Variant report

Variant	rs10898330
Chromosome Location	chr11:84630335-84630336
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	chr11:84620550..84623155-chr11:84629095..84630856,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs10792787	0.94[CHB][hapmap];0.84[JPT][hapmap];0.92[YRI][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10792788	0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10898317	0.83[EUR][1000 genomes]
rs10898319	0.96[CEU][hapmap];0.83[CHB][hapmap];0.89[EUR][1000 genomes]
rs10898320	0.89[EUR][1000 genomes]
rs10898321	0.89[EUR][1000 genomes]
rs10898322	0.89[EUR][1000 genomes]
rs10898323	0.85[EUR][1000 genomes]
rs10898324	0.84[EUR][1000 genomes]
rs10898325	0.89[EUR][1000 genomes]
rs10898326	0.96[CEU][hapmap];0.83[CHB][hapmap];0.81[CHD][hapmap];0.80[GIH][hapmap];0.91[MEX][hapmap];0.91[TSI][hapmap];0.90[EUR][1000 genomes]
rs10898331	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.81[MKK][hapmap];0.93[TSI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10898332	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs11234235	0.89[EUR][1000 genomes]
rs11234236	0.90[EUR][1000 genomes]
rs11234239	0.90[EUR][1000 genomes]
rs11234243	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12225342	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34083949	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4943902	0.85[EUR][1000 genomes]
rs4943903	0.84[EUR][1000 genomes]
rs4943904	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4944500	0.89[EUR][1000 genomes]
rs4944501	0.85[EUR][1000 genomes]
rs4944502	0.85[EUR][1000 genomes]
rs55872437	0.82[ASN][1000 genomes]
rs61907731	0.90[EUR][1000 genomes]
rs6592213	0.85[EUR][1000 genomes]
rs7111775	0.94[ASW][hapmap];0.93[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.97[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7127374	0.88[ASW][hapmap];0.82[CEU][hapmap];0.94[CHB][hapmap];0.84[CHD][hapmap];0.83[GIH][hapmap];0.87[JPT][hapmap];0.95[MEX][hapmap];0.82[MKK][hapmap];0.80[TSI][hapmap];0.96[YRI][hapmap];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7931437	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948410	chr11:83918339-84812001	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1045974	chr11:84187214-84708462	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1048051	chr11:84419442-84784233	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv541109	chr11:84419442-84784233	Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10898330	C11orf73	cis	cerebellum	SCAN
rs10898330	FZD4	cis	cerebellum	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:84621000-84631400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr11:84621200-84633000	Weak transcription	Right Atrium	heart
3	chr11:84625800-84630600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr11:84625800-84633400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr11:84626000-84630600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr11:84626200-84631200	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr11:84626400-84631400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr11:84627800-84633400	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr11:84629800-84631400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr11:84629800-84632400	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr11:84630200-84631200	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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