Variant report

Variant	rs10504845
Chromosome Location	chr8:89345187-89345188
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:89339911..89342671-chr8:89344943..89347754,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000156103	Chromatin interaction
ENSG00000253553	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10100170	0.89[EUR][1000 genomes]
rs1012116	0.84[EUR][1000 genomes]
rs13256784	0.83[EUR][1000 genomes]
rs13261175	0.89[EUR][1000 genomes]
rs13262875	0.90[EUR][1000 genomes]
rs1394511	0.88[EUR][1000 genomes]
rs1394514	0.90[JPT][hapmap]
rs1504801	0.90[EUR][1000 genomes]
rs1504804	0.90[JPT][hapmap]
rs16881203	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16881281	0.81[CEU][hapmap]
rs16892543	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1910730	0.90[EUR][1000 genomes]
rs28787399	0.95[EUR][1000 genomes]
rs34051963	0.90[EUR][1000 genomes]
rs35175011	0.97[EUR][1000 genomes]
rs4246109	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4246111	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4246112	0.90[JPT][hapmap]
rs4246113	0.90[JPT][hapmap]
rs4369037	0.84[EUR][1000 genomes]
rs4395935	0.97[EUR][1000 genomes]
rs4395936	0.80[ASN][1000 genomes]
rs4515601	0.90[JPT][hapmap];0.80[ASN][1000 genomes]
rs4548227	0.80[ASN][1000 genomes]
rs4625076	0.90[JPT][hapmap]
rs4961086	0.80[ASN][1000 genomes]
rs4961087	0.90[JPT][hapmap];0.80[ASN][1000 genomes]
rs4961090	0.80[ASN][1000 genomes]
rs56231945	0.90[EUR][1000 genomes]
rs58255283	0.90[EUR][1000 genomes]
rs58418586	0.90[EUR][1000 genomes]
rs58644813	0.89[EUR][1000 genomes]
rs6469364	0.87[EUR][1000 genomes]
rs67312178	0.90[EUR][1000 genomes]
rs6984041	0.90[EUR][1000 genomes]
rs6989402	0.90[EUR][1000 genomes]
rs6992417	1.00[CEU][hapmap]
rs6994283	0.90[EUR][1000 genomes]
rs7002751	0.90[EUR][1000 genomes]
rs7003388	0.90[EUR][1000 genomes]
rs7009149	0.80[ASN][1000 genomes]
rs7823223	0.89[EUR][1000 genomes]
rs7825672	0.97[EUR][1000 genomes]
rs7828497	0.90[JPT][hapmap];0.80[AMR][1000 genomes]
rs7835845	0.90[JPT][hapmap];0.94[MEX][hapmap];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029898	chr8:88837956-89606641	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv1030028	chr8:89060085-89733470	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv1019111	chr8:89186908-89475460	Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv831386	chr8:89209788-89403546	Enhancers Genic enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv891171	chr8:89342944-89439469	Enhancers Weak transcription Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10504845	MMP16	cis	Thyroid	GTEx
rs10504845	ARHGEF16	trans	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:89341400-89345600	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr8:89341600-89352200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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