Variant report

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10864023	0.97[ASN][1000 genomes]
rs10864028	0.90[ASN][1000 genomes]
rs10864029	0.89[ASN][1000 genomes]
rs11120062	0.96[ASN][1000 genomes]
rs11582817	0.91[ASN][1000 genomes]
rs11586464	0.85[ASN][1000 genomes]
rs12036853	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs12136547	0.95[ASN][1000 genomes]
rs12404754	0.97[ASN][1000 genomes]
rs12405293	0.97[ASN][1000 genomes]
rs12567976	0.97[ASN][1000 genomes]
rs12754609	0.97[ASN][1000 genomes]
rs12755947	0.97[ASN][1000 genomes]
rs1284852	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1284854	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1284855	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1284856	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1587175	0.97[ASN][1000 genomes]
rs2359325	0.97[ASN][1000 genomes]
rs3207090	0.97[ASN][1000 genomes]
rs4951471	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6670064	0.91[ASN][1000 genomes]
rs6702876	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1008383	chr1:213025546-213114894	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv1007129	chr1:213037244-213083261	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs7541559	LQK1	Cis_1M	lymphoblastoid	RTeQTL
rs7541559	FLVCR1	Cis_1M	lymphoblastoid	RTeQTL
rs7541559	FLVCR1	cis	Whole Blood	GTEx
rs7541559	ATF3	cis	thalamus	BrainEAC

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:213070000-213076600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr1:213072200-213077000	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
3	chr1:213073200-213079200	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
4	chr1:213073200-213079400	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
5	chr1:213073200-213079800	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
6	chr1:213073600-213076400	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
7	chr1:213073600-213079200	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
8	chr1:213073800-213076200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr1:213073800-213079200	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr1:213073800-213079200	Weak transcription	Right Atrium	heart
11	chr1:213073800-213089000	Weak transcription	Pancreas	Pancrea
12	chr1:213074400-213076600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr1:213074800-213076200	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
14	chr1:213075200-213079000	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
15	chr1:213075800-213076800	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr1:213076000-213076800	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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