Variant report

Variant	rs360925
Chromosome Location	chr4:152905397-152905398
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	chr4:152898091..152899627-chr4:152903742..152906264,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs13129634	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1364870	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1425398	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs173405	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28429024	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs360904	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs360905	0.88[ASN][1000 genomes]
rs360909	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs360911	1.00[CEU][hapmap];0.81[YRI][hapmap]
rs360914	0.82[EUR][1000 genomes]
rs360928	0.87[ASN][1000 genomes]
rs360931	0.83[EUR][1000 genomes]
rs360934	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs360935	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs360943	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs360944	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs360945	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs360946	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs360951	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs360952	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs360953	0.81[EUR][1000 genomes]
rs361146	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs361147	0.80[EUR][1000 genomes]
rs361148	0.82[EUR][1000 genomes]
rs361149	0.82[EUR][1000 genomes]
rs566370	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs578738	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6844372	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6845076	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs879169	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9991939	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][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	nsv432644	chr4:152635395-153023402	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv880341	chr4:152861685-153110256	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv931416	chr4:152877808-153440553	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:152899400-152910600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:152904200-152905400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr4:152904600-152905400	Enhancers	Adipose Nuclei	Adipose
4	chr4:152904600-152905400	Enhancers	Brain Cingulate Gyrus	brain
5	chr4:152904600-152906000	Enhancers	Pancreatic Islets	Pancreatic Islet
6	chr4:152904600-152910000	Weak transcription	Fetal Brain Male	brain
7	chr4:152904800-152905400	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr4:152904800-152913400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr4:152905000-152905600	Enhancers	Duodenum Smooth Muscle	Duodenum
10	chr4:152905000-152906000	Enhancers	Fetal Kidney	kidney
11	chr4:152905200-152905400	Enhancers	Brain Hippocampus Middle	brain
12	chr4:152905200-152910200	Weak transcription	Hela-S3	cervix

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