Variant report

Variant	rs55858908
Chromosome Location	chr10:112659463-112659464
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:112657896..112660333-chr10:112666358..112668464,2	K562	blood:
2	chr10:112630443..112633244-chr10:112658327..112661182,2	MCF-7	breast:
3	chr10:112658612..112661274-chr10:112677885..112680130,2	K562	blood:
4	chr10:112658994..112663312-chr10:112675817..112680116,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000203497	Chromatin interaction
ENSG00000108061	Chromatin interaction
ENSG00000150593	Chromatin interaction
ENSG00000214413	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs11195368	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11195373	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11195376	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11195409	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs11592186	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11592376	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11593462	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11593479	0.87[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs11593592	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11593866	0.84[EUR][1000 genomes]
rs11597120	0.95[EUR][1000 genomes]
rs11597460	0.87[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs11597928	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11812232	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs11812855	0.95[EUR][1000 genomes]
rs11813262	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11813593	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11814418	0.87[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs11814686	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11816033	0.87[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs11816247	0.95[EUR][1000 genomes]
rs11816269	0.87[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs11816396	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11818060	0.95[EUR][1000 genomes]
rs11818747	0.95[EUR][1000 genomes]
rs11818761	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11818771	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11818869	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12781566	1.00[ASN][1000 genomes]
rs1322997	0.97[EUR][1000 genomes]
rs1327556	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1535559	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17128189	0.95[EUR][1000 genomes]
rs1885796	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34104444	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55647014	1.00[EUR][1000 genomes]
rs56237211	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60633872	0.89[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs60681723	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60877808	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61469604	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6585018	0.97[EUR][1000 genomes]
rs6585020	1.00[EUR][1000 genomes]
rs7081726	0.95[EUR][1000 genomes]
rs74156303	1.00[ASN][1000 genomes]
rs74156304	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs74156305	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156307	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156308	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156309	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156310	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156311	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156320	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs74156323	0.87[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs7923004	0.95[EUR][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	nsv1045608	chr10:112524813-112677557	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1041758	chr10:112552897-112677557	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv1051566	chr10:112580049-112730573	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	nsv1035602	chr10:112636053-112781413	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv1051327	chr10:112650316-112772917	ZNF genes & repeats Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
6	nsv540774	chr10:112650316-112772917	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
7	nsv831985	chr10:112652089-112803103	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:112632800-112678000	Weak transcription	Lung	lung
2	chr10:112632800-112678200	Weak transcription	Spleen	Spleen
3	chr10:112633400-112662000	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr10:112633800-112659800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr10:112634000-112662400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr10:112634800-112661800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr10:112634800-112677400	Weak transcription	HUVEC	blood vessel
8	chr10:112635400-112661800	Strong transcription	Placenta	Placenta
9	chr10:112635600-112660600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr10:112635600-112662200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr10:112635600-112663400	Strong transcription	Primary monocytes fromperipheralblood	blood
12	chr10:112635800-112662200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr10:112636000-112664400	Strong transcription	Fetal Thymus	thymus
14	chr10:112636400-112664800	Strong transcription	Monocytes-CD14+_RO01746	blood
15	chr10:112639200-112661000	Strong transcription	Primary neutrophils fromperipheralblood	blood
16	chr10:112643000-112667200	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr10:112644000-112664000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr10:112644200-112663200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr10:112644200-112664400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr10:112644200-112678000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr10:112644800-112664800	Strong transcription	Primary T cells fromperipheralblood	blood
22	chr10:112644800-112675000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr10:112645800-112660800	Weak transcription	Brain Substantia Nigra	brain
24	chr10:112646400-112661400	Weak transcription	A549	lung
25	chr10:112646400-112676400	Weak transcription	K562	blood
26	chr10:112647200-112664400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr10:112647200-112677400	Weak transcription	Fetal Brain Male	brain
28	chr10:112647800-112661600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr10:112648600-112661400	Weak transcription	HMEC	breast
30	chr10:112649200-112660800	Weak transcription	Pancreas	Pancrea
31	chr10:112649400-112664800	Strong transcription	Primary B cells from cord blood	blood
32	chr10:112651200-112670000	Weak transcription	Fetal Stomach	stomach
33	chr10:112652400-112660800	Strong transcription	Hela-S3	cervix
34	chr10:112653400-112662200	Strong transcription	Fetal Lung	lung
35	chr10:112653400-112663200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr10:112653600-112662000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr10:112653800-112660000	Strong transcription	Brain Anterior Caudate	brain
38	chr10:112653800-112660600	Strong transcription	Dnd41	blood
39	chr10:112653800-112661400	Strong transcription	HUES64 Cell Line	embryonic stem cell
40	chr10:112653800-112661800	Strong transcription	Duodenum Smooth Muscle	Duodenum
41	chr10:112653800-112662400	Strong transcription	Fetal Kidney	kidney
42	chr10:112654000-112660400	Strong transcription	GM12878-XiMat	blood
43	chr10:112654600-112661600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr10:112654800-112660400	Strong transcription	HUES48 Cell Line	embryonic stem cell
45	chr10:112654800-112665000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr10:112655000-112659600	Strong transcription	Fetal Muscle Trunk	muscle
47	chr10:112655000-112659800	Strong transcription	Cortex derived primary cultured neurospheres	brain
48	chr10:112655000-112662400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
49	chr10:112655000-112664000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr10:112655000-112664600	Strong transcription	Primary hematopoietic stem cells	blood

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