Variant report

Variant	rs9516401
Chromosome Location	chr13:95004765-95004766
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs17196161	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2296566	0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs28587431	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60277420	0.87[ASN][1000 genomes]
rs60987661	1.00[ASN][1000 genomes]
rs72636619	1.00[AFR][1000 genomes]
rs7986556	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs7986931	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs9516397	0.86[CHB][hapmap]
rs9516398	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9516403	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9516405	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9524440	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9524442	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9524443	0.85[CEU][hapmap];0.88[EUR][1000 genomes]
rs9524449	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs9524451	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9524453	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9524454	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9524456	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9524460	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9524462	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9524467	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9524468	1.00[ASW][hapmap];0.85[TSI][hapmap];1.00[AFR][1000 genomes]
rs9524469	1.00[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs9524470	1.00[ASW][hapmap];0.85[TSI][hapmap];1.00[AFR][1000 genomes]
rs9589970	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9589995	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916640	chr13:94521959-95101443	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv533063	chr13:94560362-95101443	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	esv34004	chr13:94906537-95392644	Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv456077	chr13:94993032-95051560	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv562755	chr13:94993032-95051560	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:94997000-95034400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr13:94998400-95009000	Weak transcription	Fetal Stomach	stomach
3	chr13:95001000-95007000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr13:95003000-95005000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr13:95003000-95005000	Enhancers	NHDF-Ad	bronchial
6	chr13:95003400-95004800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr13:95003600-95004800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr13:95003600-95005000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
9	chr13:95003800-95004800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr13:95003800-95004800	Enhancers	Adipose Nuclei	Adipose
11	chr13:95003800-95005000	Enhancers	Fetal Intestine Large	intestine
12	chr13:95003800-95023400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr13:95004000-95022000	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr13:95004200-95004800	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr13:95004200-95005000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr13:95004200-95005000	Enhancers	Osteobl	bone
17	chr13:95004400-95004800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr13:95004400-95004800	Enhancers	Fetal Thymus	thymus
19	chr13:95004400-95005000	Enhancers	Fetal Intestine Small	intestine
20	chr13:95004400-95006400	Enhancers	Fetal Lung	lung
21	chr13:95004600-95004800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
22	chr13:95004600-95005000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr13:95004600-95005000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr13:95004600-95005200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr13:95004600-95006400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr13:95004600-95014000	Weak transcription	HSMM	muscle

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