Variant report

Variant	rs798827
Chromosome Location	chr8:42858299-42858300
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:42857957..42860682-chr8:42873271..42875297,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168172	Chromatin interaction
ENSG00000254673	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10087388	0.90[CHD][hapmap];1.00[JPT][hapmap]
rs10107370	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10111452	0.84[AMR][1000 genomes]
rs10448065	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs10808963	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs1081884	0.85[AMR][1000 genomes]
rs1081885	0.90[AMR][1000 genomes]
rs1081886	0.90[AMR][1000 genomes]
rs11781737	0.82[EUR][1000 genomes]
rs12056606	0.86[EUR][1000 genomes]
rs12549718	0.82[EUR][1000 genomes]
rs13261180	1.00[ASW][hapmap];1.00[CEU][hapmap];0.80[CHD][hapmap];0.96[GIH][hapmap];0.90[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13280254	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1620525	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1625050	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.96[YRI][hapmap];0.90[AMR][1000 genomes]
rs1648119	1.00[ASW][hapmap];1.00[CEU][hapmap];0.81[CHD][hapmap];0.90[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.96[YRI][hapmap];0.92[AMR][1000 genomes]
rs1648120	0.92[AMR][1000 genomes]
rs1648121	0.82[CHB][hapmap];0.90[JPT][hapmap];0.84[MEX][hapmap]
rs16891647	1.00[MEX][hapmap]
rs2042674	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2376489	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs28539345	0.83[AMR][1000 genomes]
rs3867147	0.96[AMR][1000 genomes]
rs4236927	1.00[ASW][hapmap];1.00[CEU][hapmap];0.96[GIH][hapmap];0.81[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4512420	1.00[CEU][hapmap];0.81[JPT][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs4523300	0.90[JPT][hapmap]
rs4623474	0.81[JPT][hapmap]
rs4736844	1.00[ASW][hapmap];1.00[CEU][hapmap];0.81[CHD][hapmap];0.81[JPT][hapmap];0.90[LWK][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.90[EUR][1000 genomes]
rs4737080	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4737087	0.82[EUR][1000 genomes]
rs6474429	0.81[JPT][hapmap];0.84[MEX][hapmap]
rs6986338	0.83[AMR][1000 genomes]
rs7001861	1.00[ASW][hapmap];0.82[CHB][hapmap];0.81[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7012985	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7016673	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs773068	0.82[CHB][hapmap];0.81[CHD][hapmap];0.90[JPT][hapmap];0.84[MEX][hapmap];0.87[ASN][1000 genomes]
rs773069	0.96[CHD][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap]
rs773070	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.90[AMR][1000 genomes]
rs773072	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.96[YRI][hapmap];0.90[AMR][1000 genomes]
rs7812948	0.83[AMR][1000 genomes]
rs7815800	1.00[CEU][hapmap]
rs7819737	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7829140	0.82[EUR][1000 genomes]
rs7835435	0.96[CHD][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap]
rs7838753	0.81[YRI][hapmap]
rs9298632	0.82[EUR][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	nsv890846	chr8:42625663-43240123	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	86 gene(s)	inside rSNPs	diseases
2	nsv1024688	chr8:42709414-43333639	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	78 gene(s)	inside rSNPs	diseases
3	nsv539563	chr8:42709414-43333639	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	78 gene(s)	inside rSNPs	diseases
4	nsv1033927	chr8:42748842-43575771	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
5	nsv533812	chr8:42755447-43528350	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
6	nsv1032781	chr8:42772394-43461484	ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
7	nsv1021281	chr8:42807619-43472678	Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS 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	80 gene(s)	inside rSNPs	diseases
8	nsv429912	chr8:42852444-43701143	ZNF genes & repeats Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:42776000-42874800	Weak transcription	Fetal Heart	heart
2	chr8:42823400-42875600	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr8:42824800-42874800	Weak transcription	Hela-S3	cervix
4	chr8:42830800-42865400	Weak transcription	NHLF	lung
5	chr8:42830800-42865800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr8:42831600-42865800	Weak transcription	Right Ventricle	heart
7	chr8:42831800-42872200	Weak transcription	Gastric	stomach
8	chr8:42838200-42865800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr8:42838200-42872200	Weak transcription	K562	blood
10	chr8:42839000-42866400	Weak transcription	Pancreas	Pancrea
11	chr8:42840200-42866000	Weak transcription	Spleen	Spleen
12	chr8:42840200-42866600	Weak transcription	HepG2	liver
13	chr8:42841800-42860200	Strong transcription	Liver	Liver
14	chr8:42844200-42865400	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr8:42844400-42866600	Weak transcription	Esophagus	oesophagus
16	chr8:42844600-42873200	Weak transcription	HMEC	breast
17	chr8:42844800-42865000	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr8:42846200-42865600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr8:42846400-42864600	Weak transcription	NHDF-Ad	bronchial
20	chr8:42846800-42858800	Weak transcription	Brain Angular Gyrus	brain
21	chr8:42847000-42889400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr8:42847200-42864200	Weak transcription	HSMMtube	muscle
23	chr8:42847200-42864400	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr8:42847200-42865800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr8:42847200-42867200	Weak transcription	Colonic Mucosa	Colon
26	chr8:42847200-42886800	Strong transcription	Monocytes-CD14+_RO01746	blood
27	chr8:42847400-42866200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr8:42847400-42875400	Weak transcription	Psoas Muscle	Psoas
29	chr8:42847800-42859400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr8:42848000-42860600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr8:42848200-42858400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
32	chr8:42848200-42859000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr8:42848200-42865000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr8:42848200-42865200	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr8:42848400-42865600	Weak transcription	GM12878-XiMat	blood
36	chr8:42848400-42877200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
37	chr8:42848400-42879600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr8:42848600-42858400	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr8:42848600-42858600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr8:42848600-42858800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr8:42848600-42858800	Weak transcription	Fetal Intestine Small	intestine
42	chr8:42848600-42859800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr8:42848600-42860400	Strong transcription	Primary monocytes fromperipheralblood	blood
44	chr8:42848600-42861200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr8:42848600-42864600	Weak transcription	Placenta Amnion	Placenta Amnion
46	chr8:42848600-42865600	Weak transcription	Fetal Kidney	kidney
47	chr8:42848600-42870400	Weak transcription	Thymus	Thymus
48	chr8:42848800-42864800	Weak transcription	Fetal Thymus	thymus
49	chr8:42848800-42865600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr8:42848800-42865600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

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