Variant report

Variant	rs554036
Chromosome Location	chr8:102863239-102863240
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 116 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:110)

rs_ID	r²[population]
rs1144545	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs1148496	1.00[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1148497	0.91[CEU][hapmap];0.94[CHB][hapmap];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1148498	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1148499	0.91[CEU][hapmap];0.94[CHB][hapmap];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1148501	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1264865	0.91[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1264866	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1264930	0.94[CHB][hapmap];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1264931	0.84[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1264932	0.86[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1264933	0.94[CHB][hapmap];0.91[ASN][1000 genomes]
rs1264952	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1264953	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1264954	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1272384	0.89[ASN][1000 genomes]
rs1313944	0.89[EUR][1000 genomes]
rs2155938	0.94[CHB][hapmap];0.89[ASN][1000 genomes]
rs2155939	0.84[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap];0.92[ASN][1000 genomes]
rs2155940	0.88[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2155941	0.88[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2509895	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28623673	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35473722	0.82[EUR][1000 genomes]
rs472471	1.00[CEU][hapmap];0.93[CHB][hapmap];0.83[JPT][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs472638	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs472963	0.91[CEU][hapmap];0.94[CHB][hapmap];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs473498	0.92[CEU][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs477236	0.96[CEU][hapmap];0.86[EUR][1000 genomes]
rs478092	0.96[CEU][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs478189	0.86[EUR][1000 genomes]
rs478875	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs478896	0.86[EUR][1000 genomes]
rs478917	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs479041	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs479742	0.91[CEU][hapmap]
rs480570	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs480955	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs481545	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs482023	0.87[CEU][hapmap]
rs484657	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs485252	0.82[EUR][1000 genomes]
rs485263	0.82[EUR][1000 genomes]
rs485363	0.83[EUR][1000 genomes]
rs486196	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs486496	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs487863	0.87[CEU][hapmap]
rs488034	0.91[CEU][hapmap];0.94[CHB][hapmap];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs489973	0.91[CEU][hapmap];0.86[EUR][1000 genomes]
rs490032	0.96[CEU][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs490096	0.96[CEU][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs490125	0.91[CEU][hapmap];0.85[EUR][1000 genomes]
rs494352	0.86[CEU][hapmap];0.82[EUR][1000 genomes]
rs495636	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs497905	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs502334	0.83[CEU][hapmap];0.83[EUR][1000 genomes]
rs505460	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs506026	0.89[EUR][1000 genomes]
rs508386	0.92[CEU][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs510524	0.91[CEU][hapmap]
rs512202	0.96[CEU][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs513159	0.82[CEU][hapmap]
rs513472	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs517868	0.87[CEU][hapmap]
rs519197	0.91[CEU][hapmap];0.94[CHB][hapmap];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs520880	0.91[CEU][hapmap];0.94[CHB][hapmap];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs526533	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs529684	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs531624	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs534512	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs537941	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs539663	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs540459	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs543897	0.81[EUR][1000 genomes]
rs544821	0.96[CEU][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs544928	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs549281	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs550281	0.87[CEU][hapmap]
rs551295	0.87[CEU][hapmap];0.82[EUR][1000 genomes]
rs553463	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs554945	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs557654	0.82[EUR][1000 genomes]
rs558159	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs558772	0.87[EUR][1000 genomes]
rs558985	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs561000	0.92[CEU][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs562037	0.90[CEU][hapmap];0.89[EUR][1000 genomes]
rs563463	0.91[CEU][hapmap];0.89[EUR][1000 genomes]
rs563493	0.96[CEU][hapmap]
rs564718	0.96[CEU][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs566264	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs566315	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs566392	0.91[CEU][hapmap];0.86[EUR][1000 genomes]
rs566501	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs568194	0.91[CEU][hapmap];0.86[EUR][1000 genomes]
rs569015	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs569787	0.90[CEU][hapmap];0.86[EUR][1000 genomes]
rs571673	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs572692	0.96[CEU][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs576173	0.83[EUR][1000 genomes]
rs577756	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs578603	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs67887846	0.89[ASN][1000 genomes]
rs6991592	0.84[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap];0.92[ASN][1000 genomes]
rs7828175	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs7828516	0.84[CEU][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs7829693	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs7840760	0.88[CEU][hapmap]
rs7842147	0.88[EUR][1000 genomes]
rs9297313	0.94[CHB][hapmap];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1018653	chr8:102818271-103009082	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv539700	chr8:102818271-103009082	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv518162	chr8:102841031-102893626	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv523850	chr8:102841031-102893626	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv465749	chr8:102847202-102929460	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv611819	chr8:102847202-102929460	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:102803600-102870600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
2	chr8:102846800-102866400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr8:102854800-102866200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr8:102859600-102866200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr8:102862400-102864000	Weak transcription	GM12878-XiMat	blood
6	chr8:102862400-102869600	Weak transcription	Left Ventricle	heart
7	chr8:102862600-102863600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr8:102862600-102864200	Weak transcription	Psoas Muscle	Psoas
9	chr8:102862600-102865800	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr8:102862600-102866000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr8:102862600-102866400	Weak transcription	NHEK	skin
12	chr8:102862600-102866600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr8:102862600-102867000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr8:102862600-102867600	Weak transcription	Right Ventricle	heart
15	chr8:102862600-102868600	Weak transcription	Aorta	Aorta
16	chr8:102862600-102868600	Weak transcription	Ovary	ovary
17	chr8:102862800-102864000	Weak transcription	Fetal Muscle Leg	muscle
18	chr8:102862800-102876000	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr8:102863000-102865800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr8:102863000-102865800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr8:102863200-102864600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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