Variant report

Variant	rs56110216
Chromosome Location	chr9:98710960-98710961
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:98709527..98711605-chr9:98713010..98715521,3	K562	blood:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs12003772	0.97[ASN][1000 genomes]
rs12551596	0.91[ASN][1000 genomes]
rs12551880	0.88[ASN][1000 genomes]
rs12554182	0.85[ASN][1000 genomes]
rs12555687	0.91[ASN][1000 genomes]
rs1413178	0.91[ASN][1000 genomes]
rs16910333	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16910342	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16910409	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16910427	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17303324	0.88[ASN][1000 genomes]
rs2297009	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2423	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3739755	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3739756	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4742763	0.88[ASN][1000 genomes]
rs4742769	0.91[ASN][1000 genomes]
rs4742801	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743327	0.81[ASN][1000 genomes]
rs4743351	0.86[ASN][1000 genomes]
rs4743383	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4743460	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4743469	0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4743507	1.00[AFR][1000 genomes]
rs4743508	1.00[AFR][1000 genomes]
rs55651016	0.95[ASN][1000 genomes]
rs55770584	0.88[ASN][1000 genomes]
rs55781050	0.91[ASN][1000 genomes]
rs55797980	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55849673	1.00[AFR][1000 genomes]
rs55865494	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs55881510	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55888215	1.00[AFR][1000 genomes]
rs56063686	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56070531	0.88[ASN][1000 genomes]
rs56125887	0.91[ASN][1000 genomes]
rs56319412	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs56372801	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56403401	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57096664	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57287260	1.00[AFR][1000 genomes]
rs58654424	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs59046245	0.91[ASN][1000 genomes]
rs59189545	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60351339	1.00[AFR][1000 genomes]
rs61036807	0.91[ASN][1000 genomes]
rs61093440	0.91[ASN][1000 genomes]
rs9792431	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9792684	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]

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	nsv893599	chr9:98542410-98991254	Bivalent Enhancer Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
2	nsv893600	chr9:98608989-98775459	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
3	nsv1035723	chr9:98701628-98734356	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98640000-98718600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr9:98649400-98718600	Weak transcription	Spleen	Spleen
3	chr9:98675400-98718600	Weak transcription	Esophagus	oesophagus
4	chr9:98678800-98718600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr9:98681800-98736600	Weak transcription	Colonic Mucosa	Colon
6	chr9:98686400-98711000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr9:98686400-98743800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr9:98687800-98718400	Weak transcription	Stomach Mucosa	stomach
9	chr9:98687800-98726000	Weak transcription	Gastric	stomach
10	chr9:98695600-98718200	Weak transcription	Skeletal Muscle Male	skeletal muscle
11	chr9:98695800-98742400	Weak transcription	NHLF	lung
12	chr9:98697800-98713200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr9:98699600-98717600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr9:98699800-98718600	Weak transcription	NHEK	skin
15	chr9:98702400-98718600	Weak transcription	Rectal Smooth Muscle	rectum
16	chr9:98702400-98718600	Weak transcription	Small Intestine	intestine
17	chr9:98702600-98718600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr9:98702600-98718600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr9:98702600-98718600	Weak transcription	Aorta	Aorta
20	chr9:98702600-98718600	Weak transcription	Pancreas	Pancrea
21	chr9:98704000-98714200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr9:98705000-98718600	Weak transcription	K562	blood
23	chr9:98705000-98718800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr9:98705200-98716200	Weak transcription	Brain Cingulate Gyrus	brain
25	chr9:98705400-98734200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
26	chr9:98706400-98777400	Weak transcription	Psoas Muscle	Psoas
27	chr9:98706800-98734000	Weak transcription	Hela-S3	cervix
28	chr9:98707800-98712200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr9:98708000-98711000	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
30	chr9:98708000-98712000	ZNF genes & repeats	Dnd41	blood
31	chr9:98708000-98712200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
32	chr9:98708200-98712200	ZNF genes & repeats	Fetal Brain Female	brain
33	chr9:98708200-98712200	ZNF genes & repeats	Fetal Lung	lung
34	chr9:98708400-98711000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
35	chr9:98708400-98711200	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr9:98708400-98711400	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr9:98708400-98711800	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
38	chr9:98708400-98712800	ZNF genes & repeats	Fetal Intestine Large	intestine
39	chr9:98708800-98711000	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr9:98708800-98711000	ZNF genes & repeats	Primary B cells from cord blood	blood
41	chr9:98708800-98711800	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr9:98708800-98712400	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
43	chr9:98709000-98711000	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr9:98709000-98711000	Strong transcription	Muscle Satellite Cultured Cells	--
45	chr9:98709000-98711000	ZNF genes & repeats	Brain Germinal Matrix	brain
46	chr9:98709000-98711800	ZNF genes & repeats	Fetal Muscle Leg	muscle
47	chr9:98709000-98712000	ZNF genes & repeats	Fetal Muscle Trunk	muscle
48	chr9:98709000-98712200	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr9:98709000-98713800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr9:98709000-98714000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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