Variant report

Variant	rs10832616
Chromosome Location	chr11:16506090-16506091
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 94 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs1004283	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10500830	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10741698	0.86[ASW][hapmap];0.94[CEU][hapmap];0.86[GIH][hapmap];0.92[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10766324	0.94[CEU][hapmap];0.92[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10766325	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10766327	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10832602	0.84[EUR][1000 genomes]
rs10832603	0.84[EUR][1000 genomes]
rs10832604	0.94[CEU][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes]
rs10832607	0.86[ASW][hapmap];0.94[CEU][hapmap];0.86[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10832609	0.94[CEU][hapmap];0.92[JPT][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10832610	0.94[CEU][hapmap];0.86[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10832617	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10832619	1.00[ASW][hapmap];0.94[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.96[GIH][hapmap];0.92[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10832620	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10832624	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10832625	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10832626	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10832631	0.85[EUR][1000 genomes]
rs10832632	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10832636	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10832638	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10832644	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10832645	0.85[EUR][1000 genomes]
rs11023932	0.84[EUR][1000 genomes]
rs11023934	0.94[CEU][hapmap];0.86[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.85[EUR][1000 genomes]
rs11023940	0.85[EUR][1000 genomes]
rs11023942	0.94[CEU][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes]
rs11023943	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11023947	0.94[CEU][hapmap];0.92[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11023964	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11023965	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11023969	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11023971	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11023985	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs11023990	0.82[EUR][1000 genomes]
rs11023991	0.82[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs11529135	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11529591	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11605526	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12221729	0.94[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.93[TSI][hapmap];0.85[EUR][1000 genomes]
rs12221945	0.84[EUR][1000 genomes]
rs12221946	0.84[EUR][1000 genomes]
rs12222249	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12364390	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12418604	0.86[EUR][1000 genomes]
rs12421422	0.82[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs12799024	0.88[AFR][1000 genomes]
rs1393924	0.94[CEU][hapmap];0.92[JPT][hapmap];0.84[EUR][1000 genomes]
rs1393926	0.86[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap]
rs1503440	0.94[CEU][hapmap];0.92[JPT][hapmap];0.84[EUR][1000 genomes]
rs16933105	0.94[CEU][hapmap];0.86[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.84[EUR][1000 genomes]
rs16933117	0.94[CEU][hapmap];0.86[JPT][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1948824	0.94[CEU][hapmap];0.92[JPT][hapmap];0.87[EUR][1000 genomes]
rs2134610	0.85[EUR][1000 genomes]
rs2174164	0.86[ASW][hapmap];0.94[CEU][hapmap];0.86[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs297325	0.89[CEU][hapmap];0.92[JPT][hapmap];0.85[MEX][hapmap];0.86[TSI][hapmap]
rs297332	0.81[EUR][1000 genomes]
rs297335	0.94[CEU][hapmap];0.92[JPT][hapmap];0.81[EUR][1000 genomes]
rs297337	0.93[CEU][hapmap];0.92[JPT][hapmap];0.81[EUR][1000 genomes]
rs297338	0.94[CEU][hapmap];0.92[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34952258	0.81[EUR][1000 genomes]
rs4132991	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4237714	0.81[EUR][1000 genomes]
rs4259791	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4307685	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4491181	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4550186	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4756850	0.94[CEU][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes]
rs4756851	0.92[JPT][hapmap];0.85[EUR][1000 genomes]
rs4757397	0.94[CEU][hapmap];0.92[JPT][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4757398	0.86[ASW][hapmap];0.94[CEU][hapmap];0.86[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4757399	0.85[EUR][1000 genomes]
rs4757402	0.94[CEU][hapmap];0.92[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4757403	0.94[CEU][hapmap];0.92[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4757410	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4757414	0.82[EUR][1000 genomes]
rs61881805	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61881829	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61881830	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61883215	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61883864	0.88[AFR][1000 genomes]
rs61883868	0.83[EUR][1000 genomes]
rs7122873	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7483029	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7926068	0.81[EUR][1000 genomes]
rs7935820	0.85[EUR][1000 genomes]
rs7937011	0.81[CHD][hapmap]
rs7951243	0.94[CEU][hapmap];0.92[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7951760	0.94[CEU][hapmap];0.92[JPT][hapmap];0.88[EUR][1000 genomes]
rs9666320	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9704273	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];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	nsv553566	chr11:16329009-16799044	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv897016	chr11:16455794-16691743	Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10832616	PTH	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:16461600-16510000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr11:16495200-16510200	Weak transcription	Fetal Muscle Leg	muscle
3	chr11:16497200-16516600	Weak transcription	Left Ventricle	heart
4	chr11:16498000-16509200	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr11:16505000-16509200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr11:16505600-16506200	Enhancers	Skeletal Muscle Female	skeletal muscle
7	chr11:16505800-16506200	Strong transcription	Cortex derived primary cultured neurospheres	brain
8	chr11:16506000-16506200	Enhancers	Pancreas	Pancrea
9	chr11:16506000-16506200	Enhancers	Psoas Muscle	Psoas
10	chr11:16506000-16506200	Enhancers	Right Ventricle	heart
11	chr11:16506000-16506400	Enhancers	Adipose Nuclei	Adipose

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