Variant report

Variant	rs10828810
Chromosome Location	chr10:25788668-25788669
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10047266	0.91[JPT][hapmap]
rs10508699	0.91[JPT][hapmap]
rs10741092	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10741093	0.90[JPT][hapmap]
rs10828815	0.91[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10828821	0.82[JPT][hapmap]
rs10828825	0.81[JPT][hapmap]
rs11014580	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11014581	0.91[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs11014598	0.84[JPT][hapmap]
rs11014600	0.86[JPT][hapmap]
rs11014601	0.86[JPT][hapmap]
rs11014608	0.81[JPT][hapmap]
rs1329252	0.86[JPT][hapmap]
rs1335208	0.91[JPT][hapmap]
rs1335209	0.91[JPT][hapmap]
rs1887925	0.92[CEU][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1932148	0.86[ASW][hapmap];0.91[CEU][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap];0.87[YRI][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1932149	0.91[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1932150	0.93[ASW][hapmap];0.91[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3886350	0.82[CHB][hapmap];0.82[CHD][hapmap];0.91[GIH][hapmap];0.95[MEX][hapmap];0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs3923088	0.91[JPT][hapmap]
rs4459183	0.91[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4474349	0.89[JPT][hapmap]
rs4623781	0.91[CHB][hapmap];0.95[JPT][hapmap];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4747522	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4747523	0.82[TSI][hapmap]
rs4747525	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4749041	0.96[CEU][hapmap];0.99[EUR][1000 genomes]
rs4749042	1.00[CEU][hapmap];0.87[CHB][hapmap];0.86[JPT][hapmap];0.88[YRI][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4749043	0.83[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap];0.90[ASN][1000 genomes]
rs7068743	0.82[TSI][hapmap]
rs7072700	0.82[TSI][hapmap]
rs7077800	0.91[JPT][hapmap]
rs7086249	0.91[JPT][hapmap]
rs7100942	0.91[JPT][hapmap]
rs943984	1.00[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3349863	chr10:25614571-25946379	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25782400-25792200	Weak transcription	Brain Anterior Caudate	brain
2	chr10:25783200-25797200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr10:25785800-25791200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr10:25786000-25791000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr10:25786400-25790400	Weak transcription	Fetal Heart	heart
6	chr10:25786800-25790800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr10:25787600-25788800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr10:25787600-25789400	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr10:25788000-25790600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr10:25788000-25791800	Enhancers	Placenta Amnion	Placenta Amnion
11	chr10:25788200-25788800	Enhancers	H9 Cell Line	embryonic stem cell
12	chr10:25788200-25789000	Enhancers	H1 Cell Line	embryonic stem cell
13	chr10:25788200-25789000	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr10:25788200-25789200	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr10:25788400-25789000	Enhancers	ES-I3 Cell Line	embryonic stem cell
16	chr10:25788400-25789200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
17	chr10:25788400-25790400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr10:25788400-25790800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr10:25788400-25792000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr10:25788600-25788800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr10:25788600-25788800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr10:25788600-25789200	Enhancers	iPS-15b Cell Line	embryonic stem cell
23	chr10:25788600-25789400	Enhancers	iPS-20b Cell Line	embryonic stem cell
24	chr10:25788600-25789800	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr10:25788600-25789800	Strong transcription	Cortex derived primary cultured neurospheres	brain
26	chr10:25788600-25791000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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