Variant report

Variant	rs526928
Chromosome Location	chr10:97334291-97334292
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:97320460..97323446-chr10:97332611..97334793,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000095637	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1078641	0.82[CHB][hapmap]
rs11188398	0.88[MEX][hapmap]
rs11188411	0.88[MEX][hapmap]
rs11188417	0.84[MEX][hapmap]
rs1254093	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1270505	1.00[ASW][hapmap];0.92[CEU][hapmap];0.91[CHD][hapmap];0.95[GIH][hapmap];0.87[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1272125	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12767387	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12768725	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12769076	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4037	0.88[MEX][hapmap]
rs4258314	0.84[MEX][hapmap]
rs493193	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs495998	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs498055	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs500470	0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs527043	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs530773	0.90[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs533383	0.95[CHB][hapmap];0.91[JPT][hapmap];0.84[MEX][hapmap];0.82[ASN][1000 genomes]
rs557043	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs55799794	0.82[AMR][1000 genomes]
rs568046	0.82[CHB][hapmap];0.88[MEX][hapmap]
rs576080	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7070798	0.82[CHB][hapmap]
rs7086071	0.89[ASW][hapmap];0.92[CEU][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];0.96[MEX][hapmap];0.86[TSI][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7086880	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7090870	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7918947	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];0.96[MEX][hapmap];0.86[TSI][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9630087	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][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	nsv526180	chr10:97332195-97511037	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs526928	ALDH18A1	cis	cerebellum	SCAN
rs526928	LCOR	cis	cerebellum	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97332600-97334800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr10:97332600-97335200	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr10:97332600-97335400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr10:97332600-97335400	Enhancers	Skeletal Muscle Male	skeletal muscle
5	chr10:97333000-97335200	Enhancers	Psoas Muscle	Psoas
6	chr10:97333200-97334800	Enhancers	Left Ventricle	heart
7	chr10:97333200-97336000	Enhancers	Fetal Heart	heart
8	chr10:97333400-97335200	Enhancers	Right Ventricle	heart
9	chr10:97333600-97334400	Enhancers	Skeletal Muscle Female	skeletal muscle
10	chr10:97334200-97334400	Flanking Active TSS	HSMMtube	muscle
11	chr10:97334200-97334800	Enhancers	Right Atrium	heart

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