Variant report

Variant	rs10750935
Chromosome Location	chr11:60101453-60101454
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	CTCF	chr11:60101426-60101892	K562	blood:	n/a	chr11:60101696-60101706 chr11:60101691-60101709
2	YY1	chr11:60101347-60101763	GM12892	blood:	n/a	chr11:60101615-60101627 chr11:60101619-60101627
3	CTCF	chr11:60101381-60101999	HCT-116	colon:	n/a	chr11:60101696-60101706 chr11:60101691-60101709
4	SMC3	chr11:60101376-60101937	SK-N-SH	brain:	n/a	chr11:60101693-60101707
5	FOSL2	chr11:60101447-60101760	HepG2	liver:	n/a	n/a
6	CTCF	chr11:60101431-60101851	MCF-7	breast:	n/a	chr11:60101696-60101706 chr11:60101691-60101709
7	RAD21	chr11:60101399-60102013	SK-N-SH	brain:	n/a	chr11:60101692-60101711
8	CTCF	chr11:60101430-60101898	T-47D	breast:	n/a	chr11:60101696-60101706 chr11:60101691-60101709
9	FOS	chr11:60101443-60101794	MCF10A-Er-Src	breast:	n/a	n/a
10	JUND	chr11:60101429-60101788	H1-hESC	embryonic stem cell:	n/a	chr11:60101592-60101603
11	YY1	chr11:60101443-60101801	GM12878	blood:	n/a	chr11:60101615-60101627 chr11:60101619-60101627
12	CTCF	chr11:60101331-60101991	A549	lung:	n/a	chr11:60101696-60101706 chr11:60101691-60101709
13	CTCF	chr11:60101320-60101470	WI-38	lung:	n/a	n/a
14	YY1	chr11:60101418-60101827	GM12878	blood:	n/a	chr11:60101615-60101627 chr11:60101619-60101627
15	ZNF143	chr11:60101401-60101823	H1-hESC	embryonic stem cell:	n/a	n/a
16	CTCF	chr11:60101326-60102068	SK-N-SH	brain:	n/a	chr11:60101696-60101706 chr11:60101691-60101709
17	YY1	chr11:60101404-60101842	H1-hESC	embryonic stem cell:	n/a	chr11:60101615-60101627 chr11:60101619-60101627
18	RAD21	chr11:60101394-60101913	H1-hESC	embryonic stem cell:	n/a	chr11:60101692-60101711
19	YY1	chr11:60101420-60101865	H1-hESC	embryonic stem cell:	n/a	chr11:60101615-60101627 chr11:60101619-60101627
20	CTCF	chr11:60101427-60101854	H1-hESC	embryonic stem cell:	n/a	chr11:60101696-60101706 chr11:60101691-60101709

No.	Distal block	Cell Line	Cell type
1	chr11:60100804..60102100-chr11:60385189..60386876,4	MCF-7	breast:
2	chr11:60101406..60101985-chr11:60253130..60254013,3	MCF-7	breast:
3	chr11:60032789..60033679-chr11:60101235..60102123,2	MCF-7	breast:

Variant related genes	Relation type
MS4A6E	TF binding region

Extended variants
information (count: 56 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs1020288	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10431136	0.81[CEU][hapmap]
rs10750932	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10750933	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10750934	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10792264	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10792265	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10792267	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10792268	0.80[ASW][hapmap];0.83[CEU][hapmap];0.90[JPT][hapmap];0.90[MEX][hapmap];0.86[EUR][1000 genomes]
rs10897027	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10897028	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10897030	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10897031	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10897032	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10897033	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10897044	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10897045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10897046	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10897047	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];0.95[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10897048	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10897049	0.80[ASW][hapmap];0.83[CEU][hapmap];0.90[JPT][hapmap];0.90[MEX][hapmap];0.86[EUR][1000 genomes]
rs11230239	0.84[CEU][hapmap];0.82[JPT][hapmap]
rs11230240	0.83[CEU][hapmap];0.85[JPT][hapmap];0.86[MEX][hapmap]
rs11230243	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11230248	0.86[EUR][1000 genomes]
rs11230275	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11230276	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11230280	0.86[EUR][1000 genomes]
rs11605188	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11605235	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12225299	0.86[EUR][1000 genomes]
rs12792791	0.84[EUR][1000 genomes]
rs12798157	0.86[EUR][1000 genomes]
rs12802385	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1443250	0.81[MEX][hapmap];0.85[EUR][1000 genomes]
rs1899571	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1899572	0.84[EUR][1000 genomes]
rs2289614	0.83[CEU][hapmap]
rs2304933	0.80[ASW][hapmap];0.83[CEU][hapmap];0.90[JPT][hapmap];0.90[MEX][hapmap];0.86[EUR][1000 genomes]
rs2304934	0.83[CEU][hapmap];0.90[JPT][hapmap];0.86[EUR][1000 genomes]
rs2304935	0.80[ASW][hapmap];0.83[CEU][hapmap];0.86[JPT][hapmap];0.86[MEX][hapmap];0.86[EUR][1000 genomes]
rs2304936	0.86[EUR][1000 genomes]
rs2868118	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2868119	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2868120	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2868121	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.90[MKK][hapmap];0.94[TSI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35905922	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4477457	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4506675	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61900468	0.85[EUR][1000 genomes]
rs7103808	0.84[EUR][1000 genomes]
rs7108879	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7116069	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7924433	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7931525	0.82[CEU][hapmap];0.85[EUR][1000 genomes]
rs7950431	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs10750935	ZP1	cis	parietal	SCAN
rs10750935	HRASLS2	cis	parietal	SCAN
rs10750935	MS4A4A	cis	cerebellum	SCAN
rs10750935	OR8J1	cis	cerebellum	SCAN
rs10750935	HNRNPUL2	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:60099800-60101800	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr11:60100800-60104400	Weak transcription	Primary hematopoietic stem cells	blood
3	chr11:60101000-60104200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr11:60101000-60105400	Enhancers	Placenta	Placenta
5	chr11:60101200-60101800	Enhancers	Monocytes-CD14+_RO01746	blood
6	chr11:60101200-60104000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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