Variant report

Variant	rs1660561
Chromosome Location	chr18:43429337-43429338
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1055066	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs10853537	0.88[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11082490	0.87[CEU][hapmap]
rs11082491	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11082492	0.85[ASN][1000 genomes]
rs11082493	0.82[ASN][1000 genomes]
rs11660043	0.81[AFR][1000 genomes]
rs11660631	0.93[YRI][hapmap]
rs11661333	0.88[CEU][hapmap]
rs11663670	0.90[YRI][hapmap]
rs12455488	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12456289	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12458195	0.87[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12604912	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1371976	0.87[CEU][hapmap]
rs1790299	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1893523	0.87[CEU][hapmap]
rs2282614	0.93[YRI][hapmap];0.85[AFR][1000 genomes]
rs2919643	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2958437	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34185907	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35316177	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs492411	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs500899	1.00[CEU][hapmap];0.82[JPT][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs507653	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs570975	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs571690	1.00[CEU][hapmap];0.85[CHB][hapmap];0.85[JPT][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61104666	0.96[ASN][1000 genomes]
rs7233909	0.91[CEU][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8083287	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8085782	0.87[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs8095439	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8099496	0.88[CEU][hapmap];0.84[CHB][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9950673	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9958081	0.83[EUR][1000 genomes];0.87[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	nsv525268	chr18:42748365-43474795	Weak transcription Enhancers Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1660561	KIAA1632	cis	multi-tissue	Pritchard

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:43418400-43439000	Weak transcription	A549	lung
2	chr18:43418600-43437400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr18:43419000-43429800	Weak transcription	Aorta	Aorta
4	chr18:43419200-43434000	Weak transcription	Small Intestine	intestine
5	chr18:43419400-43429600	Weak transcription	Right Ventricle	heart
6	chr18:43419600-43429400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr18:43419600-43429600	Weak transcription	Gastric	stomach
8	chr18:43419600-43429800	Weak transcription	Left Ventricle	heart
9	chr18:43419800-43431400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr18:43420000-43429400	Weak transcription	Primary hematopoietic stem cells	blood
11	chr18:43420000-43432400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr18:43420000-43436200	Weak transcription	Hela-S3	cervix
13	chr18:43420200-43429600	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr18:43420200-43431200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr18:43420200-43491800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr18:43420600-43429400	Weak transcription	NHDF-Ad	bronchial
17	chr18:43420800-43435400	Weak transcription	HMEC	breast
18	chr18:43420800-43442000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr18:43421200-43429600	Weak transcription	Brain Substantia Nigra	brain
20	chr18:43421200-43431200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr18:43421400-43429400	Weak transcription	HSMMtube	muscle
22	chr18:43422600-43432400	Weak transcription	Fetal Kidney	kidney
23	chr18:43422800-43429600	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr18:43423000-43429600	Weak transcription	Fetal Lung	lung
25	chr18:43423000-43429800	Weak transcription	Primary B cells from cord blood	blood
26	chr18:43423200-43429400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr18:43423400-43432400	Weak transcription	HepG2	liver
28	chr18:43423600-43429400	Weak transcription	Monocytes-CD14+_RO01746	blood
29	chr18:43423800-43429400	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr18:43424000-43429400	Weak transcription	Stomach Smooth Muscle	stomach
31	chr18:43424400-43429800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr18:43424800-43431200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr18:43425200-43429400	Weak transcription	Primary T cells fromperipheralblood	blood
34	chr18:43425200-43431200	Weak transcription	Pancreatic Islets	Pancreatic Islet
35	chr18:43425800-43429400	Weak transcription	HUES6 Cell Line	embryonic stem cell
36	chr18:43425800-43431400	Weak transcription	Fetal Heart	heart
37	chr18:43425800-43437400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr18:43426000-43429600	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr18:43426000-43438200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr18:43426200-43429400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr18:43426400-43429600	Weak transcription	Primary T helper cells PMA-I stimulated	--
42	chr18:43426400-43435000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
43	chr18:43426400-43446000	Weak transcription	Stomach Mucosa	stomach
44	chr18:43426600-43429400	Weak transcription	Brain Anterior Caudate	brain
45	chr18:43426800-43429400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr18:43427000-43431400	Weak transcription	HUES48 Cell Line	embryonic stem cell
47	chr18:43427000-43431600	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr18:43427000-43435200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
49	chr18:43427000-43441600	Strong transcription	Fetal Muscle Trunk	muscle
50	chr18:43427200-43429400	Strong transcription	Osteobl	bone

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