Variant report

Variant	rs56859277
Chromosome Location	chr8:95455342-95455343
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	chr8:95455164..95456684-chr8:95467591..95470115,2	MCF-7	breast:

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10086307	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10086311	0.96[EUR][1000 genomes]
rs10087221	0.96[EUR][1000 genomes]
rs10089982	0.96[EUR][1000 genomes]
rs10090029	0.96[EUR][1000 genomes]
rs10090628	1.00[EUR][1000 genomes]
rs10093542	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10094155	0.96[EUR][1000 genomes]
rs10094298	0.96[EUR][1000 genomes]
rs10094477	0.96[EUR][1000 genomes]
rs10095474	0.96[EUR][1000 genomes]
rs10095883	0.96[EUR][1000 genomes]
rs10097107	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10098298	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10098682	0.92[EUR][1000 genomes]
rs10102139	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10103436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10104301	0.96[EUR][1000 genomes]
rs10104797	1.00[EUR][1000 genomes]
rs10105476	0.96[EUR][1000 genomes]
rs10106455	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10110389	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10111251	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10111789	0.84[AMR][1000 genomes]
rs10217108	0.92[EUR][1000 genomes]
rs10441536	0.96[EUR][1000 genomes]
rs10441537	0.92[EUR][1000 genomes]
rs1055798	0.96[EUR][1000 genomes]
rs12334369	0.96[EUR][1000 genomes]
rs12334578	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12334783	0.96[EUR][1000 genomes]
rs12334844	0.96[EUR][1000 genomes]
rs12334990	0.96[EUR][1000 genomes]
rs12335104	0.96[EUR][1000 genomes]
rs13438933	0.96[EUR][1000 genomes]
rs13438940	0.96[EUR][1000 genomes]
rs13439154	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13439558	0.96[EUR][1000 genomes]
rs13439676	0.96[EUR][1000 genomes]
rs2119461	0.96[EUR][1000 genomes]
rs2381883	0.96[EUR][1000 genomes]
rs28386976	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28397924	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28406352	0.96[EUR][1000 genomes]
rs28409018	0.96[EUR][1000 genomes]
rs28420254	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28436849	0.96[EUR][1000 genomes]
rs28449797	0.92[EUR][1000 genomes]
rs28475734	0.96[EUR][1000 genomes]
rs28480604	0.96[EUR][1000 genomes]
rs28481457	0.96[EUR][1000 genomes]
rs28498495	0.96[EUR][1000 genomes]
rs28502182	0.96[EUR][1000 genomes]
rs28524089	0.96[EUR][1000 genomes]
rs28526027	0.96[EUR][1000 genomes]
rs28539788	0.92[EUR][1000 genomes]
rs28542193	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28563951	0.96[EUR][1000 genomes]
rs28564036	0.96[EUR][1000 genomes]
rs28572173	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28608052	1.00[EUR][1000 genomes]
rs28634264	0.96[EUR][1000 genomes]
rs28666401	0.96[EUR][1000 genomes]
rs28681034	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28775004	0.96[EUR][1000 genomes]
rs28805925	0.96[EUR][1000 genomes]
rs28829590	0.96[EUR][1000 genomes]
rs28848914	0.92[EUR][1000 genomes]
rs28897138	0.84[AMR][1000 genomes]
rs3136421	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4567002	0.96[EUR][1000 genomes]
rs57897120	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6992902	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6998829	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73695616	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73695617	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73695619	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73695620	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73695622	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73695624	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73698013	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8117	0.96[EUR][1000 genomes]
rs9297938	1.00[AMR][1000 genomes];1.00[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	nsv1017301	chr8:95273503-96248352	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised 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	87 gene(s)	inside rSNPs	diseases
2	nsv539680	chr8:95273503-96248352	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
3	nsv532338	chr8:95296118-95971825	Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	nsv891202	chr8:95445660-95456986	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:95432400-95478600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr8:95442600-95465400	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr8:95448800-95457200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr8:95449400-95485200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr8:95449400-95486200	Weak transcription	Fetal Muscle Leg	muscle
6	chr8:95449800-95476200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr8:95449800-95479600	Weak transcription	NH-A	brain
8	chr8:95450000-95455400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr8:95450000-95458800	Weak transcription	Fetal Stomach	stomach
10	chr8:95450000-95468200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr8:95450000-95486000	Weak transcription	Primary hematopoietic stem cells	blood
12	chr8:95450200-95464200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr8:95450200-95480000	Weak transcription	NHEK	skin
14	chr8:95450400-95460600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr8:95450400-95479800	Weak transcription	HMEC	breast
16	chr8:95450600-95478400	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr8:95450600-95484800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr8:95451400-95457200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr8:95451400-95460000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr8:95451400-95467800	Weak transcription	Small Intestine	intestine
21	chr8:95452400-95455800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr8:95452800-95456400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr8:95453000-95456800	Weak transcription	K562	blood
24	chr8:95453000-95457000	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr8:95453000-95476000	Weak transcription	HUVEC	blood vessel
26	chr8:95453000-95476400	Weak transcription	Thymus	Thymus
27	chr8:95453200-95456000	Weak transcription	Fetal Lung	lung
28	chr8:95453400-95456000	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr8:95453600-95458800	Weak transcription	Pancreas	Pancrea
30	chr8:95453800-95456200	Weak transcription	HUES64 Cell Line	embryonic stem cell
31	chr8:95454000-95456800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
32	chr8:95454000-95456800	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr8:95454000-95456800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr8:95454000-95459800	Weak transcription	Primary B cells from cord blood	blood
35	chr8:95454000-95462000	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr8:95454000-95464800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr8:95454000-95467400	Weak transcription	Primary T cells from cord blood	blood
38	chr8:95454000-95485600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
39	chr8:95454200-95456600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr8:95454200-95456800	Weak transcription	HUES6 Cell Line	embryonic stem cell
41	chr8:95454200-95456800	Weak transcription	Fetal Intestine Large	intestine
42	chr8:95454200-95456800	Weak transcription	Gastric	stomach
43	chr8:95454200-95456800	Weak transcription	A549	lung
44	chr8:95454200-95457000	Weak transcription	Stomach Mucosa	stomach
45	chr8:95454200-95460000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr8:95454200-95485400	Weak transcription	Fetal Intestine Small	intestine
47	chr8:95454600-95456800	Weak transcription	HepG2	liver
48	chr8:95454800-95456000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr8:95455000-95455400	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr8:95455000-95455400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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