Variant report

Variant	rs10885578
Chromosome Location	chr10:116303554-116303555
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:116302698..116304630-chr10:116307887..116309527,2	MCF-7	breast:
2	chr10:116299755..116302305-chr10:116302434..116304411,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10159807	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10159811	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10159857	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10749167	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10749168	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10787533	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10787534	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10787535	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10787538	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10885574	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10885576	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10885579	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10885581	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10885582	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10885583	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10885585	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10885586	0.84[EUR][1000 genomes]
rs11196782	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196783	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11196784	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11196786	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11196790	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11196794	0.81[EUR][1000 genomes]
rs11196796	0.85[EUR][1000 genomes]
rs11196797	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12357781	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12772307	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1333686	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1333690	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4751583	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7893570	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7923449	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[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	nsv1037308	chr10:116141946-116519765	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv540780	chr10:116141946-116519765	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116287200-116307200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr10:116287400-116303800	Weak transcription	Rectal Smooth Muscle	rectum
3	chr10:116287400-116310600	Weak transcription	Brain Angular Gyrus	brain
4	chr10:116287400-116310600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr10:116292400-116303800	Weak transcription	Pancreas	Pancrea
6	chr10:116296600-116303600	Enhancers	Fetal Thymus	thymus
7	chr10:116297600-116305200	Enhancers	Dnd41	blood
8	chr10:116297600-116308600	Enhancers	Primary B cells from peripheral blood	blood
9	chr10:116297800-116308600	Enhancers	Stomach Mucosa	stomach
10	chr10:116298000-116308800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
11	chr10:116298200-116307800	Strong transcription	Fetal Intestine Small	intestine
12	chr10:116298400-116303600	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr10:116298400-116307200	Strong transcription	Liver	Liver
14	chr10:116298400-116307600	Weak transcription	Brain Substantia Nigra	brain
15	chr10:116298400-116310200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr10:116298600-116304800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr10:116298600-116311600	Weak transcription	Gastric	stomach
18	chr10:116298800-116310400	Weak transcription	Small Intestine	intestine
19	chr10:116298800-116310600	Weak transcription	Colonic Mucosa	Colon
20	chr10:116299600-116308200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr10:116299800-116308800	Genic enhancers	Left Ventricle	heart
22	chr10:116300000-116304000	Genic enhancers	Right Ventricle	heart
23	chr10:116300000-116306400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr10:116300200-116304000	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr10:116300200-116307400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
26	chr10:116300400-116307600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr10:116300600-116310600	Weak transcription	Brain Hippocampus Middle	brain
28	chr10:116300800-116304400	Strong transcription	Pancreatic Islets	Pancreatic Islet
29	chr10:116300800-116305000	Enhancers	Sigmoid Colon	Sigmoid Colon
30	chr10:116301000-116303600	Weak transcription	Adipose Nuclei	Adipose
31	chr10:116301400-116303600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
32	chr10:116301400-116303600	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr10:116301600-116303600	Weak transcription	Fetal Intestine Large	intestine
34	chr10:116301600-116303600	Enhancers	Thymus	Thymus
35	chr10:116301600-116304000	Genic enhancers	Esophagus	oesophagus
36	chr10:116301800-116303600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
37	chr10:116301800-116303800	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr10:116301800-116304200	Strong transcription	Fetal Heart	heart
39	chr10:116301800-116304800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr10:116301800-116307400	Weak transcription	Placenta	Placenta
41	chr10:116301800-116310600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr10:116301800-116310600	Weak transcription	Fetal Lung	lung
43	chr10:116301800-116310800	Weak transcription	HSMM	muscle
44	chr10:116302000-116303600	Enhancers	Primary B cells from cord blood	blood
45	chr10:116302000-116303600	Enhancers	Primary T cells fromperipheralblood	blood
46	chr10:116302000-116303600	Weak transcription	Fetal Muscle Trunk	muscle
47	chr10:116302000-116304600	Weak transcription	Fetal Muscle Leg	muscle
48	chr10:116302400-116304000	Enhancers	Spleen	Spleen
49	chr10:116302400-116305000	Strong transcription	HSMMtube	muscle
50	chr10:116302600-116303600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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