Variant report

Variant	rs10885576
Chromosome Location	chr10:116298843-116298844
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:116285274..116287329-chr10:116297339..116299220,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000099204	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10159807	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10159811	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10159857	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10749167	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10749168	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10787533	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10787534	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10787535	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10787538	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10885574	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10885578	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10885579	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10885581	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10885582	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10885583	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10885585	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10885586	0.83[EUR][1000 genomes]
rs11196782	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196783	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11196784	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11196786	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11196790	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11196796	0.84[EUR][1000 genomes]
rs11196797	0.84[EUR][1000 genomes]
rs12357781	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12772307	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1333686	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1333690	0.82[AMR][1000 genomes]
rs4751583	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7893570	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7923449	0.88[AMR][1000 genomes];0.93[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:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116287000-116301200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr10:116287200-116299400	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr10:116287200-116299400	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr10:116287200-116300600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr10:116287200-116301600	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr10:116287200-116307200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr10:116287400-116300400	Weak transcription	Brain Hippocampus Middle	brain
8	chr10:116287400-116300600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr10:116287400-116300600	Weak transcription	Colon Smooth Muscle	Colon
10	chr10:116287400-116300800	Weak transcription	Fetal Intestine Large	intestine
11	chr10:116287400-116303200	Weak transcription	Brain Anterior Caudate	brain
12	chr10:116287400-116303800	Weak transcription	Rectal Smooth Muscle	rectum
13	chr10:116287400-116310600	Weak transcription	Brain Angular Gyrus	brain
14	chr10:116287400-116310600	Weak transcription	Stomach Smooth Muscle	stomach
15	chr10:116292400-116303800	Weak transcription	Pancreas	Pancrea
16	chr10:116294000-116300800	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr10:116294400-116300200	Weak transcription	Placenta	Placenta
18	chr10:116296600-116301400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr10:116296600-116303600	Enhancers	Fetal Thymus	thymus
20	chr10:116296800-116303400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
21	chr10:116297000-116300600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr10:116297000-116301000	Enhancers	Primary T cells fromperipheralblood	blood
23	chr10:116297200-116299000	Enhancers	Breast Myoepithelial Primary Cells	Breast
24	chr10:116297200-116299800	Enhancers	Primary B cells from cord blood	blood
25	chr10:116297400-116300000	Enhancers	HUES64 Cell Line	embryonic stem cell
26	chr10:116297400-116300000	Enhancers	iPS-15b Cell Line	embryonic stem cell
27	chr10:116297400-116300400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr10:116297400-116300600	Enhancers	Fetal Heart	heart
29	chr10:116297400-116300800	Weak transcription	HSMM	muscle
30	chr10:116297600-116299800	Enhancers	HUES48 Cell Line	embryonic stem cell
31	chr10:116297600-116305200	Enhancers	Dnd41	blood
32	chr10:116297600-116308600	Enhancers	Primary B cells from peripheral blood	blood
33	chr10:116297800-116299400	Enhancers	Duodenum Mucosa	Duodenum
34	chr10:116297800-116299600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr10:116297800-116308600	Enhancers	Stomach Mucosa	stomach
36	chr10:116298000-116299000	Enhancers	Rectal Mucosa Donor 31	rectum
37	chr10:116298000-116299000	Enhancers	Skeletal Muscle Male	skeletal muscle
38	chr10:116298000-116299200	Enhancers	Esophagus	oesophagus
39	chr10:116298000-116299200	Genic enhancers	Left Ventricle	heart
40	chr10:116298000-116299600	Enhancers	Primary hematopoietic stem cells short term culture	blood
41	chr10:116298000-116300000	Enhancers	ES-I3 Cell Line	embryonic stem cell
42	chr10:116298000-116301800	Enhancers	GM12878-XiMat	blood
43	chr10:116298000-116302800	Enhancers	Right Atrium	heart
44	chr10:116298000-116308800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
45	chr10:116298200-116299200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
46	chr10:116298200-116299200	Enhancers	NHEK	skin
47	chr10:116298200-116299400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr10:116298200-116299400	Weak transcription	Fetal Stomach	stomach
49	chr10:116298200-116300000	Enhancers	H9 Cell Line	embryonic stem cell
50	chr10:116298200-116302600	Weak transcription	HUVEC	blood vessel

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