Variant report

Variant	rs7852450
Chromosome Location	chr9:21825075-21825076
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:21803276..21805320-chr9:21825031..21828014,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000099810	Chromatin interaction

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs10118262	0.83[AMR][1000 genomes]
rs10119658	0.81[AMR][1000 genomes]
rs10738599	0.85[AMR][1000 genomes]
rs10757247	0.81[AMR][1000 genomes]
rs10757250	0.81[AMR][1000 genomes]
rs10757252	0.82[AMR][1000 genomes]
rs10757253	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10757254	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10757255	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10811613	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10811617	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10811618	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10965122	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10965127	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12344842	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1335505	0.81[AMR][1000 genomes]
rs1335506	0.81[AMR][1000 genomes]
rs1335507	0.81[AMR][1000 genomes]
rs1335508	0.81[AMR][1000 genomes]
rs1335512	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1345022	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1345027	0.81[AMR][1000 genomes]
rs1372057	0.81[AMR][1000 genomes]
rs1372058	0.81[AMR][1000 genomes]
rs1372059	0.81[AMR][1000 genomes]
rs1414228	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1414242	0.81[AMR][1000 genomes]
rs1414244	0.81[AMR][1000 genomes]
rs1414245	0.81[AMR][1000 genomes]
rs1414246	0.81[AMR][1000 genomes]
rs1414247	0.81[AMR][1000 genomes]
rs1414248	0.81[AMR][1000 genomes]
rs1414249	0.81[AMR][1000 genomes]
rs1414250	0.82[AMR][1000 genomes]
rs1414251	0.82[AMR][1000 genomes]
rs1414252	0.82[AMR][1000 genomes]
rs1414256	0.82[AMR][1000 genomes]
rs1414257	0.82[AMR][1000 genomes]
rs1542074	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1542075	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1542076	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1932237	0.82[AMR][1000 genomes]
rs1965153	0.81[AMR][1000 genomes]
rs2152272	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2152273	0.84[AMR][1000 genomes]
rs2184551	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2218220	0.82[AMR][1000 genomes]
rs2891159	0.81[AMR][1000 genomes]
rs3849929	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3927737	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3927738	0.93[AFR][1000 genomes];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3928894	0.95[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4300088	0.82[AMR][1000 genomes]
rs4352937	0.81[AMR][1000 genomes]
rs4431674	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4548267	0.81[AMR][1000 genomes]
rs4636294	0.81[AMR][1000 genomes]
rs6475576	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6475578	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6475579	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6475585	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7018772	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7021012	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7022856	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7023474	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7023680	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7024027	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7027989	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7033503	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7037577	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7038708	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7045768	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72691561	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72691562	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72691563	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72691564	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7846749	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7850446	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7852710	0.82[AMR][1000 genomes]
rs7852900	0.81[AMR][1000 genomes]
rs7853131	0.81[AMR][1000 genomes]
rs7856941	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7866540	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7866787	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7866885	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs869329	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs869330	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs871024	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9298824	0.81[AMR][1000 genomes]
rs9298825	0.81[AMR][1000 genomes]
rs935053	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs935055	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9886831	0.84[AMR][1000 genomes];0.80[EUR][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	nsv529609	chr9:21708371-22537069	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv8426	chr9:21763810-22176200	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:21804000-21838200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr9:21806600-21841200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr9:21809200-21836800	Weak transcription	Small Intestine	intestine
4	chr9:21814000-21831800	Weak transcription	Fetal Heart	heart
5	chr9:21814400-21831800	Weak transcription	Stomach Mucosa	stomach
6	chr9:21814400-21837400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr9:21814400-21845200	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr9:21816400-21836600	Weak transcription	Psoas Muscle	Psoas
9	chr9:21816600-21833800	Weak transcription	Fetal Brain Male	brain
10	chr9:21816800-21833200	Weak transcription	Brain Angular Gyrus	brain
11	chr9:21817400-21829000	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr9:21817400-21830200	Weak transcription	Colon Smooth Muscle	Colon
13	chr9:21817400-21837800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr9:21817800-21840600	Weak transcription	Colonic Mucosa	Colon
15	chr9:21818600-21840800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr9:21818800-21840400	Weak transcription	Right Ventricle	heart
17	chr9:21819000-21828800	Weak transcription	HSMMtube	muscle
18	chr9:21819000-21831400	Weak transcription	NHLF	lung
19	chr9:21819200-21825200	Weak transcription	Hela-S3	cervix
20	chr9:21819200-21825200	Weak transcription	HMEC	breast
21	chr9:21819200-21825200	Weak transcription	HSMM	muscle
22	chr9:21819200-21825400	Weak transcription	Primary B cells from cord blood	blood
23	chr9:21819200-21825600	Weak transcription	NHEK	skin
24	chr9:21819200-21827200	Weak transcription	NHDF-Ad	bronchial
25	chr9:21819200-21828800	Weak transcription	Osteobl	bone
26	chr9:21819400-21825600	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr9:21819400-21827400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr9:21819400-21827600	Weak transcription	NH-A	brain
29	chr9:21819400-21829000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
30	chr9:21819400-21829200	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr9:21819400-21830800	Weak transcription	HUVEC	blood vessel
32	chr9:21819400-21831400	Weak transcription	Placenta	Placenta
33	chr9:21819400-21831800	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr9:21819400-21833800	Weak transcription	Rectal Smooth Muscle	rectum
35	chr9:21819400-21840400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
36	chr9:21819400-21841600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
37	chr9:21819600-21825200	Weak transcription	Fetal Kidney	kidney
38	chr9:21819600-21830600	Weak transcription	Brain Cingulate Gyrus	brain
39	chr9:21819800-21832400	Weak transcription	Brain Anterior Caudate	brain
40	chr9:21820000-21825400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr9:21822000-21825800	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
42	chr9:21822600-21825800	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
43	chr9:21823000-21830600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr9:21823800-21825200	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
45	chr9:21823800-21826000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr9:21823800-21826000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr9:21823800-21826000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr9:21823800-21826000	Strong transcription	Duodenum Mucosa	Duodenum
49	chr9:21823800-21826600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr9:21823800-21826800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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