Variant report

Variant	rs11661322
Chromosome Location	chr18:13012294-13012295
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr18:13011595..13014451-chr18:13022338..13025597,3	K562	blood:
2	chr18:13007679..13010088-chr18:13010459..13012562,3	MCF-7	breast:
3	chr18:12948369..12950380-chr18:13012001..13014078,2	MCF-7	breast:
4	chr18:13005973..13010293-chr18:13010945..13016476,6	K562	blood:
5	chr18:12995796..12999639-chr18:13011054..13013784,3	K562	blood:

Variant related genes	Relation type
ENSG00000101639	Chromatin interaction
ENSG00000085415	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 10 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs12963426	0.84[EUR][1000 genomes]
rs1523064	0.82[EUR][1000 genomes]
rs17659689	0.83[EUR][1000 genomes]
rs17659749	0.83[EUR][1000 genomes]
rs2015763	0.87[EUR][1000 genomes]
rs28551661	0.83[EUR][1000 genomes]
rs4499304	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56263236	0.80[EUR][1000 genomes]
rs58871601	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7230391	0.86[EUR][1000 genomes]
rs7230435	0.84[EUR][1000 genomes]
rs7234163	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7237711	0.87[EUR][1000 genomes]
rs8086882	0.82[EUR][1000 genomes]
rs8089724	0.87[EUR][1000 genomes]
rs8093576	0.80[EUR][1000 genomes]
rs8096860	0.87[EUR][1000 genomes]
rs9958986	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062014	chr18:12687210-13183383	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
2	nsv543655	chr18:12687210-13183383	Flanking Bivalent TSS/Enh Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
3	nsv1057083	chr18:12916779-13207538	Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv576524	chr18:12918318-13183609	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
5	nsv1056593	chr18:12926314-13183383	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
6	nsv1064364	chr18:12926314-13207686	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
7	nsv1062413	chr18:12988947-13039941	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
8	nsv543657	chr18:12988947-13039941	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

mRNA abundance (count:10)

SNP	Gene	Cis/trans	Tissue	Source
rs11661322	CEP192	cis	Esophagus Mucosa	GTEx
rs11661322	CEP192	cis	Artery Aorta	GTEx
rs11661322	CEP192	cis	Nerve Tibial	GTEx
rs11661322	CEP192	cis	Adipose Subcutaneous	GTEx
rs11661322	CEP192	cis	Artery Tibial	GTEx
rs11661322	CEP192	cis	lung	GTEx
rs11661322	CEP192	cis	Esophagus Muscularis	GTEx
rs11661322	CEP192	cis	Thyroid	GTEx
rs11661322	CEP192	Cis_1M	lymphoblastoid	RTeQTL
rs11661322	CEP192	cis	Whole Blood	GTEx

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:12992600-13031200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr18:12992800-13013200	Weak transcription	Fetal Kidney	kidney
3	chr18:12992800-13016000	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr18:12993000-13023800	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr18:12993400-13017800	Weak transcription	Stomach Mucosa	stomach
6	chr18:12995200-13042000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr18:12997200-13013200	Weak transcription	Small Intestine	intestine
8	chr18:12997400-13015000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr18:12998400-13041600	Strong transcription	Dnd41	blood
10	chr18:12999200-13039000	Strong transcription	Fetal Thymus	thymus
11	chr18:12999400-13020800	Strong transcription	Primary T cells fromperipheralblood	blood
12	chr18:12999400-13021800	Strong transcription	Primary T cells from cord blood	blood
13	chr18:12999600-13017200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr18:12999600-13018800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr18:13000400-13034000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr18:13002800-13021200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
17	chr18:13003400-13016800	Strong transcription	Thymus	Thymus
18	chr18:13004000-13015000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr18:13004600-13018200	Strong transcription	GM12878-XiMat	blood
20	chr18:13004800-13024200	Strong transcription	Primary T helper cells fromperipheralblood	blood
21	chr18:13004800-13031800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr18:13005000-13039200	Strong transcription	Primary B cells from peripheral blood	blood
23	chr18:13005400-13017400	Strong transcription	Sigmoid Colon	Sigmoid Colon
24	chr18:13005400-13018600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr18:13005400-13018600	Strong transcription	Fetal Intestine Large	intestine
26	chr18:13005400-13033400	Strong transcription	HUES64 Cell Line	embryonic stem cell
27	chr18:13005600-13015800	Weak transcription	Esophagus	oesophagus
28	chr18:13005800-13013200	Weak transcription	Aorta	Aorta
29	chr18:13005800-13015600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr18:13006400-13034400	Strong transcription	Rectal Mucosa Donor 29	rectum
31	chr18:13006600-13018000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr18:13006800-13014000	Strong transcription	HepG2	liver
33	chr18:13007200-13013400	Weak transcription	Fetal Heart	heart
34	chr18:13007200-13044000	Strong transcription	Monocytes-CD14+_RO01746	blood
35	chr18:13007400-13012600	Weak transcription	Fetal Brain Male	brain
36	chr18:13007600-13014800	Weak transcription	Fetal Brain Female	brain
37	chr18:13007600-13014800	Weak transcription	HSMMtube	muscle
38	chr18:13007600-13018000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
39	chr18:13007800-13021000	Strong transcription	Liver	Liver
40	chr18:13007800-13022400	Strong transcription	HUES48 Cell Line	embryonic stem cell
41	chr18:13008000-13019200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr18:13008000-13022000	Strong transcription	Primary neutrophils fromperipheralblood	blood
43	chr18:13008000-13025000	Strong transcription	HUES6 Cell Line	embryonic stem cell
44	chr18:13008000-13046000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
45	chr18:13008200-13013800	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr18:13008200-13016800	Strong transcription	Fetal Stomach	stomach
47	chr18:13008200-13021200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr18:13008400-13017000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr18:13008400-13017600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr18:13008400-13018200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--

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