Variant report

Variant	rs17802774
Chromosome Location	chr18:29134846-29134847
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	chr18:29003931..29004668-chr18:29134416..29135171,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10163532	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs10502573	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11542765	0.95[EUR][1000 genomes]
rs12327220	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs12604517	1.00[CEU][hapmap];0.87[JPT][hapmap];0.92[EUR][1000 genomes]
rs12605787	0.83[EUR][1000 genomes]
rs12607843	0.92[EUR][1000 genomes]
rs12607944	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1375443	0.95[EUR][1000 genomes]
rs16962075	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16962077	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1791155	0.97[EUR][1000 genomes]
rs2053825	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2053826	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2053827	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2096918	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs2256638	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2278792	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2290128	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2290129	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3737375	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs3737378	0.92[EUR][1000 genomes]
rs3829628	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4470222	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4471764	0.86[EUR][1000 genomes]
rs55899143	0.95[EUR][1000 genomes]
rs56389431	0.93[EUR][1000 genomes]
rs62095191	0.93[EUR][1000 genomes]
rs62095194	0.93[EUR][1000 genomes]
rs62095195	0.93[EUR][1000 genomes]
rs62095196	0.93[EUR][1000 genomes]
rs62095222	0.92[EUR][1000 genomes]
rs62095223	0.92[EUR][1000 genomes]
rs62095226	0.95[EUR][1000 genomes]
rs7244098	0.83[EUR][1000 genomes]
rs7506013	0.93[EUR][1000 genomes]
rs9807377	0.90[EUR][1000 genomes]
rs9807379	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1066692	chr18:28856066-29190505	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv543674	chr18:28856066-29190505	Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv916545	chr18:28898800-29166364	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh 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	14 gene(s)	inside rSNPs	diseases
4	nsv833615	chr18:29008396-29192976	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv576635	chr18:29129931-29148814	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29117000-29136000	Weak transcription	A549	lung
2	chr18:29123600-29142200	Weak transcription	Fetal Kidney	kidney
3	chr18:29126600-29136200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr18:29126800-29136000	Weak transcription	GM12878-XiMat	blood
5	chr18:29126800-29136200	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr18:29127000-29136200	Weak transcription	Primary hematopoietic stem cells	blood
7	chr18:29127200-29136000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr18:29127200-29136200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr18:29127200-29136200	Weak transcription	Ovary	ovary
10	chr18:29127200-29136200	Weak transcription	Hela-S3	cervix
11	chr18:29127400-29136000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr18:29127600-29136000	Weak transcription	NHEK	skin
13	chr18:29127600-29136200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr18:29129200-29143200	Weak transcription	Gastric	stomach
15	chr18:29130200-29136200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr18:29130400-29135000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr18:29130400-29136200	Weak transcription	HMEC	breast
18	chr18:29132200-29135200	Weak transcription	Stomach Mucosa	stomach
19	chr18:29133200-29136600	Enhancers	Liver	Liver
20	chr18:29134000-29135400	Enhancers	HepG2	liver
21	chr18:29134200-29135600	Enhancers	Fetal Intestine Large	intestine
22	chr18:29134200-29136400	Enhancers	Duodenum Mucosa	Duodenum
23	chr18:29134200-29136600	Enhancers	Fetal Intestine Small	intestine
24	chr18:29134400-29135000	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr18:29134600-29135400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr18:29134800-29135200	Enhancers	HUES48 Cell Line	embryonic stem cell

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