Variant report

Variant	rs41354246
Chromosome Location	chr3:150524636-150524637
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	chr3:150524473..150525379-chr8:43092408..43093387,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1373418	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1444197	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1533711	1.00[CEU][hapmap]
rs16862837	1.00[CEU][hapmap]
rs16862842	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs16862858	0.82[EUR][1000 genomes]
rs1838337	0.81[EUR][1000 genomes]
rs1879420	1.00[CEU][hapmap]
rs1879421	1.00[CEU][hapmap]
rs1915365	0.81[EUR][1000 genomes]
rs2014279	1.00[CEU][hapmap]
rs2018246	1.00[CEU][hapmap]
rs2116684	1.00[CEU][hapmap]
rs34348847	1.00[CEU][hapmap]
rs34771595	0.87[EUR][1000 genomes]
rs3851356	1.00[CEU][hapmap]
rs41372346	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs41454348	1.00[CEU][hapmap]
rs57278175	0.87[EUR][1000 genomes]
rs58403524	0.81[EUR][1000 genomes]
rs60523415	0.81[EUR][1000 genomes]
rs6440697	1.00[CEU][hapmap]
rs6440699	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6788895	1.00[CEU][hapmap]
rs6789306	1.00[CEU][hapmap]
rs6792791	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs6795396	0.87[EUR][1000 genomes]
rs6803830	0.81[EUR][1000 genomes]
rs6805481	1.00[CEU][hapmap]
rs6806197	0.87[EUR][1000 genomes]
rs71764080	0.81[EUR][1000 genomes]
rs72993403	0.81[EUR][1000 genomes]
rs73003787	0.87[EUR][1000 genomes]
rs73003792	0.80[AMR][1000 genomes]
rs73005813	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73005814	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73010947	0.87[EUR][1000 genomes]
rs73010967	0.81[EUR][1000 genomes]
rs73869297	0.87[EUR][1000 genomes]
rs7615125	1.00[CEU][hapmap]
rs7615292	1.00[CEU][hapmap]
rs7617507	1.00[CEU][hapmap]
rs7628481	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7628776	1.00[CEU][hapmap];0.90[JPT][hapmap];0.81[AMR][1000 genomes]
rs7636866	1.00[CEU][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532662	chr3:150180747-150633414	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs41354246	EPM2AIP1	Cis_chr	lymphoblastoid	RTeQTL

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150521400-150525200	Enhancers	HUES64 Cell Line	embryonic stem cell
2	chr3:150521600-150524800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr3:150521600-150525000	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr3:150522400-150525000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr3:150522400-150525200	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr3:150522600-150524800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
7	chr3:150522600-150525000	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr3:150522800-150525000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr3:150522800-150525200	Enhancers	H1 Cell Line	embryonic stem cell
10	chr3:150523200-150524800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr3:150523200-150524800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr3:150523600-150524800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:150523800-150524800	Enhancers	Brain Germinal Matrix	brain
14	chr3:150524000-150525000	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr3:150524200-150524800	Enhancers	H9 Cell Line	embryonic stem cell
16	chr3:150524200-150524800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr3:150524400-150524800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
18	chr3:150524400-150525400	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr3:150524600-150525200	Enhancers	HUES48 Cell Line	embryonic stem cell

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