Variant report

Variant	rs10517850
Chromosome Location	chr4:166360236-166360237
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:166353654..166355790-chr4:166357713..166360539,2	MCF-7	breast:
2	chr4:166356349..166358092-chr4:166359657..166361158,2	MCF-7	breast:

Extended variants
information (count: 173 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:173)

rs_ID	r²[population]
rs10004552	0.93[ASN][1000 genomes]
rs10011232	0.96[ASN][1000 genomes]
rs10014827	0.86[JPT][hapmap]
rs10018971	1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs10019052	1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs10025621	0.96[ASN][1000 genomes]
rs10027722	0.96[ASN][1000 genomes]
rs10029342	0.96[ASN][1000 genomes]
rs10029982	0.96[ASN][1000 genomes]
rs10033089	0.96[ASN][1000 genomes]
rs10471062	0.96[ASN][1000 genomes]
rs10517843	0.84[JPT][hapmap]
rs10517844	0.93[GIH][hapmap];0.83[JPT][hapmap]
rs10517845	0.93[GIH][hapmap];0.84[JPT][hapmap]
rs10517846	1.00[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.96[ASN][1000 genomes]
rs10517848	0.87[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10517849	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11724032	0.95[ASN][1000 genomes]
rs11724900	1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.96[ASN][1000 genomes]
rs11724918	0.96[ASN][1000 genomes]
rs11724925	0.96[ASN][1000 genomes]
rs11727980	0.87[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11728234	0.95[CHB][hapmap];0.95[CHD][hapmap];0.92[GIH][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs11728267	0.96[ASN][1000 genomes]
rs11728337	1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.96[ASN][1000 genomes]
rs11729298	0.96[ASN][1000 genomes]
rs11731695	1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs11731727	0.96[ASN][1000 genomes]
rs11731822	0.84[JPT][hapmap]
rs11732063	0.96[ASN][1000 genomes]
rs11732161	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs11732478	0.83[JPT][hapmap]
rs11732583	0.93[GIH][hapmap];0.84[JPT][hapmap]
rs11733216	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs11735569	0.93[ASN][1000 genomes]
rs11735607	1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs11736871	0.93[GIH][hapmap];0.84[JPT][hapmap]
rs11737162	0.96[ASN][1000 genomes]
rs13102522	0.95[ASN][1000 genomes]
rs13102614	1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.96[ASN][1000 genomes]
rs13102659	0.95[ASN][1000 genomes]
rs13103210	1.00[CHB][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs13103635	0.85[ASN][1000 genomes]
rs13103665	1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs13103782	0.83[JPT][hapmap]
rs13107292	1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs13110546	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs13110900	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs13111119	0.96[ASN][1000 genomes]
rs13111122	0.95[ASN][1000 genomes]
rs13125242	1.00[CHB][hapmap];0.93[JPT][hapmap];0.96[ASN][1000 genomes]
rs13126038	0.88[JPT][hapmap]
rs13130511	0.93[ASN][1000 genomes]
rs13131303	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs13131514	0.95[ASN][1000 genomes]
rs13131657	1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs13131741	0.93[ASN][1000 genomes]
rs13132068	0.95[ASN][1000 genomes]
rs13134608	0.82[ASN][1000 genomes]
rs13138024	0.96[ASN][1000 genomes]
rs13141616	0.96[ASN][1000 genomes]
rs13147113	0.96[ASN][1000 genomes]
rs13147995	0.84[JPT][hapmap];0.84[MEX][hapmap]
rs13149691	0.82[JPT][hapmap]
rs13149935	0.83[JPT][hapmap]
rs13151923	0.96[ASN][1000 genomes]
rs1370678	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1370679	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1370680	0.87[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17046419	0.96[ASN][1000 genomes]
rs17046421	0.93[ASN][1000 genomes]
rs17046423	0.93[ASN][1000 genomes]
rs17046430	0.96[ASN][1000 genomes]
rs17046432	0.95[ASN][1000 genomes]
rs17046436	0.96[ASN][1000 genomes]
rs17046441	0.96[ASN][1000 genomes]
rs17046447	0.96[ASN][1000 genomes]
rs17046449	0.96[ASN][1000 genomes]
rs17046452	0.96[ASN][1000 genomes]
rs17440198	0.96[ASN][1000 genomes]
rs17488569	0.87[YRI][hapmap]
rs17687178	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs1866221	0.84[JPT][hapmap]
rs1866222	0.82[JPT][hapmap]
rs1866223	0.88[JPT][hapmap]
rs1866224	0.86[GIH][hapmap];0.84[JPT][hapmap];0.83[MKK][hapmap];1.00[YRI][hapmap]
rs1866225	0.83[JPT][hapmap]
rs1946816	1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.96[ASN][1000 genomes]
rs1946817	0.96[ASN][1000 genomes]
rs1946818	0.96[ASN][1000 genomes]
rs2033767	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs28412249	0.94[ASN][1000 genomes]
rs28429925	0.96[ASN][1000 genomes]
rs28450545	0.96[ASN][1000 genomes]
rs28490347	0.96[ASN][1000 genomes]
rs28510895	0.96[ASN][1000 genomes]
rs28516800	0.96[ASN][1000 genomes]
rs28547315	0.96[ASN][1000 genomes]
rs28573326	0.96[ASN][1000 genomes]
rs28635186	0.96[ASN][1000 genomes]
rs28638079	0.96[ASN][1000 genomes]
rs28655558	0.96[ASN][1000 genomes]
rs28660703	0.93[ASN][1000 genomes]
rs2874700	0.84[JPT][hapmap]
rs28888680	0.96[ASN][1000 genomes]
rs34313639	0.94[ASN][1000 genomes]
rs34324337	0.96[ASN][1000 genomes]
rs34771634	0.96[ASN][1000 genomes]
rs34843230	0.94[ASN][1000 genomes]
rs35173790	0.96[ASN][1000 genomes]
rs35186204	0.96[ASN][1000 genomes]
rs35200071	0.96[ASN][1000 genomes]
rs35352686	0.94[ASN][1000 genomes]
rs35406069	0.85[ASN][1000 genomes]
rs35434916	0.86[ASN][1000 genomes]
rs35593296	0.96[ASN][1000 genomes]
rs36001045	0.86[ASN][1000 genomes]
rs36071066	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3943704	0.94[ASN][1000 genomes]
rs4266249	0.84[JPT][hapmap]
rs4349560	0.84[JPT][hapmap]
rs4379020	0.96[ASN][1000 genomes]
rs4408916	0.82[JPT][hapmap]
rs4441715	0.87[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4461476	0.87[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4481204	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55830608	0.96[ASN][1000 genomes]
rs56189732	0.95[ASN][1000 genomes]
rs56238507	0.94[ASN][1000 genomes]
rs58507021	0.94[ASN][1000 genomes]
rs59611751	0.94[ASN][1000 genomes]
rs59831445	0.93[ASN][1000 genomes]
rs61229216	0.96[ASN][1000 genomes]
rs6536913	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs66672542	0.96[ASN][1000 genomes]
rs66793975	0.87[ASN][1000 genomes]
rs66799250	0.95[ASN][1000 genomes]
rs66903738	0.84[ASN][1000 genomes]
rs67075652	0.93[ASN][1000 genomes]
rs67261593	0.91[ASN][1000 genomes]
rs67371851	0.95[ASN][1000 genomes]
rs67442618	0.96[ASN][1000 genomes]
rs67474738	0.91[ASN][1000 genomes]
rs67527862	0.96[ASN][1000 genomes]
rs67683477	0.96[ASN][1000 genomes]
rs67815427	0.93[ASN][1000 genomes]
rs67848784	0.95[ASN][1000 genomes]
rs67904921	0.96[ASN][1000 genomes]
rs67911830	0.96[ASN][1000 genomes]
rs68072898	0.91[ASN][1000 genomes]
rs68185452	0.96[ASN][1000 genomes]
rs6828394	0.95[ASN][1000 genomes]
rs6832392	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs6832627	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs6833220	0.96[ASN][1000 genomes]
rs72703616	0.96[ASN][1000 genomes]
rs72703629	0.93[ASN][1000 genomes]
rs72703630	0.96[ASN][1000 genomes]
rs72703647	0.96[ASN][1000 genomes]
rs72703648	0.95[ASN][1000 genomes]
rs72703650	0.96[ASN][1000 genomes]
rs729699	0.93[GIH][hapmap];0.84[JPT][hapmap]
rs73860742	0.93[ASN][1000 genomes]
rs7695422	0.85[ASN][1000 genomes]
rs9308106	0.95[ASN][1000 genomes]
rs9308107	0.96[ASN][1000 genomes]
rs9308108	0.96[ASN][1000 genomes]
rs9759580	0.93[ASN][1000 genomes]
rs9762244	0.96[ASN][1000 genomes]
rs9992011	0.88[JPT][hapmap]
rs9993860	0.95[ASN][1000 genomes]
rs9996980	0.96[ASN][1000 genomes]
rs9999463	0.96[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10517850	NPY1R	cis	parietal	SCAN
rs10517850	CPE	cis	cerebellum	SCAN

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:166319600-166361800	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr4:166326800-166364400	Weak transcription	Brain Germinal Matrix	brain
3	chr4:166342800-166364000	Weak transcription	HepG2	liver
4	chr4:166347400-166360800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr4:166348400-166361800	Weak transcription	Aorta	Aorta
6	chr4:166352600-166361000	Weak transcription	Brain Angular Gyrus	brain
7	chr4:166352600-166366400	Weak transcription	Pancreas	Pancrea
8	chr4:166353400-166360800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr4:166355800-166360600	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr4:166356400-166360800	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr4:166356600-166361200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr4:166358600-166360400	Weak transcription	Brain Substantia Nigra	brain
13	chr4:166359400-166361200	Enhancers	Pancreatic Islets	Pancreatic Islet
14	chr4:166359400-166362000	Enhancers	Brain Anterior Caudate	brain
15	chr4:166359400-166362600	Enhancers	Fetal Brain Female	brain
16	chr4:166359800-166362600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr4:166359800-166363000	Enhancers	Fetal Brain Male	brain
18	chr4:166360000-166360800	Enhancers	Hela-S3	cervix
19	chr4:166360000-166361400	Enhancers	NH-A	brain
20	chr4:166360000-166361800	Enhancers	Brain Cingulate Gyrus	brain
21	chr4:166360000-166362400	Enhancers	Brain Hippocampus Middle	brain
22	chr4:166360000-166365400	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr4:166360200-166360400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
24	chr4:166360200-166362000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr4:166360200-166362000	Enhancers	Cortex derived primary cultured neurospheres	brain
26	chr4:166360200-166363000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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