Variant report

Variant	rs16929409
Chromosome Location	chr8:63603089-63603090
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10086439	1.00[ASN][1000 genomes]
rs11986003	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11988844	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11990729	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11993139	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11994250	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11997540	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12114187	0.82[EUR][1000 genomes]
rs13248275	1.00[ASN][1000 genomes]
rs13260313	1.00[ASN][1000 genomes]
rs13268135	1.00[ASN][1000 genomes]
rs13439148	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13439149	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16929324	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16929355	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16929366	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16929379	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16929380	1.00[ASN][1000 genomes]
rs16929392	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16929407	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16929424	1.00[ASN][1000 genomes]
rs16929428	1.00[ASN][1000 genomes]
rs17840589	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2127562	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2127563	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2127564	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28608015	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34160114	1.00[ASN][1000 genomes]
rs35029520	1.00[ASN][1000 genomes]
rs35915553	1.00[ASN][1000 genomes]
rs4562311	1.00[ASN][1000 genomes]
rs56083055	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57723519	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs57786242	1.00[ASN][1000 genomes]
rs59113187	1.00[ASN][1000 genomes]
rs60508325	1.00[ASN][1000 genomes]
rs60781553	1.00[ASN][1000 genomes]
rs61408776	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6472043	1.00[ASN][1000 genomes]
rs6997907	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7007446	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7016043	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73682630	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73682631	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73683352	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73685419	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7820024	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7839654	1.00[ASN][1000 genomes]
rs961828	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9969432	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[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	nsv1018879	chr8:63281724-63937632	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv831340	chr8:63515126-63702660	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv890960	chr8:63516962-63629549	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs16929409	FGL2	trans	brain	seeQTL
rs16929409	KIAA1671	trans	lymphoblastoid	seeQTL

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:63602600-63603200	Active TSS	Brain Germinal Matrix	brain
2	chr8:63602600-63603200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
3	chr8:63602600-63603200	Active TSS	HSMM	muscle
4	chr8:63602600-63603400	Flanking Active TSS	Fetal Muscle Leg	muscle
5	chr8:63602600-63603600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr8:63602600-63603600	Active TSS	Brain Angular Gyrus	brain
7	chr8:63602600-63603600	Active TSS	Brain Inferior Temporal Lobe	brain
8	chr8:63602600-63603800	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr8:63602600-63603800	Active TSS	HSMMtube	muscle
10	chr8:63602800-63603200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
11	chr8:63602800-63603200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr8:63602800-63603200	Active TSS	Brain Anterior Caudate	brain
13	chr8:63602800-63603200	Active TSS	Brain Hippocampus Middle	brain
14	chr8:63602800-63603200	Flanking Active TSS	Fetal Brain Male	brain
15	chr8:63602800-63603200	Flanking Active TSS	Fetal Brain Female	brain
16	chr8:63602800-63603200	Active TSS	Psoas Muscle	Psoas
17	chr8:63602800-63603200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
18	chr8:63602800-63603600	Flanking Active TSS	Brain Cingulate Gyrus	brain
19	chr8:63602800-63603600	Flanking Active TSS	Brain Substantia Nigra	brain
20	chr8:63603000-63603200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
21	chr8:63603000-63603400	Active TSS	Fetal Muscle Trunk	muscle
22	chr8:63603000-63603600	Enhancers	Fetal Lung	lung

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