Variant report

Variant	rs10458645
Chromosome Location	chr10:61588347-61588348
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	chr10:61582052..61584614-chr10:61587105..61589792,2	MCF-7	breast:

Extended variants
information (count: 75 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10509112	0.85[CHD][hapmap]
rs1053266	0.82[GIH][hapmap]
rs10761414	0.89[GIH][hapmap]
rs10761415	0.87[GIH][hapmap]
rs10821604	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821605	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821606	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821607	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10994021	0.80[JPT][hapmap]
rs10994026	0.85[JPT][hapmap]
rs10994027	0.85[JPT][hapmap]
rs10994030	0.85[JPT][hapmap]
rs10994031	0.85[JPT][hapmap]
rs10994051	0.82[EUR][1000 genomes]
rs1149660	0.81[JPT][hapmap]
rs1171786	0.87[CHD][hapmap]
rs12243564	0.85[CEU][hapmap];0.89[CHD][hapmap];0.87[GIH][hapmap];0.85[JPT][hapmap];0.89[TSI][hapmap];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1621496	0.85[JPT][hapmap]
rs1664256	0.85[JPT][hapmap]
rs1664284	0.92[CHD][hapmap];0.90[JPT][hapmap]
rs1664285	0.90[JPT][hapmap]
rs1684901	0.80[CHB][hapmap];0.90[JPT][hapmap]
rs16914233	0.85[JPT][hapmap]
rs1709342	0.81[JPT][hapmap]
rs1709343	0.81[JPT][hapmap]
rs1709345	0.94[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs1871637	1.00[CEU][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1871638	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];0.81[LWK][hapmap];0.91[MEX][hapmap];0.97[MKK][hapmap];0.93[TSI][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2120989	0.96[CEU][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2120990	0.96[CEU][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2271562	0.83[JPT][hapmap]
rs2393572	0.91[GIH][hapmap]
rs2440926	0.81[JPT][hapmap]
rs2458661	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap];0.95[TSI][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2458663	0.90[CHD][hapmap];0.90[JPT][hapmap]
rs3793878	0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs3844161	1.00[ASW][hapmap];0.96[CEU][hapmap];0.92[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.93[TSI][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3851247	0.85[CEU][hapmap];0.90[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.82[MEX][hapmap];0.83[TSI][hapmap];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3851248	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3862860	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3862861	0.81[ASN][1000 genomes]
rs3999569	0.85[CEU][hapmap];0.95[JPT][hapmap];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3999570	0.85[CEU][hapmap];0.90[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap];0.89[TSI][hapmap];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4948244	0.84[CHD][hapmap]
rs4948372	0.85[CEU][hapmap];0.90[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap];0.89[TSI][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4948373	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4948374	0.82[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.95[TSI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4948375	0.84[CEU][hapmap];0.94[JPT][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61848702	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6479653	0.85[JPT][hapmap]
rs6479654	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6479659	0.81[ASN][1000 genomes]
rs6479660	0.80[ASN][1000 genomes]
rs6479661	0.85[CEU][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6479662	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7068104	0.83[EUR][1000 genomes]
rs7068247	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7070800	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7074685	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7075215	0.85[GIH][hapmap]
rs7078533	0.82[JPT][hapmap]
rs7079228	0.85[CEU][hapmap];0.90[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap];0.89[TSI][hapmap];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7079588	0.85[JPT][hapmap]
rs7088755	0.85[JPT][hapmap]
rs7088808	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7088886	0.92[CEU][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7092259	0.85[JPT][hapmap]
rs7099368	0.89[GIH][hapmap]
rs7894842	0.87[GIH][hapmap]
rs7908517	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7910256	0.85[JPT][hapmap]
rs7920049	0.85[JPT][hapmap]
rs7920403	0.90[CHD][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.87[TSI][hapmap];0.80[ASN][1000 genomes]
rs9663498	0.85[CEU][hapmap];0.85[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.95[JPT][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9664183	0.95[JPT][hapmap];0.80[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10458645	EGR2	cis	parietal	SCAN

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:61567000-61593600	Weak transcription	Small Intestine	intestine
2	chr10:61571000-61591200	Weak transcription	NHEK	skin
3	chr10:61571400-61628000	Weak transcription	Spleen	Spleen
4	chr10:61571600-61595800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr10:61571600-61598400	Weak transcription	Fetal Brain Female	brain
6	chr10:61571600-61609200	Weak transcription	NHLF	lung
7	chr10:61571600-61616000	Weak transcription	Fetal Kidney	kidney
8	chr10:61572000-61615000	Weak transcription	Colonic Mucosa	Colon
9	chr10:61572400-61589200	Weak transcription	K562	blood
10	chr10:61572400-61591200	Weak transcription	Hela-S3	cervix
11	chr10:61572400-61618800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr10:61572800-61591200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr10:61572800-61591200	Weak transcription	Stomach Smooth Muscle	stomach
14	chr10:61573000-61598400	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr10:61574200-61589000	Weak transcription	Liver	Liver
16	chr10:61574200-61589200	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr10:61574600-61588400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr10:61574600-61589000	Weak transcription	HMEC	breast
19	chr10:61574600-61589200	Weak transcription	Fetal Thymus	thymus
20	chr10:61574800-61589400	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr10:61576600-61594400	Weak transcription	Fetal Heart	heart
22	chr10:61578000-61590600	Weak transcription	HUES6 Cell Line	embryonic stem cell
23	chr10:61578000-61590600	Weak transcription	NH-A	brain
24	chr10:61578000-61590800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr10:61578000-61591400	Weak transcription	Rectal Smooth Muscle	rectum
26	chr10:61578000-61623200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr10:61578200-61589600	Weak transcription	Brain Angular Gyrus	brain
28	chr10:61578200-61590400	Weak transcription	Osteobl	bone
29	chr10:61578200-61590600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr10:61578200-61591200	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr10:61578200-61591400	Weak transcription	Esophagus	oesophagus
32	chr10:61578200-61595400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr10:61578200-61597800	Weak transcription	HSMMtube	muscle
34	chr10:61578400-61591200	Weak transcription	HSMM	muscle
35	chr10:61578400-61603400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr10:61578600-61589200	Weak transcription	Duodenum Mucosa	Duodenum
37	chr10:61578800-61589400	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr10:61579600-61588600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
39	chr10:61579600-61591000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
40	chr10:61579600-61591800	Weak transcription	HUVEC	blood vessel
41	chr10:61579800-61595200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr10:61580000-61590600	Weak transcription	Brain Germinal Matrix	brain
43	chr10:61580000-61595200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
44	chr10:61580200-61591200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
45	chr10:61580200-61603200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr10:61580200-61605600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
47	chr10:61580200-61624200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
48	chr10:61580400-61591000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
49	chr10:61580400-61624200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
50	chr10:61580600-61616200	Weak transcription	Fetal Brain Male	brain

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