Variant report

Variant	rs5023560
Chromosome Location	chr10:97425940-97425941
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:97416514..97418290-chr10:97425335..97427800,2	MCF-7	breast:
2	chr10:97408476..97410603-chr10:97424480..97427139,2	K562	blood:
3	chr10:97425900..97430899-chr10:97432163..97436745,6	MCF-7	breast:
4	chr10:97420551..97423519-chr10:97425006..97428987,4	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10159941	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10509687	0.82[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs10748635	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10748636	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10748637	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10748639	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10748640	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10748641	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10786230	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10882653	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs1113881	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11188459	0.90[AMR][1000 genomes]
rs11188468	0.90[AMR][1000 genomes]
rs11188470	0.90[AMR][1000 genomes]
rs1933166	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1933171	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs1953710	0.90[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2225892	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2225893	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2225894	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs3763705	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs3763706	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3793748	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs3938778	0.90[AMR][1000 genomes]
rs4244318	0.85[AMR][1000 genomes]
rs4457685	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs482811	0.82[ASN][1000 genomes]
rs4917698	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4917700	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4917701	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4918956	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4918958	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4918964	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs556869	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6584014	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6584015	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7073723	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7073936	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7073973	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7079911	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs7080114	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7081414	0.90[AMR][1000 genomes]
rs7894052	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7905653	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7919773	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7920850	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs951418	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv526180	chr10:97332195-97511037	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv531923	chr10:97366055-97725757	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97416600-97441000	Weak transcription	Spleen	Spleen
2	chr10:97416800-97441600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr10:97416800-97442400	Weak transcription	Small Intestine	intestine
4	chr10:97416800-97443400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr10:97417000-97428600	Weak transcription	Fetal Kidney	kidney
6	chr10:97417000-97434800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr10:97417000-97434800	Weak transcription	Ovary	ovary
8	chr10:97417000-97434800	Weak transcription	HUVEC	blood vessel
9	chr10:97417000-97436200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr10:97417000-97436400	Weak transcription	HMEC	breast
11	chr10:97417000-97437400	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr10:97417000-97439800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr10:97417000-97439800	Weak transcription	Brain Cingulate Gyrus	brain
14	chr10:97417000-97439800	Weak transcription	Brain Substantia Nigra	brain
15	chr10:97417000-97441000	Weak transcription	HSMMtube	muscle
16	chr10:97417000-97442400	Weak transcription	Aorta	Aorta
17	chr10:97417000-97444200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr10:97417000-97445200	Weak transcription	Colonic Mucosa	Colon
19	chr10:97417000-97445800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr10:97417000-97445800	Weak transcription	NHLF	lung
21	chr10:97417200-97426400	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr10:97417200-97426800	Weak transcription	Primary monocytes fromperipheralblood	blood
23	chr10:97417200-97430400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr10:97417200-97435400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr10:97417200-97435400	Weak transcription	Stomach Mucosa	stomach
26	chr10:97417200-97435600	Weak transcription	NH-A	brain
27	chr10:97417200-97436400	Weak transcription	NHDF-Ad	bronchial
28	chr10:97417200-97437400	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr10:97417200-97438800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr10:97417200-97438800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr10:97417200-97439000	Weak transcription	Fetal Brain Male	brain
32	chr10:97417200-97439600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
33	chr10:97417200-97439800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr10:97417200-97440000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
35	chr10:97417200-97441000	Weak transcription	Thymus	Thymus
36	chr10:97417200-97441800	Weak transcription	Brain Angular Gyrus	brain
37	chr10:97417200-97442400	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr10:97417200-97444400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
39	chr10:97417200-97445800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
40	chr10:97417400-97432600	Weak transcription	Primary T helper cells PMA-I stimulated	--
41	chr10:97417400-97439800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
42	chr10:97417600-97439000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr10:97420400-97426800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr10:97420600-97427000	Weak transcription	HSMM	muscle
45	chr10:97420600-97428400	Weak transcription	Osteobl	bone
46	chr10:97421800-97441800	Weak transcription	Gastric	stomach
47	chr10:97422000-97434400	Weak transcription	A549	lung
48	chr10:97423000-97427800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
49	chr10:97423000-97429400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr10:97423000-97429600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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