Variant report

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1343143	0.88[EUR][1000 genomes]
rs1343147	0.80[JPT][hapmap]
rs1770213	0.94[CEU][hapmap];0.80[TSI][hapmap];0.80[EUR][1000 genomes]
rs1770216	0.80[EUR][1000 genomes]
rs1770219	0.94[CEU][hapmap];0.84[TSI][hapmap];0.82[EUR][1000 genomes]
rs1770220	0.80[JPT][hapmap]
rs1770221	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1770222	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1777243	0.94[CEU][hapmap];0.80[EUR][1000 genomes]
rs1777245	0.87[CEU][hapmap]
rs1777246	0.82[EUR][1000 genomes]
rs1777258	0.80[EUR][1000 genomes]
rs1777260	0.80[EUR][1000 genomes]
rs1777264	0.87[CEU][hapmap]
rs1890840	0.94[CEU][hapmap];0.84[TSI][hapmap];0.80[EUR][1000 genomes]
rs2798147	0.94[CEU][hapmap];0.85[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4282878	0.84[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4951615	0.94[CEU][hapmap];0.83[EUR][1000 genomes]
rs6658580	0.87[CEU][hapmap];0.88[EUR][1000 genomes]
rs6666042	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs7515909	1.00[CEU][hapmap];0.84[TSI][hapmap];0.87[EUR][1000 genomes]
rs7546472	0.94[CEU][hapmap];0.84[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	nsv999018	chr1:210907239-210999306	Genic enhancers Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv832503	chr1:210948760-211103163	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4951640	LEMD1	cis	cerebellum	SCAN
rs4951640	IL24	cis	cerebellum	SCAN
rs4951640	KCNH1	cis	cerebellum	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:210991400-210996000	Weak transcription	Brain Hippocampus Middle	brain
2	chr1:210995400-210996800	Enhancers	Brain Angular Gyrus	brain
3	chr1:210995400-210996800	Enhancers	Brain Cingulate Gyrus	brain
4	chr1:210995400-210997200	Enhancers	Cortex derived primary cultured neurospheres	brain

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