Variant report

Variant	rs7828229
Chromosome Location	chr8:9742841-9742842
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:9727833..9729706-chr8:9742028..9743799,2	K562	blood:

Extended variants
information (count: 32 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10098618	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10104236	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10108550	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11987861	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12056944	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12543685	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12543996	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12544019	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12545481	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12546952	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12548011	0.89[EUR][1000 genomes]
rs12549629	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13270146	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17150693	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1962430	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2055729	0.81[CEU][hapmap]
rs4841254	0.82[CEU][hapmap]
rs491364	0.95[CEU][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.94[MEX][hapmap];0.95[TSI][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs506276	0.85[CEU][hapmap]
rs592420	0.95[CEU][hapmap];0.81[CHD][hapmap];0.83[MEX][hapmap];0.87[TSI][hapmap];0.88[EUR][1000 genomes]
rs59880252	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs612689	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62489486	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62489489	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6601389	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6601390	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6601393	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6981023	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6989793	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6990268	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6996932	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[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	nsv530864	chr8:9097498-9914548	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs7828229	MFHAS1	cis	cerebellum	SCAN
rs7828229	PPP1R3B	cis	lymphoblastoid	seeQTL
rs7828229	CLDN23	cis	multi-tissue	Pritchard
rs7828229	PRSS55	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:9741400-9754000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr8:9741400-9754000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr8:9741800-9743000	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr8:9741800-9743000	Enhancers	HMEC	breast
5	chr8:9742400-9743200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr8:9742400-9743200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr8:9742400-9743600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr8:9742600-9743000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr8:9742600-9743200	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr8:9742600-9743800	Enhancers	Brain Anterior Caudate	brain
11	chr8:9742800-9743200	Enhancers	NHEK	skin

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