Variant report

Variant	rs236768
Chromosome Location	chr4:103075983-103075984
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs11947367	0.86[EUR][1000 genomes]
rs12640056	0.87[CEU][hapmap];0.95[CHB][hapmap];0.83[JPT][hapmap];0.85[EUR][1000 genomes]
rs151385	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs151386	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs151479	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs151480	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs151481	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs151498	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs151499	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17031983	0.87[CEU][hapmap];0.95[CHB][hapmap];0.80[CHD][hapmap];0.94[GIH][hapmap];0.83[JPT][hapmap];0.86[MEX][hapmap]
rs189328	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs236761	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs236762	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs236769	0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs236770	0.98[EUR][1000 genomes]
rs236775	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs236776	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs236777	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs236778	0.94[EUR][1000 genomes]
rs236779	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs236780	0.94[EUR][1000 genomes]
rs236781	0.94[EUR][1000 genomes]
rs238477	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs238478	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2850374	0.83[JPT][hapmap]
rs34184671	0.80[EUR][1000 genomes]
rs35880229	0.81[EUR][1000 genomes]
rs6842661	0.87[CEU][hapmap];0.95[CHB][hapmap];0.82[CHD][hapmap];0.94[GIH][hapmap];0.83[JPT][hapmap];0.86[MEX][hapmap];0.85[EUR][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	nsv869164	chr4:102483189-103213842	Weak transcription Enhancers Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv879682	chr4:102859835-103088491	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs236768	HDHD2	trans	cerebellum	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:103072400-103084800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr4:103073800-103079200	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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