Variant report

Variant	rs3829059
Chromosome Location	chr9:96431156-96431157
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10992845	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs1132027	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12551079	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12551694	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12552323	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs12553775	0.95[AMR][1000 genomes]
rs12553909	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12555927	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17532098	0.85[CEU][hapmap]
rs17535326	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs1963	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2001609	0.82[CEU][hapmap];0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs3813386	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55783552	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56186220	0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs56310424	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7033532	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7038293	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7038310	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7038794	0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs883783	0.82[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893586	chr9:96363859-96493773	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv1036609	chr9:96375217-96477641	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv893587	chr9:96383605-96451784	Weak transcription Genic enhancers Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96401000-96438600	Weak transcription	Psoas Muscle	Psoas
2	chr9:96402600-96433600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
3	chr9:96405200-96431400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr9:96405400-96431400	Strong transcription	Fetal Brain Female	brain
5	chr9:96405400-96433200	Strong transcription	Fetal Intestine Small	intestine
6	chr9:96406200-96438600	Weak transcription	Small Intestine	intestine
7	chr9:96410400-96432600	Strong transcription	Rectal Mucosa Donor 31	rectum
8	chr9:96410400-96433200	Strong transcription	Gastric	stomach
9	chr9:96412600-96439400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr9:96412600-96442800	Weak transcription	NHDF-Ad	bronchial
11	chr9:96412600-96445000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr9:96412800-96442800	Weak transcription	HMEC	breast
13	chr9:96412800-96443600	Weak transcription	Stomach Mucosa	stomach
14	chr9:96413000-96432000	Strong transcription	Placenta	Placenta
15	chr9:96413000-96442000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr9:96413000-96444800	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr9:96413200-96440800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr9:96413400-96441600	Weak transcription	GM12878-XiMat	blood
19	chr9:96414200-96434800	Weak transcription	Right Atrium	heart
20	chr9:96414400-96435800	Weak transcription	HSMM	muscle
21	chr9:96416400-96443400	Weak transcription	HepG2	liver
22	chr9:96417800-96439000	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr9:96419000-96431800	Weak transcription	Hela-S3	cervix
24	chr9:96419200-96440000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr9:96420800-96435600	Weak transcription	A549	lung
26	chr9:96422000-96439800	Weak transcription	Osteobl	bone
27	chr9:96424400-96431400	Strong transcription	Primary neutrophils fromperipheralblood	blood
28	chr9:96424600-96431800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr9:96424600-96433400	Strong transcription	Ovary	ovary
30	chr9:96424800-96432400	Strong transcription	Spleen	Spleen
31	chr9:96424800-96432600	Strong transcription	Thymus	Thymus
32	chr9:96424800-96433200	Strong transcription	Fetal Stomach	stomach
33	chr9:96424800-96434000	Strong transcription	Pancreas	Pancrea
34	chr9:96424800-96440800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
35	chr9:96425200-96431800	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr9:96425600-96433200	Strong transcription	Lung	lung
37	chr9:96426000-96441800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
38	chr9:96426200-96431800	Weak transcription	NHEK	skin
39	chr9:96426200-96434800	Weak transcription	Fetal Heart	heart
40	chr9:96426200-96434800	Weak transcription	Fetal Kidney	kidney
41	chr9:96426200-96435200	Weak transcription	Primary B cells from cord blood	blood
42	chr9:96426200-96435200	Weak transcription	Primary hematopoietic stem cells	blood
43	chr9:96426200-96436000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr9:96426200-96436200	Weak transcription	Muscle Satellite Cultured Cells	--
45	chr9:96426200-96438000	Weak transcription	HUES48 Cell Line	embryonic stem cell
46	chr9:96426200-96438000	Weak transcription	HSMMtube	muscle
47	chr9:96426200-96438400	Weak transcription	Fetal Lung	lung
48	chr9:96426200-96438600	Weak transcription	H1 Cell Line	embryonic stem cell
49	chr9:96426200-96442200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
50	chr9:96426400-96438800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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