Variant report

Variant	rs28588681
Chromosome Location	chr8:11020459-11020460
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	chr8:11020358..11021978-chr8:11037750..11039962,2	MCF-7	breast:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10094029	0.81[AFR][1000 genomes]
rs10094620	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10095695	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10095840	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10096326	1.00[AMR][1000 genomes]
rs10097387	1.00[AMR][1000 genomes]
rs10100837	1.00[AMR][1000 genomes]
rs10103361	1.00[AMR][1000 genomes]
rs10105182	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10106007	1.00[AMR][1000 genomes]
rs10106157	1.00[AMR][1000 genomes]
rs10106838	1.00[AMR][1000 genomes]
rs10107951	1.00[AMR][1000 genomes]
rs10109455	1.00[AMR][1000 genomes]
rs10109542	1.00[AMR][1000 genomes]
rs10481453	1.00[AMR][1000 genomes]
rs17152810	1.00[AMR][1000 genomes]
rs17152846	1.00[AMR][1000 genomes]
rs17152847	1.00[AMR][1000 genomes]
rs17152852	1.00[AMR][1000 genomes]
rs17152856	1.00[AMR][1000 genomes]
rs28398187	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28530758	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28601819	1.00[AMR][1000 genomes]
rs56021916	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56387861	1.00[AMR][1000 genomes]
rs56759377	1.00[AMR][1000 genomes]
rs57861728	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57911758	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58893927	1.00[AMR][1000 genomes]
rs60530116	1.00[AMR][1000 genomes]
rs60859757	1.00[AMR][1000 genomes]
rs61484474	1.00[AMR][1000 genomes]
rs61524162	1.00[AMR][1000 genomes]
rs7010804	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7015231	1.00[AMR][1000 genomes]
rs73530537	1.00[AMR][1000 genomes]
rs73530569	1.00[AMR][1000 genomes]
rs73530600	1.00[AMR][1000 genomes]
rs73541222	1.00[AMR][1000 genomes]
rs73541224	1.00[AMR][1000 genomes]
rs73541227	1.00[AMR][1000 genomes]
rs73541254	1.00[AMR][1000 genomes]
rs73543362	1.00[AMR][1000 genomes]
rs73543365	1.00[AMR][1000 genomes]
rs73545491	1.00[AMR][1000 genomes]
rs73665013	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7814341	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035072	chr8:10819444-11480692	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv539473	chr8:10819444-11480692	Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	esv1815171	chr8:10940039-11128712	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv1025426	chr8:10942929-11037903	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv1026331	chr8:10955941-11046394	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv529399	chr8:10970091-11805960	Enhancers Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
7	nsv519941	chr8:11016889-11039816	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:10966400-11026200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr8:10997200-11021000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr8:10999400-11021000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr8:11001600-11021000	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr8:11002800-11022000	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr8:11006800-11026200	Weak transcription	HSMM	muscle
7	chr8:11009200-11021000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr8:11009200-11024800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr8:11009800-11021400	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr8:11012000-11021400	Weak transcription	Gastric	stomach
11	chr8:11012000-11022400	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr8:11013200-11021000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr8:11013400-11026400	Weak transcription	Esophagus	oesophagus
14	chr8:11013600-11028800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr8:11014800-11021400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr8:11015400-11021600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr8:11015600-11021200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr8:11015600-11022400	Enhancers	Primary B cells from peripheral blood	blood
19	chr8:11016000-11021800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr8:11016600-11021400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr8:11016600-11032200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr8:11017200-11021000	Weak transcription	Pancreas	Pancrea
23	chr8:11017200-11021400	Weak transcription	Spleen	Spleen
24	chr8:11017400-11021200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr8:11017400-11025400	Weak transcription	HSMMtube	muscle
26	chr8:11019000-11021000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr8:11019000-11021000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr8:11020200-11020600	Enhancers	Primary hematopoietic stem cells short term culture	blood
29	chr8:11020200-11023400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
30	chr8:11020400-11021000	Enhancers	GM12878-XiMat	blood
31	chr8:11020400-11021200	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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