Variant report

Variant	rs660959
Chromosome Location	chr18:29838518-29838519
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	chr18:29837235..29838765-chr18:29839489..29841604,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs596653	1.00[CHB][hapmap];0.85[JPT][hapmap];0.97[ASN][1000 genomes]
rs609285	1.00[CHB][hapmap];0.85[JPT][hapmap];0.86[YRI][hapmap]
rs618862	1.00[CHB][hapmap];0.85[JPT][hapmap];0.97[ASN][1000 genomes]
rs624130	1.00[CHB][hapmap];0.94[CHD][hapmap];0.84[GIH][hapmap];0.85[JPT][hapmap];0.97[ASN][1000 genomes]
rs624171	0.97[ASN][1000 genomes]
rs635901	0.91[GIH][hapmap]
rs638664	1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];0.92[JPT][hapmap];0.99[ASN][1000 genomes]
rs645526	0.84[GIH][hapmap]
rs647499	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs668567	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs669116	0.83[GIH][hapmap]
rs676968	1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];0.92[JPT][hapmap];1.00[ASN][1000 genomes]
rs682459	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs683375	0.83[EUR][1000 genomes]

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	nsv1056007	chr18:29711974-29899564	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv833616	chr18:29792336-29964212	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv528846	chr18:29832147-29890042	Strong transcription Enhancers Weak transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29823800-29848000	Weak transcription	Aorta	Aorta
2	chr18:29831400-29847600	Weak transcription	Pancreas	Pancrea
3	chr18:29834800-29838600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr18:29835200-29861600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr18:29836000-29839000	Enhancers	Primary hematopoietic stem cells short term culture	blood
6	chr18:29836200-29839200	Enhancers	Primary hematopoietic stem cells	blood
7	chr18:29836400-29839200	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr18:29836600-29839000	Enhancers	Monocytes-CD14+_RO01746	blood
9	chr18:29837000-29840200	Enhancers	Fetal Intestine Large	intestine
10	chr18:29837200-29840000	Enhancers	Rectal Mucosa Donor 31	rectum
11	chr18:29837400-29839800	Enhancers	Fetal Intestine Small	intestine
12	chr18:29837400-29847800	Weak transcription	Right Ventricle	heart
13	chr18:29837400-29867200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr18:29837600-29838600	Enhancers	HepG2	liver
15	chr18:29837600-29838800	Enhancers	Liver	Liver
16	chr18:29837600-29839000	Enhancers	Duodenum Mucosa	Duodenum
17	chr18:29837600-29848200	Weak transcription	Colonic Mucosa	Colon
18	chr18:29837800-29838600	Enhancers	Stomach Mucosa	stomach
19	chr18:29838000-29839200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr18:29838000-29847600	Weak transcription	Brain Cingulate Gyrus	brain
21	chr18:29838000-29848000	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr18:29838200-29839000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr18:29838400-29838600	Enhancers	Pancreatic Islets	Pancreatic Islet
24	chr18:29838400-29838800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr18:29838400-29847600	Weak transcription	Brain Hippocampus Middle	brain

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