Variant report

Variant	rs62099915
Chromosome Location	chr18:12008019-12008020
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr18:12006542..12008097-chr18:12010125..12012103,2	MCF-7	breast:
2	chr18:11997422..12000710-chr18:12005717..12008163,3	K562	blood:
3	chr18:11994002..11996965-chr18:12008009..12011015,3	MCF-7	breast:
4	chr18:12005936..12008667-chr18:12037616..12040479,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000266995	Chromatin interaction
ENSG00000266955	Chromatin interaction
ENSG00000141401	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11659317	0.90[ASN][1000 genomes]
rs17593321	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1787983	0.90[ASN][1000 genomes]
rs1787986	0.90[ASN][1000 genomes]
rs2586219	0.90[ASN][1000 genomes]
rs2848459	0.90[ASN][1000 genomes]
rs2849407	0.90[ASN][1000 genomes]
rs3889500	0.82[ASN][1000 genomes]
rs45459505	0.89[ASN][1000 genomes]
rs59082529	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs610541	0.90[ASN][1000 genomes]
rs611930	0.90[ASN][1000 genomes]
rs612854	0.90[ASN][1000 genomes]
rs62099883	0.90[ASN][1000 genomes]
rs62099884	0.90[ASN][1000 genomes]
rs62099886	0.82[ASN][1000 genomes]
rs62099887	0.82[ASN][1000 genomes]
rs62099888	0.82[ASN][1000 genomes]
rs62099892	0.82[ASN][1000 genomes]
rs62099914	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6505707	0.89[ASN][1000 genomes]
rs661450	0.90[ASN][1000 genomes]
rs679246	0.90[ASN][1000 genomes]
rs7234365	0.89[ASN][1000 genomes]
rs7244659	0.90[ASN][1000 genomes]
rs72875406	0.89[ASN][1000 genomes]
rs8087838	0.90[ASN][1000 genomes]
rs8091268	0.90[ASN][1000 genomes]
rs9950799	0.90[ASN][1000 genomes]
rs9960943	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1055453	chr18:11776790-12110135	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv543654	chr18:11776790-12110135	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	esv2758470	chr18:11897023-12076102	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
4	esv2758713	chr18:11897023-12076102	Flanking Active TSS Active TSS Enhancers Genic enhancers Weak transcription Strong transcription 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	35 gene(s)	inside rSNPs	diseases
5	nsv909384	chr18:11907374-12101109	Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
6	nsv909386	chr18:11938102-12095950	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
7	nsv909388	chr18:11987988-12141372	Bivalent/Poised TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
8	nsv909389	chr18:11987988-12141625	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
9	nsv909390	chr18:11987988-12155371	Active TSS Genic enhancers Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
10	nsv528699	chr18:11989416-12029857	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
11	nsv909391	chr18:11989416-12146408	Active TSS Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
12	nsv909392	chr18:11989416-12146698	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
13	nsv909393	chr18:12001258-12155371	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:11982600-12028600	Weak transcription	Small Intestine	intestine
2	chr18:11993400-12016000	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr18:11995600-12014400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr18:11996200-12012200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr18:11996200-12014800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr18:11996200-12015400	Weak transcription	Brain Anterior Caudate	brain
7	chr18:11996600-12035000	Weak transcription	Primary T cells from cord blood	blood
8	chr18:11996800-12017200	Weak transcription	Fetal Thymus	thymus
9	chr18:11996800-12034400	Weak transcription	Primary B cells from cord blood	blood
10	chr18:11997000-12034400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr18:11998400-12013200	Weak transcription	Right Atrium	heart
12	chr18:11998400-12014400	Weak transcription	Psoas Muscle	Psoas
13	chr18:11998400-12015200	Weak transcription	Brain Hippocampus Middle	brain
14	chr18:11998400-12034000	Strong transcription	Monocytes-CD14+_RO01746	blood
15	chr18:11998600-12010000	Weak transcription	Colon Smooth Muscle	Colon
16	chr18:11998800-12029400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr18:11999000-12017400	Strong transcription	HUES48 Cell Line	embryonic stem cell
18	chr18:11999000-12019200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr18:11999000-12019400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
20	chr18:11999000-12019400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr18:11999000-12034000	Strong transcription	Primary monocytes fromperipheralblood	blood
22	chr18:11999000-12035400	Strong transcription	Primary neutrophils fromperipheralblood	blood
23	chr18:11999200-12008400	Weak transcription	Fetal Kidney	kidney
24	chr18:11999200-12012600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr18:11999200-12015400	Weak transcription	HSMM	muscle
26	chr18:11999200-12035800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
27	chr18:11999800-12008400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr18:11999800-12008400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr18:11999800-12012600	Weak transcription	Brain Germinal Matrix	brain
30	chr18:11999800-12014400	Weak transcription	Fetal Brain Female	brain
31	chr18:11999800-12015600	Weak transcription	HSMMtube	muscle
32	chr18:12000800-12018400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr18:12001800-12009600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr18:12001800-12009800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr18:12002000-12008400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr18:12002000-12009800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr18:12002000-12013000	Weak transcription	Rectal Smooth Muscle	rectum
38	chr18:12002000-12013600	Weak transcription	Thymus	Thymus
39	chr18:12002000-12028400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr18:12002600-12008400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr18:12002600-12010200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr18:12003600-12012600	Enhancers	Stomach Mucosa	stomach
43	chr18:12003600-12025600	Strong transcription	HUES64 Cell Line	embryonic stem cell
44	chr18:12003600-12027000	Strong transcription	Placenta	Placenta
45	chr18:12003800-12008600	Strong transcription	Lung	lung
46	chr18:12003800-12010800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr18:12003800-12015200	Strong transcription	Adipose Nuclei	Adipose
48	chr18:12003800-12018600	Strong transcription	H1 Cell Line	embryonic stem cell
49	chr18:12004200-12009200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr18:12004200-12009600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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