Variant report

Variant	rs11099838
Chromosome Location	chr4:152917056-152917057
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	chr4:152908865..152911790-chr4:152916368..152918349,2	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10517559	0.83[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11099836	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12503702	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12645594	0.83[CEU][hapmap];0.87[TSI][hapmap];0.81[AMR][1000 genomes]
rs13105209	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs1385782	0.84[ASN][1000 genomes]
rs1531917	0.83[CEU][hapmap];0.91[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17028306	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1813118	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1872314	0.83[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs2406809	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34493397	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35771940	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4696120	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4696309	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6535830	0.91[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs7668707	0.86[ASN][1000 genomes]
rs900903	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9307889	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs975820	0.83[CEU][hapmap];0.91[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.82[EUR][1000 genomes];0.86[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:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:152913800-152919400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr4:152914200-152919400	Weak transcription	Fetal Heart	heart
3	chr4:152914400-152919600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr4:152914600-152918400	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr4:152914600-152918400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr4:152914600-152918400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr4:152914600-152918600	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr4:152914600-152919800	Weak transcription	Fetal Brain Female	brain
9	chr4:152914600-152920000	Weak transcription	Aorta	Aorta
10	chr4:152914800-152918600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr4:152914800-152918800	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr4:152915000-152918400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr4:152915200-152930200	Weak transcription	Right Atrium	heart
14	chr4:152915400-152918600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr4:152915400-152918600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr4:152915600-152918600	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr4:152915600-152924200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr4:152915600-152924200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr4:152915800-152924200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr4:152916000-152924400	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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