Variant report

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10495553	0.81[ASN][1000 genomes]
rs10929475	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs10929476	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11884068	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11884070	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11886727	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11901709	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12472309	0.92[ASN][1000 genomes]
rs12473073	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12473177	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12473199	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12478133	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12990139	0.90[ASN][1000 genomes]
rs13007576	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs13013561	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs13025095	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1430298	0.90[ASN][1000 genomes]
rs16866052	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2013746	0.98[ASN][1000 genomes]
rs4668534	0.87[ASN][1000 genomes]
rs4668535	0.85[ASN][1000 genomes]
rs4669175	0.81[ASN][1000 genomes]
rs57998976	0.87[ASN][1000 genomes]
rs6707908	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6756373	0.87[ASN][1000 genomes]
rs959724	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv915888	chr2:7197783-7461967	Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv833337	chr2:7337273-7521146	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv962057	chr2:7406316-7411184	Weak transcription Enhancers Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs16866054	LOC400940	cis	cerebellum	SCAN
rs16866054	RNF144A	cis	parietal	SCAN
rs16866054	KCNF1	cis	parietal	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:7400200-7410000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr2:7400200-7428600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr2:7404000-7414200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr2:7405400-7410200	Weak transcription	Fetal Brain Female	brain
5	chr2:7407600-7408200	Enhancers	Fetal Brain Male	brain

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