Variant report

Variant	rs61877012
Chromosome Location	chr11:10005872-10005873
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:10004750..10006557-chr11:10010668..10012877,2	MCF-7	breast:

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10500716	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11042586	0.87[ASN][1000 genomes]
rs11825114	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12576008	0.93[EUR][1000 genomes]
rs16907334	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16907407	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16907410	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16907417	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16907462	0.81[AMR][1000 genomes]
rs16907481	0.81[AMR][1000 genomes]
rs2403261	0.81[ASN][1000 genomes]
rs2403263	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2403267	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2896513	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2896514	0.80[ASN][1000 genomes]
rs2896515	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2896517	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs34984386	0.84[AMR][1000 genomes]
rs35815123	0.84[AMR][1000 genomes]
rs4910091	0.83[ASN][1000 genomes]
rs4910092	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56850765	0.87[ASN][1000 genomes]
rs57180563	0.91[ASN][1000 genomes]
rs57618276	0.81[AMR][1000 genomes]
rs58652557	0.84[AMR][1000 genomes]
rs59479500	0.80[ASN][1000 genomes]
rs60257382	0.84[AMR][1000 genomes]
rs61520995	0.81[AMR][1000 genomes]
rs61877010	0.82[EUR][1000 genomes]
rs61877018	0.80[ASN][1000 genomes]
rs61877040	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61877045	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61878580	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs61878581	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs61878584	0.84[AMR][1000 genomes]
rs61878585	0.84[AMR][1000 genomes]
rs61878625	0.83[AMR][1000 genomes]
rs61878628	0.81[AMR][1000 genomes]
rs61878631	0.81[AMR][1000 genomes]
rs61878634	0.81[AMR][1000 genomes]
rs6483969	0.84[AMR][1000 genomes]
rs67132348	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7105321	0.84[AMR][1000 genomes]
rs7106234	0.83[ASN][1000 genomes]
rs7107916	0.89[ASN][1000 genomes]
rs7113715	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7121157	0.83[ASN][1000 genomes]
rs7124925	0.81[AMR][1000 genomes]
rs7128234	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7128838	0.97[ASN][1000 genomes]
rs7129047	0.81[AMR][1000 genomes]
rs72860548	0.81[AMR][1000 genomes]
rs7926141	0.90[ASN][1000 genomes]
rs7926678	0.83[AMR][1000 genomes]
rs7930920	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7931957	0.81[AMR][1000 genomes]
rs7936409	0.84[AMR][1000 genomes]
rs7938534	0.84[AMR][1000 genomes]
rs7939064	0.84[AMR][1000 genomes]
rs7940348	0.82[ASN][1000 genomes]
rs7946649	0.84[AMR][1000 genomes]
rs7949164	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7949322	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9888170	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv896988	chr11:9912052-10012511	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv896989	chr11:9951968-10059623	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
4	esv1819684	chr11:9973062-10012511	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9973800-10010600	Weak transcription	Fetal Brain Male	brain
2	chr11:9981000-10020000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr11:9981200-10009200	Weak transcription	Brain Germinal Matrix	brain
4	chr11:9981400-10008800	Weak transcription	Primary T cells from cord blood	blood
5	chr11:9981400-10010200	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr11:9981400-10014800	Weak transcription	Dnd41	blood
7	chr11:9981400-10017000	Weak transcription	Stomach Smooth Muscle	stomach
8	chr11:9981400-10051600	Weak transcription	Aorta	Aorta
9	chr11:9983600-10023200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr11:9984600-10010200	Weak transcription	Fetal Kidney	kidney
11	chr11:9985800-10021600	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr11:9985800-10023600	Weak transcription	Primary B cells from cord blood	blood
13	chr11:9985800-10049000	Weak transcription	Left Ventricle	heart
14	chr11:9986000-10006000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr11:9990000-10012600	Weak transcription	Liver	Liver
16	chr11:9990000-10018200	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr11:9990200-10006200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr11:9990400-10028200	Weak transcription	Fetal Brain Female	brain
19	chr11:9991200-10060000	Weak transcription	Colon Smooth Muscle	Colon
20	chr11:9994800-10041800	Weak transcription	Rectal Smooth Muscle	rectum
21	chr11:9995000-10008800	Weak transcription	Primary B cells from peripheral blood	blood
22	chr11:9996000-10024600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
23	chr11:9999600-10010200	Weak transcription	Adipose Nuclei	Adipose
24	chr11:9999600-10019800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
25	chr11:9999800-10009800	Weak transcription	Primary hematopoietic stem cells	blood
26	chr11:9999800-10024000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr11:9999800-10024200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
28	chr11:10001400-10066200	Weak transcription	Pancreas	Pancrea
29	chr11:10002400-10006200	Strong transcription	Monocytes-CD14+_RO01746	blood
30	chr11:10002800-10016000	Weak transcription	Colonic Mucosa	Colon
31	chr11:10003800-10007200	Strong transcription	Primary monocytes fromperipheralblood	blood
32	chr11:10003800-10014800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr11:10004000-10020000	Weak transcription	Primary neutrophils fromperipheralblood	blood
34	chr11:10004200-10048600	Weak transcription	Brain Angular Gyrus	brain
35	chr11:10004400-10008600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr11:10004400-10008800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr11:10004400-10008800	Weak transcription	HSMMtube	muscle
38	chr11:10004400-10020200	Weak transcription	Brain Hippocampus Middle	brain
39	chr11:10004400-10021600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr11:10004400-10024200	Weak transcription	NHLF	lung
41	chr11:10004600-10008200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr11:10004600-10008600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr11:10004600-10010600	Weak transcription	NHDF-Ad	bronchial
44	chr11:10004600-10021800	Weak transcription	Esophagus	oesophagus
45	chr11:10004600-10024000	Weak transcription	Brain Anterior Caudate	brain
46	chr11:10004600-10027600	Weak transcription	Fetal Muscle Trunk	muscle
47	chr11:10004800-10011000	Strong transcription	Fetal Lung	lung
48	chr11:10004800-10021800	Weak transcription	Rectal Mucosa Donor 31	rectum
49	chr11:10004800-10023000	Weak transcription	Brain Cingulate Gyrus	brain
50	chr11:10004800-10023800	Weak transcription	HUVEC	blood vessel

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