Variant report

Variant	rs9965365
Chromosome Location	chr18:43702162-43702163
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:43693313..43695654-chr18:43701254..43702868,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152240	Chromatin interaction

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs11876373	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12604134	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12605796	0.80[ASN][1000 genomes]
rs12606184	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12607480	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12954742	0.87[CHB][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs12959543	0.96[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12959827	0.80[ASN][1000 genomes]
rs12963169	1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1612622	0.82[ASN][1000 genomes]
rs1658908	0.87[CHB][hapmap];0.82[JPT][hapmap]
rs1791406	0.80[ASN][1000 genomes]
rs1791407	0.87[CHB][hapmap];0.82[ASN][1000 genomes]
rs1791413	0.87[CHB][hapmap]
rs1791414	0.87[CHB][hapmap]
rs1866321	0.87[CHB][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs1866322	1.00[CEU][hapmap];0.91[CHB][hapmap];0.82[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2467669	0.92[ASN][1000 genomes]
rs2515639	0.92[ASN][1000 genomes]
rs2578184	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2578187	0.88[CEU][hapmap];0.86[CHB][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2578188	0.90[ASN][1000 genomes]
rs2578189	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2578190	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2578193	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28372325	0.81[EUR][1000 genomes]
rs28497462	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2850644	0.92[ASN][1000 genomes]
rs2852362	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2852363	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28524126	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2853801	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2853802	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28715068	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28768435	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28805990	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28809822	0.87[AFR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2886001	0.81[ASN][1000 genomes]
rs35029196	0.81[ASN][1000 genomes]
rs35122885	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35338711	0.96[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35360831	0.85[ASN][1000 genomes]
rs35657986	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3744992	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs3753069	0.85[CHB][hapmap];0.91[JPT][hapmap]
rs4243278	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4257298	0.83[ASN][1000 genomes]
rs4260155	0.92[ASN][1000 genomes]
rs4274509	0.87[CHB][hapmap];0.82[ASN][1000 genomes]
rs474878	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4890313	0.88[CEU][hapmap];0.82[CHB][hapmap]
rs4890617	0.88[CEU][hapmap];0.82[CHB][hapmap]
rs4890618	0.88[CEU][hapmap]
rs4890619	0.88[CEU][hapmap];0.86[CHB][hapmap]
rs4890620	0.88[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap]
rs4890624	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4890625	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59082804	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60986007	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6507664	0.85[ASN][1000 genomes]
rs71364518	0.92[ASN][1000 genomes]
rs7226736	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7226742	0.88[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap]
rs7229971	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7230180	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7233665	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7242845	0.80[ASN][1000 genomes]
rs8083916	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8085233	0.88[CEU][hapmap];0.96[CHB][hapmap];0.83[JPT][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8085773	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8088422	0.93[AFR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8090410	0.80[ASN][1000 genomes]
rs8096256	0.88[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap]
rs8096643	0.96[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9946831	0.88[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9950234	0.87[CHB][hapmap];0.87[JPT][hapmap]
rs9950343	0.88[CEU][hapmap];0.82[CHB][hapmap]
rs9952157	0.81[EUR][1000 genomes]
rs9954133	0.96[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9954534	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9955008	0.87[CHB][hapmap];0.87[JPT][hapmap]
rs9956803	0.88[CEU][hapmap];0.82[CHB][hapmap]
rs9965812	0.87[CHB][hapmap];0.87[JPT][hapmap];0.84[ASN][1000 genomes]
rs9966603	0.88[CEU][hapmap];0.82[CHB][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	nsv1062024	chr18:43589516-43749410	Active TSS Strong transcription Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv543694	chr18:43589516-43749410	Strong transcription Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv962965	chr18:43678008-43706302	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:43685000-43707000	Weak transcription	Spleen	Spleen
2	chr18:43685000-43709000	Weak transcription	Pancreas	Pancrea
3	chr18:43685200-43704200	Weak transcription	Psoas Muscle	Psoas
4	chr18:43685200-43704800	Weak transcription	Placenta	Placenta
5	chr18:43685200-43709000	Weak transcription	Right Ventricle	heart
6	chr18:43685200-43712600	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr18:43685200-43712600	Weak transcription	Stomach Mucosa	stomach
8	chr18:43685200-43715200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr18:43685200-43735600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr18:43685400-43702200	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr18:43685400-43702200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr18:43685400-43703600	Weak transcription	Brain Cingulate Gyrus	brain
13	chr18:43685400-43704200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr18:43685400-43704800	Weak transcription	Brain Substantia Nigra	brain
15	chr18:43685400-43704800	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr18:43685400-43708200	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr18:43685400-43709800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr18:43685400-43710600	Weak transcription	Colonic Mucosa	Colon
19	chr18:43685400-43711200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr18:43685400-43711600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr18:43685400-43714800	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr18:43685400-43714800	Weak transcription	NHDF-Ad	bronchial
23	chr18:43685400-43717200	Weak transcription	HepG2	liver
24	chr18:43685400-43729000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr18:43685400-43732200	Weak transcription	Fetal Kidney	kidney
26	chr18:43685600-43702400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr18:43686000-43710200	Weak transcription	NHEK	skin
28	chr18:43686400-43711400	Weak transcription	Fetal Brain Male	brain
29	chr18:43686600-43708200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr18:43688200-43705400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
31	chr18:43689600-43705000	Weak transcription	Gastric	stomach
32	chr18:43690000-43703400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr18:43690000-43715600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr18:43690200-43702200	Weak transcription	Brain Angular Gyrus	brain
35	chr18:43690200-43702200	Weak transcription	Colon Smooth Muscle	Colon
36	chr18:43690600-43705000	Weak transcription	Brain Germinal Matrix	brain
37	chr18:43693200-43711000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
38	chr18:43693200-43712200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr18:43693400-43710400	Strong transcription	HUES48 Cell Line	embryonic stem cell
40	chr18:43693800-43710200	Strong transcription	HUES6 Cell Line	embryonic stem cell
41	chr18:43694200-43702200	Weak transcription	Fetal Lung	lung
42	chr18:43694200-43702200	Weak transcription	HUVEC	blood vessel
43	chr18:43694200-43709600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
44	chr18:43694200-43713600	Weak transcription	Rectal Smooth Muscle	rectum
45	chr18:43694200-43714000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr18:43694200-43715600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr18:43694400-43702200	Weak transcription	NH-A	brain
48	chr18:43694600-43702400	Weak transcription	Rectal Mucosa Donor 31	rectum
49	chr18:43694600-43717400	Weak transcription	Brain Anterior Caudate	brain
50	chr18:43694800-43704800	Weak transcription	Esophagus	oesophagus

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