Variant report

Variant	rs2805604
Chromosome Location	chr10:98850021-98850022
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	chr10:98847315..98850082-chr10:98852249..98854158,2	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]
rs11189001	0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs11189002	0.91[JPT][hapmap];0.93[ASN][1000 genomes]
rs11189003	0.93[ASN][1000 genomes]
rs11189004	0.93[ASN][1000 genomes]
rs12268671	0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs12572597	0.81[JPT][hapmap]
rs12782356	0.82[CHB][hapmap]
rs1565491	0.99[ASN][1000 genomes]
rs1565492	1.00[ASN][1000 genomes]
rs1565493	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1565494	0.95[ASN][1000 genomes]
rs17112401	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs2636795	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2805599	0.91[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2805601	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2805603	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2817685	0.92[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2817686	0.82[CHB][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs2817687	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2817688	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs2861828	0.91[CHB][hapmap];0.91[JPT][hapmap];0.96[ASN][1000 genomes]
rs902471	0.96[ASN][1000 genomes]
rs937074	0.91[CHB][hapmap];0.91[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:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98841200-98869200	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr10:98847400-98855200	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr10:98847400-98860600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr10:98847600-98855400	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr10:98848200-98856400	Weak transcription	Thymus	Thymus
6	chr10:98848800-98850600	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr10:98848800-98852400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr10:98848800-98855000	Weak transcription	Brain Germinal Matrix	brain
9	chr10:98849000-98850200	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr10:98849000-98855600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr10:98849400-98850200	Enhancers	Brain Inferior Temporal Lobe	brain
12	chr10:98849600-98850200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr10:98849600-98850200	Bivalent Enhancer	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr10:98850000-98853200	Strong transcription	Fetal Thymus	thymus
15	chr10:98850000-98854200	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr10:98850000-98855200	Weak transcription	Brain Anterior Caudate	brain
17	chr10:98850000-98855400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr10:98850000-98855400	Weak transcription	Right Atrium	heart

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