Variant report

Variant	rs2441851
Chromosome Location	chr8:105310905-105310906
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:47729374..47730888-chr8:105309057..105311054,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000265134	Chromatin interaction
ENSG00000105327	Chromatin interaction

Extended variants
information (count: 72 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10102063	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10102178	0.87[ASN][1000 genomes]
rs1060441	0.91[CEU][hapmap];0.89[EUR][1000 genomes]
rs10955346	0.89[ASN][1000 genomes]
rs16871229	0.90[ASN][1000 genomes]
rs1868010	0.82[ASN][1000 genomes]
rs2084280	0.82[ASN][1000 genomes]
rs2340766	0.88[ASN][1000 genomes]
rs2441790	0.91[CEU][hapmap];0.88[EUR][1000 genomes]
rs2441794	0.91[CEU][hapmap];0.86[EUR][1000 genomes]
rs2441802	0.83[EUR][1000 genomes]
rs2441815	0.89[EUR][1000 genomes]
rs2441818	0.89[EUR][1000 genomes]
rs2441819	0.89[EUR][1000 genomes]
rs2441821	0.89[EUR][1000 genomes]
rs2441823	0.89[EUR][1000 genomes]
rs2441824	0.89[EUR][1000 genomes]
rs2441826	0.88[EUR][1000 genomes]
rs2441827	0.88[EUR][1000 genomes]
rs2441832	0.91[EUR][1000 genomes]
rs2441838	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2441842	0.82[AMR][1000 genomes]
rs2441844	0.82[AMR][1000 genomes]
rs2441848	0.88[EUR][1000 genomes]
rs2441850	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2441885	0.85[EUR][1000 genomes]
rs2441895	0.97[EUR][1000 genomes]
rs2441896	0.98[EUR][1000 genomes]
rs2441902	0.82[EUR][1000 genomes]
rs2441905	0.85[EUR][1000 genomes]
rs2441907	0.85[EUR][1000 genomes]
rs2441910	0.84[EUR][1000 genomes]
rs2511553	0.84[EUR][1000 genomes]
rs2511580	0.91[CEU][hapmap];0.90[TSI][hapmap];0.88[EUR][1000 genomes]
rs2511585	0.89[EUR][1000 genomes]
rs2511587	0.89[EUR][1000 genomes]
rs2511590	0.88[EUR][1000 genomes]
rs2511594	0.88[EUR][1000 genomes]
rs2511595	0.89[EUR][1000 genomes]
rs2511597	0.89[EUR][1000 genomes]
rs2511598	0.81[EUR][1000 genomes]
rs2511602	0.88[EUR][1000 genomes]
rs2511603	0.88[EUR][1000 genomes]
rs2511605	0.97[EUR][1000 genomes]
rs2511606	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2511609	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2511619	0.86[EUR][1000 genomes]
rs2511625	0.89[EUR][1000 genomes]
rs2511626	0.96[EUR][1000 genomes]
rs2511640	0.84[EUR][1000 genomes]
rs2511641	0.86[EUR][1000 genomes]
rs2511643	0.86[EUR][1000 genomes]
rs2511646	0.83[EUR][1000 genomes]
rs2511648	0.83[EUR][1000 genomes]
rs2514629	0.88[EUR][1000 genomes]
rs2514630	0.89[EUR][1000 genomes]
rs2514631	1.00[CEU][hapmap];0.98[TSI][hapmap];0.97[EUR][1000 genomes]
rs2514632	0.98[EUR][1000 genomes]
rs2514640	0.98[EUR][1000 genomes]
rs2514645	0.98[EUR][1000 genomes]
rs2514652	0.91[EUR][1000 genomes]
rs2514659	0.90[EUR][1000 genomes]
rs2514672	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2514673	0.82[ASN][1000 genomes]
rs3099574	0.83[EUR][1000 genomes]
rs4448239	0.90[CHB][hapmap];0.97[CHD][hapmap];0.85[GIH][hapmap];0.89[JPT][hapmap];0.89[ASN][1000 genomes]
rs4474002	0.80[EUR][1000 genomes]
rs4734093	0.83[ASN][1000 genomes]
rs4734761	0.83[ASN][1000 genomes]
rs4734763	0.83[ASN][1000 genomes]
rs750432	0.89[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016087	chr8:105228670-105934368	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2441851	NCALD	cis	cerebellum	SCAN
rs2441851	NCALD	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:105306400-105312200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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