	MCF-7	breast:
3	chr9:100458946..100460891-chr9:100746178..100747740,2	MCF-7	breast:

Variant related genes	Relation type
XPA	TF binding region
ENSG00000266608	TF binding region
KRT18P13	TF binding region
ENSG00000136937	Chromatin interaction
ENSG00000136938	Chromatin interaction
ENSG00000136925	Chromatin interaction
ENSG00000266608	Chromatin interaction

Extended variants
information (count: 204 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:201)

rs_ID	r²[population]
rs10119687	0.90[CHD][hapmap];0.84[ASN][1000 genomes]
rs10123546	0.82[ASN][1000 genomes]
rs1034098	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs1034099	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[ASN][1000 genomes]
rs1034100	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.82[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs10512254	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10983424	0.81[ASN][1000 genomes]
rs10983428	0.81[ASN][1000 genomes]
rs1116208	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs1126122	0.87[ASN][1000 genomes]
rs12350221	0.81[ASN][1000 genomes]
rs12350946	0.81[ASN][1000 genomes]
rs14066	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs1411344	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs1543636	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs16922319	0.82[ASN][1000 genomes]
rs16923033	0.82[YRI][hapmap];0.81[AFR][1000 genomes]
rs16923041	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs16923112	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16923269	1.00[JPT][hapmap];0.89[YRI][hapmap];0.97[ASN][1000 genomes]
rs16923677	0.84[ASN][1000 genomes]
rs16923815	0.81[ASN][1000 genomes]
rs1813875	0.81[AFR][1000 genomes]
rs1928641	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs1928642	0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs2282066	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs2282067	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs2297155	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2297156	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2297157	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2297158	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2297159	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2297160	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2297161	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2401598	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2401635	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2668794	0.82[JPT][hapmap]
rs2668795	0.82[JPT][hapmap]
rs2668797	0.82[JPT][hapmap]
rs2805783	0.82[JPT][hapmap]
rs2808681	0.82[JPT][hapmap]
rs28376250	0.81[ASN][1000 genomes]
rs28403588	0.89[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs28403589	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs3176623	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176624	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176626	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176629	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176634	0.94[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3176635	0.86[AFR][1000 genomes]
rs3176637	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176638	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176642	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176644	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176645	1.00[ASN][1000 genomes]
rs3176651	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176654	1.00[ASN][1000 genomes]
rs3176657	0.83[AFR][1000 genomes]
rs3176659	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176665	1.00[ASN][1000 genomes]
rs3176668	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176669	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176670	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176673	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176675	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176682	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176685	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176687	0.86[AFR][1000 genomes]
rs3176688	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176694	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176698	1.00[ASN][1000 genomes]
rs3176700	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176703	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176706	0.86[AFR][1000 genomes]
rs3176708	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176711	0.86[AFR][1000 genomes]
rs3176712	0.86[AFR][1000 genomes]
rs3176714	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176720	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176721	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176723	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176724	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176726	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176728	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3176734	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs3176735	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176736	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176739	1.00[ASN][1000 genomes]
rs3176740	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176744	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176746	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176747	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176751	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176752	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs3176758	1.00[ASN][1000 genomes]
rs3176759	1.00[ASN][1000 genomes]
rs3750368	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs3750369	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs3750370	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs3763606	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[ASN][1000 genomes]
rs3802472	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs3802473	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs3802474	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs3824494	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs3897841	0.82[ASN][1000 genomes]
rs41274252	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs4480232	0.84[ASN][1000 genomes]
rs55966848	0.91[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs56052819	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56060429	0.91[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs56164437	0.82[ASN][1000 genomes]
rs56200116	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57188235	0.87[ASN][1000 genomes]
rs57598118	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57940370	1.00[ASN][1000 genomes]
rs58146508	0.91[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs58387091	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs58390229	0.87[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs58637778	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs58878935	0.93[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs58933803	0.83[ASN][1000 genomes]
rs59205756	0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs59354722	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs59478543	0.88[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs59662386	0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs59775587	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs59791764	0.91[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs59992945	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs60026475	0.90[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs60028882	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs60055057	0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs60359353	0.87[ASN][1000 genomes]
rs60463150	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60596698	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs60653177	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs60821994	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61047578	0.81[ASN][1000 genomes]
rs61152667	0.83[ASN][1000 genomes]
rs61208411	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61221847	0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs61276200	0.91[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs61440789	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61445476	0.91[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs6478304	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs7018546	0.91[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs7021377	0.86[AFR][1000 genomes]
rs7025403	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.90[MEX][hapmap];1.00[MKK][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs7036604	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs7045160	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7049183	0.91[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs7341850	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs73498324	0.93[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs73498329	0.81[AFR][1000 genomes]
rs73498332	0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs73498338	0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs73498347	0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs73498348	0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs73498355	0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs73498358	0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs73498359	0.81[AFR][1000 genomes]
rs73498362	0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs73498365	0.86[AFR][1000 genomes]
rs73498377	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73498380	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73498381	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73498394	1.00[ASN][1000 genomes]
rs73500307	0.86[AFR][1000 genomes]
rs73500321	0.86[AFR][1000 genomes]
rs73500325	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73500326	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73500328	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73500392	0.84[AFR][1000 genomes]
rs73500393	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73500395	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73500396	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73500397	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73500398	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73500400	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73502204	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73502208	0.82[AFR][1000 genomes]
rs73502210	0.82[AFR][1000 genomes]
rs73552509	0.83[ASN][1000 genomes]
rs73552512	0.83[ASN][1000 genomes]
rs73552520	0.88[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs73554629	0.83[ASN][1000 genomes]
rs73554631	0.88[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs73554641	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs73554646	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs73554652	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs7850986	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7853179	0.81[ASW][hapmap];0.86[LWK][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes]
rs7856316	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs7857174	0.93[ASW][hapmap];0.87[GIH][hapmap];0.89[LWK][hapmap];0.91[MKK][hapmap]
rs7859684	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs7859979	0.93[ASW][hapmap];0.87[GIH][hapmap];0.89[LWK][hapmap];0.91[MKK][hapmap]
rs7862356	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7866961	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs7867046	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs7869683	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs953198	0.82[JPT][hapmap]
rs9539	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893610	chr9:100324086-100496160	Active TSS Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv1043753	chr9:100458109-100599265	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv972792	chr9:100460351-100466365	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs3176628	XPA	cis	lymphoblastoid	seeQTL
rs3176628	TSTD2	cis	lymphoblastoid	seeQTL
rs3176628	TMOD1	cis	lymphoblastoid	seeQTL

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100459800-100460600	Flanking Active TSS	Dnd41	blood
2	chr9:100459800-100466400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr9:100460000-100460600	Flanking Active TSS	HepG2	liver
4	chr9:100460000-100461200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr9:100460000-100461600	Enhancers	HMEC	breast
6	chr9:100460000-100465400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr9:100460200-100460600	Enhancers	Primary B cells from peripheral blood	blood
8	chr9:100460200-100460600	Enhancers	Primary hematopoietic stem cells	blood
9	chr9:100460200-100460600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
10	chr9:100460200-100460600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
11	chr9:100460200-100460600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
12	chr9:100460200-100460600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr9:100460200-100460600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr9:100460200-100460600	Enhancers	Brain Hippocampus Middle	brain
15	chr9:100460200-100460600	Enhancers	Brain Inferior Temporal Lobe	brain
16	chr9:100460200-100460600	Enhancers	Duodenum Mucosa	Duodenum
17	chr9:100460200-100460600	Enhancers	Pancreatic Islets	Pancreatic Islet
18	chr9:100460200-100460800	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr9:100460200-100460800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
20	chr9:100460200-100460800	Enhancers	K562	blood
21	chr9:100460200-100461200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr9:100460200-100461200	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr9:100460200-100461600	Enhancers	Primary B cells from cord blood	blood
24	chr9:100460200-100461600	Enhancers	Primary T helper cells fromperipheralblood	blood
25	chr9:100460200-100462600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr9:100460200-100462600	Enhancers	Primary monocytes fromperipheralblood	blood
27	chr9:100460200-100465400	Weak transcription	HSMM	muscle
28	chr9:100460400-100460600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
29	chr9:100460400-100460600	Enhancers	Primary T cells from cord blood	blood
30	chr9:100460400-100460600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
31	chr9:100460400-100460600	Enhancers	Brain Anterior Caudate	brain
32	chr9:100460400-100460600	Enhancers	Brain Substantia Nigra	brain
33	chr9:100460400-100460600	Enhancers	Fetal Kidney	kidney
34	chr9:100460400-100460600	Enhancers	A549	lung
35	chr9:100460400-100460800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
36	chr9:100460400-100460800	Enhancers	Primary T helper naive cells from peripheral blood	blood
37	chr9:100460400-100461000	Weak transcription	NHEK	skin
38	chr9:100460400-100461200	Weak transcription	Placenta	Placenta
39	chr9:100460400-100461400	Enhancers	Primary T killer memory cells from peripheral blood	blood
40	chr9:100460400-100461400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr9:100460400-100461400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr9:100460400-100461400	Weak transcription	Brain Angular Gyrus	brain
43	chr9:100460400-100461400	Enhancers	GM12878-XiMat	blood
44	chr9:100460400-100461600	Enhancers	Primary T helper cells PMA-I stimulated	--
45	chr9:100460400-100461600	Enhancers	Brain Cingulate Gyrus	brain
46	chr9:100460400-100462400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
47	chr9:100460400-100465000	Weak transcription	Fetal Intestine Small	intestine
48	chr9:100460400-100465200	Weak transcription	Liver	Liver
49	chr9:100460400-100465200	Weak transcription	Hela-S3	cervix
50	chr9:100460400-100465400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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