Variant report

Variant	rs4699831
Chromosome Location	chr4:95966894-95966895
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	chr4:95966448..95968999-chr4:96005215..96007562,2	MCF-7	breast:

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10017056	0.96[CEU][hapmap];0.86[CHB][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10018945	0.91[ASW][hapmap];0.84[CEU][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.83[EUR][1000 genomes]
rs12644723	0.84[EUR][1000 genomes]
rs13103406	0.95[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13103870	0.94[CEU][hapmap];0.91[CHB][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13111378	0.95[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13118960	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13127255	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13128282	0.95[CEU][hapmap];0.85[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13131684	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13139927	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13146146	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13152791	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1347345	0.91[ASW][hapmap];0.80[CEU][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.83[EUR][1000 genomes]
rs1434545	1.00[CEU][hapmap];0.86[CHB][hapmap];0.84[CHD][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1545328	0.92[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs17344975	1.00[ASW][hapmap];0.96[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17403454	1.00[ASW][hapmap];0.96[CEU][hapmap];0.92[CHB][hapmap];0.91[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17404327	0.96[CEU][hapmap];0.92[CHB][hapmap];0.94[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17411701	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17411860	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1836264	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28601734	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34484245	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34745188	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34755714	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34800104	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35653658	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35697886	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35888953	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35966830	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3775031	0.80[JPT][hapmap]
rs3775041	0.90[ASN][1000 genomes]
rs3796439	0.83[MEX][hapmap];0.80[TSI][hapmap]
rs3821964	0.87[MEX][hapmap];0.80[TSI][hapmap]
rs4145994	0.95[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62316229	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62316236	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62316238	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62316240	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62316255	0.82[EUR][1000 genomes]
rs6532526	0.84[EUR][1000 genomes]
rs6532527	0.91[ASW][hapmap];0.80[CEU][hapmap];0.91[MEX][hapmap];0.90[TSI][hapmap];0.84[EUR][1000 genomes]
rs6815593	1.00[ASW][hapmap];0.96[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6815752	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6821072	0.92[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6823424	0.82[EUR][1000 genomes]
rs6829326	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6836821	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6838546	0.87[CEU][hapmap];0.86[CHB][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6854585	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6855319	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs723169	0.87[ASN][1000 genomes]
rs723170	0.87[ASN][1000 genomes]
rs7377902	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7669755	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7681920	0.80[CEU][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.83[EUR][1000 genomes]
rs7682651	1.00[CEU][hapmap];0.86[CHB][hapmap];0.84[CHD][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7690400	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7694043	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932216	chr4:95501261-96109807	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS 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	9 gene(s)	inside rSNPs	diseases
2	nsv1003860	chr4:95507683-96120619	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv869528	chr4:95537649-96368018	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv492312	chr4:95823124-96128327	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv879622	chr4:95917980-95984379	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv830011	chr4:95947560-96103934	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:95957000-95972400	Weak transcription	Psoas Muscle	Psoas
2	chr4:95963800-95968200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr4:95964600-95967000	Enhancers	Brain Angular Gyrus	brain
4	chr4:95964800-95967200	Enhancers	Fetal Kidney	kidney
5	chr4:95965200-95967200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr4:95965400-95967000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr4:95965400-95967000	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr4:95965400-95967000	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr4:95965400-95967000	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr4:95965400-95967000	Enhancers	iPS-20b Cell Line	embryonic stem cell
11	chr4:95965400-95967000	Enhancers	Brain Germinal Matrix	brain
12	chr4:95965400-95967000	Enhancers	Brain Substantia Nigra	brain
13	chr4:95965400-95967000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr4:95965400-95967800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr4:95965600-95967000	Enhancers	Aorta	Aorta
16	chr4:95965600-95967000	Enhancers	Brain Cingulate Gyrus	brain
17	chr4:95965600-95967000	Enhancers	NH-A	brain
18	chr4:95965600-95967400	Enhancers	Ovary	ovary
19	chr4:95965600-95967800	Enhancers	Brain Hippocampus Middle	brain
20	chr4:95965800-95967600	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr4:95966000-95968600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr4:95966200-95967000	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr4:95966200-95967200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr4:95966400-95967000	Enhancers	Skeletal Muscle Female	skeletal muscle
25	chr4:95966600-95967000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr4:95966600-95967000	Bivalent Enhancer	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr4:95966600-95967000	Enhancers	Brain Inferior Temporal Lobe	brain
28	chr4:95966600-95967000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
29	chr4:95966600-95967200	Flanking Active TSS	A549	lung
30	chr4:95966600-95968600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr4:95966800-95967000	Enhancers	Fetal Stomach	stomach
32	chr4:95966800-95967800	Enhancers	Brain Anterior Caudate	brain
33	chr4:95966800-95968200	Enhancers	Cortex derived primary cultured neurospheres	brain
34	chr4:95966800-95971400	Weak transcription	Fetal Brain Female	brain
35	chr4:95966800-95972800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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