Variant report

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:152910473..152912212-chr4:152924157..152926930,2	MCF-7	breast:

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11732516	1.00[JPT][hapmap]
rs13129634	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1364870	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs173405	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17361440	1.00[JPT][hapmap]
rs28429024	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs360904	0.82[ASN][1000 genomes]
rs360905	0.82[ASN][1000 genomes]
rs360909	0.92[CEU][hapmap];1.00[CHB][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.91[TSI][hapmap]
rs360911	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs360925	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs360928	0.81[ASN][1000 genomes]
rs360934	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs360935	0.94[ASN][1000 genomes]
rs360943	0.82[ASN][1000 genomes]
rs360944	0.82[ASN][1000 genomes]
rs360945	0.82[ASN][1000 genomes]
rs360946	0.82[ASN][1000 genomes]
rs360951	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.82[ASN][1000 genomes]
rs360952	0.82[ASN][1000 genomes]
rs361146	0.94[ASN][1000 genomes]
rs566370	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs578738	0.82[ASN][1000 genomes]
rs6844372	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6845076	0.94[ASN][1000 genomes]
rs879169	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9991939	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1425398	FGG	cis	cerebellum	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:152915200-152930200	Weak transcription	Right Atrium	heart
2	chr4:152919600-152930200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr4:152919800-152930200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr4:152920400-152928200	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr4:152921400-152931600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr4:152921800-152927400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr4:152924000-152926200	Enhancers	Fetal Thymus	thymus
8	chr4:152924800-152930200	Weak transcription	Primary T cells from cord blood	blood
9	chr4:152924800-152930200	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr4:152924800-152930200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr4:152925000-152930200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr4:152925200-152930200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr4:152925800-152926200	Enhancers	Fetal Heart	heart
14	chr4:152925800-152929200	Weak transcription	Thymus	Thymus

Quick Search: