Variant report

Variant	rs11564393
Chromosome Location	chr18:25672377-25672378
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10502507	0.93[CHB][hapmap];0.85[JPT][hapmap];0.85[YRI][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10853680	0.93[CHB][hapmap];0.84[EUR][1000 genomes]
rs10853681	0.93[CHB][hapmap];0.84[JPT][hapmap];0.82[YRI][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11083245	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11083246	0.86[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.85[YRI][hapmap];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11083248	0.86[CEU][hapmap];0.93[CHB][hapmap];0.85[JPT][hapmap];0.85[YRI][hapmap];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11564308	0.88[CHB][hapmap];0.84[EUR][1000 genomes]
rs11564329	0.88[CHB][hapmap];0.85[JPT][hapmap];0.85[YRI][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11564330	0.93[CHB][hapmap];0.85[EUR][1000 genomes]
rs11564332	0.88[CHB][hapmap];0.84[EUR][1000 genomes]
rs11564396	0.82[EUR][1000 genomes]
rs11564397	0.86[CEU][hapmap];0.93[CHB][hapmap];0.84[JPT][hapmap];0.82[YRI][hapmap];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11564400	0.82[CHB][hapmap];0.82[EUR][1000 genomes]
rs11564405	0.86[CEU][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11564412	0.93[CHB][hapmap];0.86[EUR][1000 genomes]
rs11564413	0.93[CHB][hapmap];0.84[EUR][1000 genomes]
rs1220021	0.85[YRI][hapmap]
rs1220034	0.85[YRI][hapmap]
rs12958882	0.84[EUR][1000 genomes]
rs1373138	0.81[EUR][1000 genomes]
rs1443450	0.93[CHB][hapmap];0.83[YRI][hapmap];0.85[EUR][1000 genomes]
rs1443451	0.88[CHB][hapmap];0.84[EUR][1000 genomes]
rs1443453	0.93[CHB][hapmap];0.82[EUR][1000 genomes]
rs17445875	0.84[EUR][1000 genomes]
rs17446001	0.93[CHB][hapmap];0.86[EUR][1000 genomes]
rs17446316	0.81[EUR][1000 genomes]
rs17463213	0.88[CHB][hapmap];0.85[JPT][hapmap];0.85[YRI][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17463233	0.93[CHB][hapmap];0.85[JPT][hapmap];0.85[YRI][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17463295	0.86[CEU][hapmap];0.93[CHB][hapmap];0.85[JPT][hapmap];0.85[YRI][hapmap];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17468636	0.93[CHB][hapmap];0.85[JPT][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17468678	0.86[CEU][hapmap];0.88[CHB][hapmap];0.80[JPT][hapmap]
rs1808940	0.93[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.85[YRI][hapmap];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1816825	0.82[EUR][1000 genomes]
rs1838161	0.88[CHB][hapmap];0.83[YRI][hapmap];0.84[EUR][1000 genomes]
rs1867285	0.93[CHB][hapmap];0.84[JPT][hapmap];0.82[YRI][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1941180	0.86[CHB][hapmap];0.85[EUR][1000 genomes]
rs1944292	0.88[CHB][hapmap];0.85[JPT][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1944294	0.87[CHB][hapmap];0.84[EUR][1000 genomes]
rs1972934	0.93[CHB][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2053599	0.93[CHB][hapmap];0.85[JPT][hapmap];0.85[YRI][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2156605	0.88[CHB][hapmap];0.84[EUR][1000 genomes]
rs2218361	0.93[CHB][hapmap];0.83[YRI][hapmap];0.84[EUR][1000 genomes]
rs2310784	0.84[EUR][1000 genomes]
rs4144654	0.88[CHB][hapmap];0.83[YRI][hapmap];0.84[EUR][1000 genomes]
rs4598992	0.93[CHB][hapmap];0.84[EUR][1000 genomes]
rs4800837	0.80[EUR][1000 genomes]
rs4800838	0.93[CHB][hapmap];0.85[EUR][1000 genomes]
rs4800839	0.88[CHB][hapmap];0.84[EUR][1000 genomes]
rs4800841	0.86[CEU][hapmap];0.93[CHB][hapmap];0.84[JPT][hapmap];0.82[YRI][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs539075	0.81[CHB][hapmap]
rs602819	0.82[CHB][hapmap]
rs72639459	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8087860	0.87[CEU][hapmap];0.81[CHB][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs8091763	0.93[CHB][hapmap];0.85[EUR][1000 genomes]
rs8092004	0.93[CHB][hapmap];0.85[EUR][1000 genomes]
rs874314	0.86[CHB][hapmap];0.84[EUR][1000 genomes]
rs894679	0.86[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.82[YRI][hapmap];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9789221	0.93[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2761996	chr18:24866083-25818618	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS 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 miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:25655800-25690800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr18:25667400-25672400	Enhancers	Fetal Heart	heart
3	chr18:25668000-25680200	Weak transcription	HSMM	muscle
4	chr18:25668200-25688000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr18:25669000-25674800	Weak transcription	NH-A	brain
6	chr18:25669800-25676000	Weak transcription	Fetal Brain Female	brain
7	chr18:25670000-25675000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr18:25670000-25677000	Weak transcription	Fetal Brain Male	brain
9	chr18:25670400-25687800	Weak transcription	Brain Germinal Matrix	brain
10	chr18:25670600-25672400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr18:25670600-25690000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr18:25671400-25672600	Enhancers	HepG2	liver
13	chr18:25671400-25673800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr18:25671600-25673200	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr18:25671800-25674800	Weak transcription	Osteobl	bone
16	chr18:25671800-25675600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr18:25671800-25677000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr18:25672000-25673000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr18:25672000-25674000	Enhancers	A549	lung
20	chr18:25672000-25675000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr18:25672000-25688000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr18:25672200-25672400	Enhancers	HUES6 Cell Line	embryonic stem cell
23	chr18:25672200-25673000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr18:25672200-25673800	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr18:25672200-25674200	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr18:25672200-25674200	Enhancers	Liver	Liver
27	chr18:25672200-25680000	Weak transcription	Left Ventricle	heart
28	chr18:25672200-25680200	Weak transcription	HUES64 Cell Line	embryonic stem cell

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