Variant report

Variant	rs513402
Chromosome Location	chr18:184704-184705
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:183411..185886-chr18:243582..245217,2	MCF-7	breast:

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs12960837	0.84[ASN][1000 genomes]
rs1299113	0.94[ASN][1000 genomes]
rs1784380	0.92[ASN][1000 genomes]
rs1785049	0.93[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs2509447	0.94[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs471274	0.96[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs477066	0.93[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs481077	0.94[ASN][1000 genomes]
rs484863	0.92[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs489560	0.90[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs489577	0.96[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs490425	0.92[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs513894	0.80[YRI][hapmap];0.92[ASN][1000 genomes]
rs514003	0.80[YRI][hapmap];0.83[ASN][1000 genomes]
rs523239	0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs535992	0.84[ASN][1000 genomes]
rs545447	0.92[ASN][1000 genomes]
rs557249	0.89[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs577454	0.81[YRI][hapmap];0.87[ASN][1000 genomes]
rs579219	1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs585578	0.94[ASN][1000 genomes]
rs598300	0.84[ASN][1000 genomes]
rs600022	0.86[ASN][1000 genomes]
rs600220	0.81[YRI][hapmap];0.94[ASN][1000 genomes]
rs605826	0.90[ASN][1000 genomes]
rs620970	0.83[YRI][hapmap];0.94[ASN][1000 genomes]
rs621782	0.81[YRI][hapmap];0.94[ASN][1000 genomes]
rs631343	0.90[ASN][1000 genomes]
rs644438	0.87[ASN][1000 genomes]
rs655781	0.94[ASN][1000 genomes]
rs663186	0.80[YRI][hapmap];0.92[ASN][1000 genomes]
rs672856	0.81[YRI][hapmap];0.92[ASN][1000 genomes]
rs7238463	0.94[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs7241427	0.90[AFR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:26 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv909285	chr18:10001-196829	Strong transcription ZNF genes & repeats Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv1059509	chr18:11543-190140	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv1064673	chr18:11543-249310	Strong transcription Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv1061730	chr18:11543-322183	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
5	nsv1059645	chr18:11543-326679	Weak transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv576227	chr18:52933-322183	Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
7	nsv1064150	chr18:99036-321710	Genic enhancers Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
8	nsv1055303	chr18:112328-304352	Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
9	nsv543527	chr18:112328-304352	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
10	nsv543530	chr18:112528-932674	Weak transcription Strong transcription Bivalent Enhancer Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
11	nsv1067102	chr18:112528-984688	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
12	nsv543531	chr18:112528-984688	Genic enhancers Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer 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	83 gene(s)	inside rSNPs	diseases
13	nsv1066441	chr18:136228-249310	Flanking Active TSS Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
14	nsv1057029	chr18:141491-356238	Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
15	nsv1066995	chr18:141491-415027	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
16	nsv1064735	chr18:141491-483651	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
17	nsv1062680	chr18:141491-549166	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
18	nsv1067218	chr18:141491-603796	Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
19	nsv543544	chr18:141491-675519	Bivalent/Poised TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active 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	56 gene(s)	inside rSNPs	diseases
20	nsv1064998	chr18:141491-1095845	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
21	nsv543545	chr18:141491-1095845	Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
22	nsv1057105	chr18:143546-235928	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
23	nsv531216	chr18:148763-293736	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
24	nsv532441	chr18:148763-1108997	Active TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
25	nsv530373	chr18:148963-533693	Weak transcription Strong transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Active TSS 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	20 gene(s)	inside rSNPs	diseases
26	nsv482910	chr18:161390-305010	Weak transcription Flanking Active TSS Genic enhancers Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:159400-186000	Weak transcription	Aorta	Aorta
2	chr18:159600-199000	Weak transcription	Colonic Mucosa	Colon
3	chr18:159800-191400	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr18:159800-199200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr18:160000-203000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr18:160200-210800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr18:160200-218000	Weak transcription	Stomach Mucosa	stomach
8	chr18:160200-218400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr18:160600-203200	Weak transcription	Psoas Muscle	Psoas
10	chr18:161000-185600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr18:165600-196800	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr18:168800-196800	Weak transcription	Stomach Smooth Muscle	stomach
13	chr18:168800-198200	Weak transcription	Spleen	Spleen
14	chr18:171400-196800	Weak transcription	Esophagus	oesophagus
15	chr18:171400-196800	Weak transcription	Gastric	stomach
16	chr18:171400-199200	Weak transcription	Right Ventricle	heart
17	chr18:172600-196800	Weak transcription	HSMMtube	muscle
18	chr18:174000-198000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr18:177200-187600	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr18:177400-187600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr18:177600-184800	Strong transcription	HUES6 Cell Line	embryonic stem cell
22	chr18:177800-186400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr18:177800-187400	Strong transcription	HUES64 Cell Line	embryonic stem cell
24	chr18:177800-187800	Strong transcription	HUES48 Cell Line	embryonic stem cell
25	chr18:178000-185000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
26	chr18:178000-185200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr18:178000-186400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr18:178000-188000	Strong transcription	Primary monocytes fromperipheralblood	blood
29	chr18:178000-188200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr18:178000-188200	Strong transcription	K562	blood
31	chr18:178200-186400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
32	chr18:178200-186600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr18:178200-187000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
34	chr18:178200-188200	Strong transcription	Dnd41	blood
35	chr18:178200-210800	Weak transcription	Pancreas	Pancrea
36	chr18:179200-185400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
37	chr18:179800-184800	Strong transcription	Primary B cells from peripheral blood	blood
38	chr18:179800-186400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr18:180000-186400	Strong transcription	Primary T cells from cord blood	blood
40	chr18:180000-186400	Strong transcription	Placenta	Placenta
41	chr18:180200-186400	Strong transcription	Primary T cells fromperipheralblood	blood
42	chr18:180200-187000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
43	chr18:180400-184800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
44	chr18:180800-185800	Weak transcription	Thymus	Thymus
45	chr18:180800-186000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr18:180800-195400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr18:180800-196600	Weak transcription	Fetal Brain Female	brain
48	chr18:180800-197400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr18:180800-197600	Weak transcription	Fetal Brain Male	brain
50	chr18:180800-205000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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