Variant report

Variant	rs2480350
Chromosome Location	chr10:25747109-25747110
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	chr10:25727136..25729248-chr10:25744729..25747128,2	MCF-7	breast:

Extended variants
information (count: 51 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10450325	1.00[CHD][hapmap]
rs10508690	1.00[CHD][hapmap]
rs10764555	1.00[ASN][1000 genomes]
rs11014507	1.00[CHD][hapmap]
rs11014622	1.00[ASN][1000 genomes]
rs11014623	1.00[ASN][1000 genomes]
rs11014625	1.00[ASN][1000 genomes]
rs12355530	1.00[ASN][1000 genomes]
rs12357174	1.00[ASN][1000 genomes]
rs1329249	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs1329250	1.00[ASN][1000 genomes]
rs1329254	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1335197	1.00[ASN][1000 genomes]
rs1360124	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1410930	0.87[CEU][hapmap];0.94[YRI][hapmap];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1547685	0.90[YRI][hapmap];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17557337	1.00[ASN][1000 genomes]
rs17557638	1.00[ASN][1000 genomes]
rs1773635	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1928364	0.87[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.84[MEX][hapmap];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1954261	1.00[CHD][hapmap]
rs1999111	1.00[ASN][1000 genomes]
rs2480346	0.91[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.85[MEX][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2987837	1.00[ASW][hapmap];0.91[CEU][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.88[LWK][hapmap];0.89[MEX][hapmap];0.84[MKK][hapmap];0.84[TSI][hapmap];0.94[YRI][hapmap];0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3005186	1.00[ASN][1000 genomes]
rs3005188	0.91[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.82[TSI][hapmap];0.94[YRI][hapmap];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3005190	0.91[CEU][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.84[TSI][hapmap];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3005192	0.95[CEU][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3118971	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4237372	1.00[ASN][1000 genomes]
rs4237374	1.00[ASN][1000 genomes]
rs4523593	1.00[ASN][1000 genomes]
rs4747532	1.00[ASN][1000 genomes]
rs4747533	1.00[ASN][1000 genomes]
rs4749050	1.00[ASN][1000 genomes]
rs55945306	1.00[ASN][1000 genomes]
rs58949541	1.00[ASN][1000 genomes]
rs59190298	1.00[ASN][1000 genomes]
rs6482497	1.00[ASN][1000 genomes]
rs6482498	1.00[ASN][1000 genomes]
rs702979	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7091731	1.00[ASN][1000 genomes]
rs7904866	1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[ASN][1000 genomes]
rs7921299	1.00[ASN][1000 genomes]
rs7921635	1.00[ASN][1000 genomes]
rs824606	0.91[CEU][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.85[MEX][hapmap];0.84[TSI][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs824611	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs824612	0.80[AMR][1000 genomes]
rs866089	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs866869	0.91[CEU][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.85[MEX][hapmap];0.84[TSI][hapmap];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	esv3349863	chr10:25614571-25946379	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2480350	APBB1IP	cis	cerebellum	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25745200-25755000	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr10:25745400-25754600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr10:25746400-25747600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr10:25746600-25747400	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr10:25746800-25754600	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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