Variant report

Variant	rs7904344
Chromosome Location	chr10:89501928-89501929
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	chr10:89499726..89502476-chr10:89504728..89506282,2	MCF-7	breast:

Extended variants
information (count: 100 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs10082347	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10218936	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1051441	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10887753	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11202531	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11202536	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11202538	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11202553	1.00[CEU][hapmap];0.80[YRI][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11202557	1.00[CEU][hapmap];1.00[GIH][hapmap];0.83[LWK][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.80[YRI][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11202563	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11202564	0.87[CEU][hapmap];0.85[TSI][hapmap]
rs11202565	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11202568	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11202571	1.00[CEU][hapmap];0.80[YRI][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11498630	0.96[YRI][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11812787	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11816798	1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11817759	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11818430	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12247482	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12253113	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.80[YRI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12413371	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12570131	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12570639	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12571331	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12572581	0.80[EUR][1000 genomes]
rs12573160	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12573349	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12762731	1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.83[AMR][1000 genomes]
rs12764439	0.84[EUR][1000 genomes]
rs12765184	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12765681	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12768487	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12769214	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12769771	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12770684	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12771188	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12771844	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12772552	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12773536	1.00[CEU][hapmap];0.80[YRI][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12775017	1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12775041	1.00[CEU][hapmap];0.88[CHD][hapmap];0.92[TSI][hapmap];0.91[EUR][1000 genomes]
rs12776656	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12778199	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs12779667	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12779915	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs12780234	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12780237	1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12781171	1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12782128	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12782235	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12782454	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12783598	0.89[CEU][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1321934	0.89[MEX][hapmap];0.82[AMR][1000 genomes]
rs17096702	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1819162	1.00[CEU][hapmap];0.92[TSI][hapmap];0.89[EUR][1000 genomes]
rs1819163	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1853167	0.87[CEU][hapmap]
rs1923260	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1923261	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1923262	0.91[CEU][hapmap];0.94[GIH][hapmap];0.89[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1960047	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1993845	1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2038554	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.84[MEX][hapmap];0.94[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2057358	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2067661	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2306157	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34325090	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34466534	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34559481	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34878240	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35254974	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35388513	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35662941	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35814940	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3740278	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3816651	1.00[CEU][hapmap];0.83[AMR][1000 genomes]
rs4443987	0.83[EUR][1000 genomes]
rs6586102	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs66863455	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7068497	0.87[CEU][hapmap];0.85[TSI][hapmap]
rs7073644	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7090088	1.00[CEU][hapmap];0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7090432	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7096449	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7098653	0.91[CEU][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7480	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7481	0.95[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.92[TSI][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7898915	0.87[CEU][hapmap]
rs7901767	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7905932	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7908203	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7910692	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7913763	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7920778	0.83[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];0.95[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7920910	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7921889	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9651491	1.00[CEU][hapmap];0.85[YRI][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9663978	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9664653	1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7904344	LIPJ	cis	cerebellum	SCAN

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89460400-89512000	Weak transcription	HSMM	muscle
2	chr10:89463000-89541400	Weak transcription	Rectal Smooth Muscle	rectum
3	chr10:89472400-89503000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr10:89473000-89577200	Weak transcription	Gastric	stomach
5	chr10:89476200-89542400	Weak transcription	Pancreas	Pancrea
6	chr10:89476400-89504800	Weak transcription	Left Ventricle	heart
7	chr10:89483200-89503200	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr10:89487400-89503200	Weak transcription	Colonic Mucosa	Colon
9	chr10:89490000-89503000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr10:89490800-89511400	Weak transcription	Primary B cells from cord blood	blood
11	chr10:89494800-89503000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr10:89495000-89503000	Weak transcription	Fetal Muscle Trunk	muscle
13	chr10:89495000-89512200	Weak transcription	Colon Smooth Muscle	Colon
14	chr10:89495000-89514000	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr10:89495000-89541400	Weak transcription	Right Ventricle	heart
16	chr10:89495000-89576400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr10:89495200-89502400	Weak transcription	Ovary	ovary
18	chr10:89495200-89502600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr10:89495200-89502600	Weak transcription	HUVEC	blood vessel
20	chr10:89495200-89503000	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr10:89495200-89503000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr10:89495200-89503000	Weak transcription	Fetal Stomach	stomach
23	chr10:89495200-89503200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr10:89495200-89503200	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr10:89495200-89504200	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr10:89495200-89504600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr10:89495200-89505000	Weak transcription	Duodenum Mucosa	Duodenum
28	chr10:89495200-89509000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr10:89495200-89509000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr10:89495200-89509600	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr10:89495200-89511800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr10:89495200-89514000	Weak transcription	Fetal Muscle Leg	muscle
33	chr10:89495200-89515600	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr10:89495200-89530600	Weak transcription	Brain Cingulate Gyrus	brain
35	chr10:89495200-89542600	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr10:89495200-89544600	Weak transcription	Brain Substantia Nigra	brain
37	chr10:89495200-89559200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr10:89495200-89577400	Weak transcription	Spleen	Spleen
39	chr10:89495400-89502200	Weak transcription	Fetal Lung	lung
40	chr10:89495400-89525600	Weak transcription	Brain Hippocampus Middle	brain
41	chr10:89495600-89503000	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr10:89495600-89513000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr10:89497200-89503000	Weak transcription	NH-A	brain
44	chr10:89497400-89502600	Weak transcription	Lung	lung
45	chr10:89497800-89502400	Weak transcription	Rectal Mucosa Donor 29	rectum
46	chr10:89498200-89519400	Weak transcription	Stomach Smooth Muscle	stomach
47	chr10:89498200-89541400	Weak transcription	Aorta	Aorta
48	chr10:89498800-89536200	Weak transcription	Small Intestine	intestine
49	chr10:89499000-89502400	Enhancers	Monocytes-CD14+_RO01746	blood
50	chr10:89499000-89503600	Enhancers	Primary monocytes fromperipheralblood	blood

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