Variant report

Variant	rs61856787
Chromosome Location	chr10:52186476-52186477
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:52184358..52187257-chr10:52191960..52194304,3	K562	blood:
2	chr10:52186220..52188065-chr10:52229199..52231914,2	MCF-7	breast:
3	chr10:52185055..52188816-chr10:52196257..52198755,3	MCF-7	breast:

Extended variants
information (count: 96 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs10490963	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10490964	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11005626	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11005959	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12257419	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12262259	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1369860	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17438825	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17440448	0.94[ASN][1000 genomes]
rs17518471	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17519121	0.93[ASN][1000 genomes]
rs17519380	0.93[ASN][1000 genomes]
rs17721658	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17721694	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17721713	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17778152	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1916568	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1916569	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1916571	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2060560	0.96[ASN][1000 genomes]
rs2064759	0.91[ASN][1000 genomes]
rs2117961	0.88[ASN][1000 genomes]
rs2117962	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2255387	0.96[ASN][1000 genomes]
rs2255720	0.96[ASN][1000 genomes]
rs2255849	0.96[ASN][1000 genomes]
rs2255853	0.96[ASN][1000 genomes]
rs2255859	0.94[ASN][1000 genomes]
rs2574955	0.96[ASN][1000 genomes]
rs2574956	0.96[ASN][1000 genomes]
rs2574975	0.84[ASN][1000 genomes]
rs2574981	0.96[ASN][1000 genomes]
rs2688875	0.93[ASN][1000 genomes]
rs2688877	0.91[ASN][1000 genomes]
rs2688879	0.96[ASN][1000 genomes]
rs2842102	0.96[ASN][1000 genomes]
rs2842105	0.96[ASN][1000 genomes]
rs2842106	0.96[ASN][1000 genomes]
rs2842107	0.96[ASN][1000 genomes]
rs2842109	0.96[ASN][1000 genomes]
rs34672995	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34928652	0.94[ASN][1000 genomes]
rs3802537	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4935152	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4935673	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4935703	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4935713	0.87[ASN][1000 genomes]
rs4935729	0.94[ASN][1000 genomes]
rs55773344	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55861418	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56078228	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56080689	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56133398	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56225400	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56268559	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56277433	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61559519	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61741330	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61856761	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61856763	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61856778	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61856782	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61856788	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61856793	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61856794	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61856795	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61856828	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61856832	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61858062	0.94[ASN][1000 genomes]
rs61858064	0.93[ASN][1000 genomes]
rs61858065	0.93[ASN][1000 genomes]
rs61858068	0.92[ASN][1000 genomes]
rs61858069	0.94[ASN][1000 genomes]
rs61858206	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61858207	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7067626	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7068430	0.93[ASN][1000 genomes]
rs7069115	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7082805	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7092753	0.94[ASN][1000 genomes]
rs72801752	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72801754	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72801768	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72801775	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72801776	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72801781	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7392702	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7475420	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7921632	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs884880	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054775	chr10:51595893-52392361	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1051087	chr10:51886486-52447295	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv916214	chr10:51886486-52458983	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv918212	chr10:51886486-52465482	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv817412	chr10:51911034-52432990	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
6	nsv521273	chr10:52051645-52197847	Strong transcription Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52178400-52220000	Weak transcription	Pancreas	Pancrea
2	chr10:52178600-52188800	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr10:52178600-52217200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr10:52178600-52219400	Weak transcription	Left Ventricle	heart
5	chr10:52178800-52187400	Weak transcription	Primary T cells from cord blood	blood
6	chr10:52178800-52191200	Weak transcription	HSMMtube	muscle
7	chr10:52178800-52198000	Weak transcription	Fetal Thymus	thymus
8	chr10:52178800-52202800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr10:52179000-52191000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr10:52179000-52191200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr10:52179000-52191400	Weak transcription	Rectal Smooth Muscle	rectum
12	chr10:52179000-52191600	Weak transcription	Duodenum Mucosa	Duodenum
13	chr10:52179000-52205800	Weak transcription	Primary hematopoietic stem cells	blood
14	chr10:52179000-52207600	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr10:52179000-52209000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr10:52179200-52196600	Weak transcription	Colon Smooth Muscle	Colon
17	chr10:52180000-52189800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr10:52180000-52190800	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr10:52180200-52201200	Weak transcription	Fetal Heart	heart
20	chr10:52180600-52194000	Weak transcription	Fetal Intestine Large	intestine
21	chr10:52181400-52191000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr10:52181600-52187200	Weak transcription	K562	blood
23	chr10:52181600-52187800	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr10:52181600-52189800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
25	chr10:52181600-52190800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr10:52181600-52219400	Weak transcription	Placenta	Placenta
27	chr10:52181800-52206200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr10:52182000-52191200	Weak transcription	Primary B cells from peripheral blood	blood
29	chr10:52182200-52191000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr10:52182200-52191400	Weak transcription	Psoas Muscle	Psoas
31	chr10:52182200-52220000	Weak transcription	Fetal Stomach	stomach
32	chr10:52182400-52189800	Weak transcription	Adipose Nuclei	Adipose
33	chr10:52182600-52191000	Weak transcription	Primary T helper cells PMA-I stimulated	--
34	chr10:52182600-52191000	Weak transcription	Fetal Lung	lung
35	chr10:52182600-52200600	Weak transcription	Fetal Brain Male	brain
36	chr10:52183000-52191200	Weak transcription	Brain Angular Gyrus	brain
37	chr10:52183200-52189600	Weak transcription	Brain Substantia Nigra	brain
38	chr10:52183400-52190000	Weak transcription	Brain Hippocampus Middle	brain
39	chr10:52183400-52190600	Weak transcription	Brain Cingulate Gyrus	brain
40	chr10:52183400-52191400	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr10:52184000-52189600	Weak transcription	Brain Anterior Caudate	brain
42	chr10:52184000-52191200	Weak transcription	Liver	Liver
43	chr10:52184200-52189800	Weak transcription	Pancreatic Islets	Pancreatic Islet
44	chr10:52184200-52191400	Weak transcription	Skeletal Muscle Female	skeletal muscle
45	chr10:52184400-52191200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr10:52185600-52191600	Weak transcription	Primary B cells from cord blood	blood
47	chr10:52186200-52186600	Enhancers	Primary monocytes fromperipheralblood	blood
48	chr10:52186200-52186600	Enhancers	Primary hematopoietic stem cells short term culture	blood
49	chr10:52186200-52186600	Flanking Active TSS	GM12878-XiMat	blood
50	chr10:52186200-52186600	Enhancers	Monocytes-CD14+_RO01746	blood

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