Variant report

Variant	rs16892418
Chromosome Location	chr4:15810779-15810780
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:15809317..15811696-chr4:15960415..15963386,3	MCF-7	breast:

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs1004124	0.92[JPT][hapmap]
rs1112243	0.92[JPT][hapmap];0.94[ASN][1000 genomes]
rs1112244	0.92[JPT][hapmap];0.94[ASN][1000 genomes]
rs11574928	0.92[JPT][hapmap];0.94[ASN][1000 genomes]
rs11937594	0.98[ASN][1000 genomes]
rs16892438	0.92[JPT][hapmap];0.95[ASN][1000 genomes]
rs16892441	0.92[JPT][hapmap];0.95[ASN][1000 genomes]
rs16892453	0.92[JPT][hapmap]
rs17848900	0.95[ASN][1000 genomes]
rs1800051	0.92[JPT][hapmap];0.95[ASN][1000 genomes]
rs1989182	0.94[ASN][1000 genomes]
rs2286552	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2286553	0.92[JPT][hapmap];0.95[ASN][1000 genomes]
rs28494757	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3756240	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3756243	0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs3796865	0.92[JPT][hapmap];0.95[ASN][1000 genomes]
rs3796866	0.92[JPT][hapmap];0.95[ASN][1000 genomes]
rs3796871	0.92[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3822256	0.92[JPT][hapmap];0.98[ASN][1000 genomes]
rs3822257	0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs4508877	0.92[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56847340	0.95[ASN][1000 genomes]
rs57522122	0.94[ASN][1000 genomes]
rs58716318	0.95[ASN][1000 genomes]
rs58955205	0.94[ASN][1000 genomes]
rs59907454	0.95[ASN][1000 genomes]
rs60276707	0.95[ASN][1000 genomes]
rs61638287	0.94[ASN][1000 genomes]
rs6449195	0.86[JPT][hapmap]
rs6449197	0.86[JPT][hapmap]
rs6836374	0.92[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72616175	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72616176	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72616177	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72616178	0.98[ASN][1000 genomes]
rs72616179	0.96[ASN][1000 genomes]
rs72616180	0.95[ASN][1000 genomes]
rs72616181	0.95[ASN][1000 genomes]
rs72616182	0.95[ASN][1000 genomes]
rs72616183	0.95[ASN][1000 genomes]
rs72616184	0.95[ASN][1000 genomes]
rs72616185	0.95[ASN][1000 genomes]
rs72616186	0.95[ASN][1000 genomes]
rs72616187	0.95[ASN][1000 genomes]
rs72616188	0.95[ASN][1000 genomes]
rs72616189	0.95[ASN][1000 genomes]
rs72616190	0.95[ASN][1000 genomes]
rs72616191	0.95[ASN][1000 genomes]
rs72616192	0.95[ASN][1000 genomes]
rs7690685	0.92[JPT][hapmap];0.96[ASN][1000 genomes]
rs953870	0.92[JPT][hapmap];0.95[ASN][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	nsv1012988	chr4:15597510-16091527	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv10460	chr4:15757611-15818206	ZNF genes & repeats Enhancers Active TSS Bivalent/Poised TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1013204	chr4:15762970-15836237	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv1010597	chr4:15776181-15836237	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats 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 target site	3 gene(s)	inside rSNPs	diseases
5	nsv916742	chr4:15797994-16064232	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS 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:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15794000-15812200	Genic enhancers	Dnd41	blood
2	chr4:15808000-15813200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr4:15808200-15811400	Enhancers	Spleen	Spleen
4	chr4:15808400-15819400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr4:15808600-15810800	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr4:15809200-15810800	Weak transcription	Left Ventricle	heart
7	chr4:15809400-15810800	Enhancers	Primary T cells from cord blood	blood
8	chr4:15809400-15811400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr4:15809400-15811400	Enhancers	Fetal Thymus	thymus
10	chr4:15809600-15811400	Enhancers	Primary hematopoietic stem cells	blood
11	chr4:15809800-15810800	Enhancers	Psoas Muscle	Psoas
12	chr4:15809800-15811200	Flanking Active TSS	GM12878-XiMat	blood
13	chr4:15809800-15811400	Enhancers	Primary B cells from peripheral blood	blood
14	chr4:15810000-15811400	Enhancers	Primary T helper cells PMA-I stimulated	--
15	chr4:15810200-15810800	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr4:15810200-15811000	Enhancers	Duodenum Smooth Muscle	Duodenum
17	chr4:15810200-15811600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
18	chr4:15810400-15810800	Enhancers	Primary hematopoietic stem cells short term culture	blood
19	chr4:15810400-15810800	Enhancers	Sigmoid Colon	Sigmoid Colon
20	chr4:15810400-15811400	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
21	chr4:15810400-15811400	Enhancers	Primary T cells fromperipheralblood	blood
22	chr4:15810400-15811400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr4:15810400-15811400	Genic enhancers	Thymus	Thymus
24	chr4:15810400-15811600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
25	chr4:15810400-15811800	Enhancers	Primary T helper cells fromperipheralblood	blood
26	chr4:15810600-15810800	Flanking Active TSS	Duodenum Mucosa	Duodenum
27	chr4:15810600-15810800	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
28	chr4:15810600-15811000	Bivalent/Poised TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr4:15810600-15811000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
30	chr4:15810600-15811000	Flanking Active TSS	Adipose Nuclei	Adipose
31	chr4:15810600-15811200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr4:15810600-15811400	Flanking Active TSS	Primary B cells from cord blood	blood
33	chr4:15810600-15811400	Enhancers	Primary T helper naive cells from peripheral blood	blood
34	chr4:15810600-15811400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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