Variant report

Variant	rs11189001
Chromosome Location	chr10:98840789-98840790
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	chr10:98840394..98840907-chr10:98966964..98967694,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11189002	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11189003	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11189004	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12268671	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12572597	0.90[CHB][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs12782356	0.90[JPT][hapmap]
rs1565491	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1565492	0.93[ASN][1000 genomes]
rs1565493	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1565494	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs17112401	0.89[JPT][hapmap]
rs2636795	0.92[ASN][1000 genomes]
rs2805599	0.82[CHB][hapmap];0.87[JPT][hapmap];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2805601	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2805603	0.90[JPT][hapmap];0.93[ASN][1000 genomes]
rs2805604	0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs2817685	0.83[CHB][hapmap];0.90[JPT][hapmap];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2817686	0.90[JPT][hapmap]
rs2817687	0.83[CHB][hapmap];0.83[JPT][hapmap];0.93[ASN][1000 genomes]
rs2817688	0.89[JPT][hapmap]
rs2861828	0.81[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs902471	0.96[ASN][1000 genomes]
rs937074	0.81[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1052931	chr10:98676192-98862301	Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1042398	chr10:98691406-98851346	Enhancers Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	esv2758236	chr10:98789963-98962472	Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	esv2759777	chr10:98789963-98962472	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv1037576	chr10:98791099-98873649	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv1039568	chr10:98800844-98868329	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv1040262	chr10:98805336-98872134	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98836400-98848800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr10:98838000-98841400	Enhancers	H1 Cell Line	embryonic stem cell
3	chr10:98838200-98840800	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr10:98838200-98840800	Enhancers	HUES6 Cell Line	embryonic stem cell
5	chr10:98838200-98841200	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr10:98838200-98842200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr10:98838400-98840800	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr10:98838800-98843200	Weak transcription	Fetal Thymus	thymus
9	chr10:98839000-98840800	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr10:98839600-98840800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
11	chr10:98840200-98841400	Enhancers	Spleen	Spleen
12	chr10:98840200-98848400	Weak transcription	Brain Germinal Matrix	brain
13	chr10:98840400-98841000	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr10:98840400-98841200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr10:98840600-98840800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr10:98840600-98840800	Bivalent Enhancer	Lung	lung
17	chr10:98840600-98840800	Bivalent Enhancer	Hela-S3	cervix

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