Variant report

Variant	rs12354766
Chromosome Location	chr10:22909073-22909074
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:22907515..22910323-chr10:23002049..23004371,2	MCF-7	breast:
2	chr10:22907517..22909327-chr10:22970416..22973310,2	MCF-7	breast:
3	chr10:22906504..22909168-chr10:22914292..22915841,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150867	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10764339	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs10764344	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10828323	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10828324	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs10828325	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10828328	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs11013052	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs11013059	0.89[ASN][1000 genomes]
rs11013066	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11013067	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11013068	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11013077	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11013082	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes]
rs11013091	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs1171490	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1171492	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs1171493	0.81[EUR][1000 genomes]
rs1171497	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1171503	0.92[CEU][hapmap];1.00[CHB][hapmap]
rs1171504	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs1171506	0.92[CEU][hapmap];1.00[CHB][hapmap]
rs1171509	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs12246676	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12253847	1.00[CHB][hapmap]
rs12356117	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12357289	1.00[CHB][hapmap]
rs12357384	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12357444	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12358560	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12360229	0.96[ASN][1000 genomes]
rs12360495	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12765474	0.96[ASN][1000 genomes]
rs12770214	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs12772257	0.96[ASN][1000 genomes]
rs12774725	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1326340	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1343504	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1409393	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs1409394	0.82[EUR][1000 genomes]
rs1409395	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs1614387	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs1750747	0.84[CEU][hapmap]
rs1750748	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1750775	0.84[CEU][hapmap]
rs1750777	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1778334	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs1778335	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs1778338	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs1778339	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1778340	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1778342	0.92[CEU][hapmap]
rs1778345	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs1778346	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs1778347	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2031620	0.82[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2154053	0.84[CEU][hapmap]
rs2559534	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2798981	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs34208652	0.83[EUR][1000 genomes]
rs34786070	0.85[ASN][1000 genomes]
rs35885150	0.89[ASN][1000 genomes]
rs7071306	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs7912132	0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs7917130	0.92[ASN][1000 genomes]
rs7917460	1.00[ASN][1000 genomes]
rs7921549	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs943196	0.92[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs943197	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs943198	0.85[ASN][1000 genomes]
rs9645524	1.00[JPT][hapmap];0.92[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1830947	chr10:22881196-23004381	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:22894800-22913000	Weak transcription	Fetal Kidney	kidney
2	chr10:22899400-22909400	Enhancers	Brain Angular Gyrus	brain
3	chr10:22899800-22909600	Enhancers	Brain Hippocampus Middle	brain
4	chr10:22901400-22909400	Weak transcription	Thymus	Thymus
5	chr10:22901600-22918200	Enhancers	Primary T helper cells fromperipheralblood	blood
6	chr10:22901800-22909400	Enhancers	Primary T cells from cord blood	blood
7	chr10:22901800-22913000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr10:22901800-22918800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
9	chr10:22902400-22921600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr10:22902800-22912400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr10:22903000-22909200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
12	chr10:22903800-22922000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr10:22904000-22910600	Enhancers	Primary T cells fromperipheralblood	blood
14	chr10:22904000-22913200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
15	chr10:22904600-22909200	Enhancers	Brain Germinal Matrix	brain
16	chr10:22905000-22910600	Enhancers	HSMM	muscle
17	chr10:22905000-22912400	Enhancers	Primary T helper naive cells from peripheral blood	blood
18	chr10:22905000-22914400	Enhancers	Primary T helper cells PMA-I stimulated	--
19	chr10:22905000-22918600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
20	chr10:22905200-22909200	Enhancers	Hela-S3	cervix
21	chr10:22905200-22909600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr10:22905200-22909600	Enhancers	Brain Substantia Nigra	brain
23	chr10:22905200-22912800	Weak transcription	Colonic Mucosa	Colon
24	chr10:22905200-22919400	Enhancers	NHDF-Ad	bronchial
25	chr10:22905400-22909200	Enhancers	Brain Cingulate Gyrus	brain
26	chr10:22905400-22909200	Weak transcription	Fetal Muscle Trunk	muscle
27	chr10:22905400-22909200	Weak transcription	Pancreas	Pancrea
28	chr10:22905400-22909200	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr10:22905400-22910800	Enhancers	GM12878-XiMat	blood
30	chr10:22905400-22911200	Weak transcription	Lung	lung
31	chr10:22905400-22912200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr10:22905400-22913800	Enhancers	Brain Anterior Caudate	brain
33	chr10:22905400-22914400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
34	chr10:22905400-22915400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
35	chr10:22905600-22909600	Weak transcription	Stomach Mucosa	stomach
36	chr10:22905600-22910000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
37	chr10:22905800-22911000	Enhancers	Cortex derived primary cultured neurospheres	brain
38	chr10:22906000-22909400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr10:22906200-22909200	Weak transcription	Gastric	stomach
40	chr10:22906200-22909600	Weak transcription	Spleen	Spleen
41	chr10:22906200-22910400	Enhancers	Fetal Lung	lung
42	chr10:22906400-22910200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr10:22906400-22918200	Enhancers	NHLF	lung
44	chr10:22906600-22909400	Enhancers	Osteobl	bone
45	chr10:22906600-22911000	Enhancers	Fetal Muscle Leg	muscle
46	chr10:22906600-22912800	Enhancers	Placenta	Placenta
47	chr10:22906600-22913600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr10:22906800-22909600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr10:22906800-22910600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr10:22906800-22910800	Enhancers	HMEC	breast

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