Variant report

Variant	rs11600292
Chromosome Location	chr11:46958698-46958699
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	chr11:46958122..46959949-chr11:47174429..47176046,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000149179	Chromatin interaction

Extended variants
information (count: 105 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs1007738	0.82[GIH][hapmap];0.88[TSI][hapmap]
rs10734548	0.84[GIH][hapmap];0.92[TSI][hapmap]
rs10742784	0.80[EUR][1000 genomes]
rs10769211	0.82[GIH][hapmap];0.92[TSI][hapmap]
rs10769212	0.81[EUR][1000 genomes]
rs10769225	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10769226	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10769227	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10769228	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10769234	0.86[CHB][hapmap]
rs10838629	0.82[EUR][1000 genomes]
rs10838635	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10838640	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10838641	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10838644	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10838646	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10838652	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10838658	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs10838660	0.83[CHB][hapmap];0.94[GIH][hapmap]
rs11039002	0.81[MEX][hapmap]
rs11039014	0.82[GIH][hapmap];0.92[TSI][hapmap];0.80[EUR][1000 genomes]
rs11039028	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11039033	0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11039035	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.94[ASN][1000 genomes]
rs11039057	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11039074	0.90[CHB][hapmap];0.83[JPT][hapmap]
rs11039080	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11039081	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11039097	0.83[CHB][hapmap];0.94[GIH][hapmap];0.86[MEX][hapmap]
rs11039105	0.83[CHB][hapmap];0.94[GIH][hapmap];0.86[MEX][hapmap]
rs11601798	0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs11602250	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11606992	0.83[ASN][1000 genomes]
rs11608083	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12417519	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs12796744	0.83[CHB][hapmap];0.94[GIH][hapmap]
rs12807111	0.88[EUR][1000 genomes]
rs1551744	0.82[GIH][hapmap];0.88[TSI][hapmap]
rs17790204	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2035068	0.87[EUR][1000 genomes]
rs2087215	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap]
rs2290884	0.81[EUR][1000 genomes]
rs2306026	0.81[EUR][1000 genomes]
rs2306027	0.84[EUR][1000 genomes]
rs2306028	0.81[MEX][hapmap]
rs2306033	0.81[MEX][hapmap]
rs2306035	0.87[EUR][1000 genomes]
rs34340483	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3816614	0.81[EUR][1000 genomes]
rs3922684	0.81[ASN][1000 genomes]
rs4076557	0.81[MEX][hapmap]
rs4269876	0.81[ASN][1000 genomes]
rs4315028	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4394802	1.00[CEU][hapmap];0.95[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4494268	0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.92[ASN][1000 genomes]
rs4498951	0.81[ASN][1000 genomes]
rs4528282	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4548577	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4576779	0.80[ASN][1000 genomes]
rs4581406	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4587689	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs4752815	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4752816	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4752932	0.81[MEX][hapmap]
rs4752933	0.81[MEX][hapmap]
rs4752951	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4752957	0.83[CHB][hapmap];0.94[GIH][hapmap];0.83[MEX][hapmap]
rs4752962	0.83[CHB][hapmap]
rs61896133	0.81[ASN][1000 genomes]
rs61896136	0.81[ASN][1000 genomes]
rs6485715	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6485716	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs6485726	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6485739	0.83[CHB][hapmap];0.94[GIH][hapmap];0.83[MEX][hapmap]
rs7101374	0.82[GIH][hapmap];0.92[TSI][hapmap]
rs7103581	0.83[CHB][hapmap];0.94[GIH][hapmap];0.83[MEX][hapmap]
rs7107778	0.84[GIH][hapmap];0.92[TSI][hapmap]
rs7108822	1.00[CEU][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7108902	0.83[CHB][hapmap];0.94[GIH][hapmap];0.86[MEX][hapmap]
rs7111270	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7112854	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs7113108	0.80[AFR][1000 genomes]
rs7114683	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7118170	0.83[EUR][1000 genomes]
rs7123632	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7124648	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7125807	0.82[CHB][hapmap];0.94[GIH][hapmap];0.82[MEX][hapmap]
rs7126005	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7127741	0.90[CEU][hapmap];0.80[YRI][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7128193	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7128650	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7130947	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7929294	0.84[GIH][hapmap];0.92[TSI][hapmap]
rs7929688	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7931260	0.83[CHB][hapmap];0.94[GIH][hapmap];0.86[MEX][hapmap]
rs7935346	0.87[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7938169	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7939786	0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7940441	0.86[CEU][hapmap];0.86[CHB][hapmap];0.94[CHD][hapmap];0.91[GIH][hapmap];0.86[JPT][hapmap];0.96[TSI][hapmap];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7945315	0.83[CHB][hapmap];0.94[GIH][hapmap];0.83[MEX][hapmap]
rs7945558	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7946709	0.83[CHB][hapmap];0.94[GIH][hapmap]
rs7946739	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7950753	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs964551	0.84[GIH][hapmap];0.92[TSI][hapmap];0.81[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11600292	NUP160	cis	cerebellum	SCAN

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:46957600-46958800	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
2	chr11:46957600-46959200	Active TSS	Brain Inferior Temporal Lobe	brain
3	chr11:46957800-46958800	Active TSS	HUES64 Cell Line	embryonic stem cell
4	chr11:46957800-46958800	Flanking Active TSS	Primary T cells fromperipheralblood	blood
5	chr11:46957800-46958800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
6	chr11:46957800-46958800	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr11:46957800-46958800	Flanking Active TSS	Liver	Liver
8	chr11:46957800-46958800	Active TSS	Brain Angular Gyrus	brain
9	chr11:46957800-46958800	Active TSS	Brain Cingulate Gyrus	brain
10	chr11:46957800-46958800	Active TSS	Brain Hippocampus Middle	brain
11	chr11:46957800-46958800	Active TSS	Colonic Mucosa	Colon
12	chr11:46957800-46958800	Active TSS	Fetal Intestine Large	intestine
13	chr11:46957800-46958800	Active TSS	Fetal Kidney	kidney
14	chr11:46957800-46958800	Active TSS	Fetal Lung	lung
15	chr11:46957800-46958800	Active TSS	Right Atrium	heart
16	chr11:46957800-46958800	Active TSS	GM12878-XiMat	blood
17	chr11:46957800-46959000	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
18	chr11:46957800-46959000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
19	chr11:46957800-46959000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr11:46957800-46959000	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr11:46957800-46959000	Active TSS	HMEC	breast
22	chr11:46957800-46959200	Active TSS	ES-I3 Cell Line	embryonic stem cell
23	chr11:46957800-46959200	Active TSS	H9 Cell Line	embryonic stem cell
24	chr11:46957800-46959200	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr11:46957800-46959200	Active TSS	iPS-15b Cell Line	embryonic stem cell
26	chr11:46957800-46959200	Active TSS	iPS-18 Cell Line	embryonic stem cell
27	chr11:46957800-46959200	Active TSS	iPS-20b Cell Line	embryonic stem cell
28	chr11:46957800-46959200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr11:46957800-46959200	Active TSS	Pancreatic Islets	Pancreatic Islet
30	chr11:46957800-46959200	Active TSS	Stomach Smooth Muscle	stomach
31	chr11:46957800-46959200	Active TSS	HSMM	muscle
32	chr11:46957800-46959200	Active TSS	NHLF	lung
33	chr11:46958000-46958800	Active TSS	H1 Cell Line	embryonic stem cell
34	chr11:46958000-46958800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr11:46958000-46958800	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
36	chr11:46958000-46958800	Active TSS	Breast Myoepithelial Primary Cells	Breast
37	chr11:46958000-46958800	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
38	chr11:46958000-46958800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr11:46958000-46958800	Active TSS	Fetal Brain Male	brain
40	chr11:46958000-46958800	Active TSS	Ovary	ovary
41	chr11:46958000-46958800	Active TSS	Psoas Muscle	Psoas
42	chr11:46958000-46958800	Active TSS	Right Ventricle	heart
43	chr11:46958000-46958800	Active TSS	K562	blood
44	chr11:46958000-46959000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr11:46958000-46959000	Active TSS	Fetal Muscle Trunk	muscle
46	chr11:46958000-46959000	Active TSS	Left Ventricle	heart
47	chr11:46958000-46959000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
48	chr11:46958000-46959200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr11:46958000-46959200	Active TSS	HUES6 Cell Line	embryonic stem cell
50	chr11:46958000-46959200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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