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| Status |
Public on Nov 28, 2011 |
| Title |
MRLxSM eQTL in Liver by RMA on Ensembl transcripts |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by array
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| Summary |
A QTL analysis between inbred mouse strains MRL/MpJ and SM/J was performed to identify genetic loci influencing high-density lipoprotein (HDL) cholesterol and triglycerides (TG) at eight weeks of age in F2 mice fed a chow diet. In order to narrow down lists of candidate genes, expression levels from liver tissue were used to test for differential expression among parental and F1 strains and to scan for eQTL in F2 animals. We provide evidence for Mppe1 (Chr 18) as an HDL QTL candidate gene and Cyp2d26 (Chr 15) as a TG QTL candidate gene.
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| Overall design |
MRL/MpJ (MRL) mice were crossed with male SM/J (SM) mice; their progeny were intercrossed to produce 371 F2 animals. Of these, 282 F2 males and females were profiled with Affy Mouse Gene 1.0 ST arrays for an eQTL study. Three animals from each parental and the F1 strains from each sex, i.e. 18 in total, were also profiled for testing differential expression. A total of 300 samples are included in the dataset. The mice were weaned at 3 weeks on a chow diet. At 13 weeks of age, mice were single housed for 3 days and fasted for 4 hours prior to being sacrificed. Tissue collection was performed between noon and 1pm to avoid variations due to circadian rhythm.
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| Contributor(s) |
Leduc MS, Hageman RS, Verdugo RA, Tsaih S, Walsh K, Churchill GA, Paigen B |
| Citation(s) |
21622629, 22498810 |
| |
| Submission date |
Nov 12, 2010 |
| Last update date |
Jul 13, 2012 |
| Contact name |
Ricardo Alejandro Verdugo |
| E-mail(s) |
ricardo.a.verdugo@gmail.com
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| Organization name |
The Jackson Laboratory
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| Department |
Research
|
| Lab |
Gary A. Churchill
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| Street address |
600 Main Street
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| City |
Bar Harbor |
| State/province |
ME |
| ZIP/Postal code |
04609 |
| Country |
USA |
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| Platforms (1) |
| GPL11204 |
[MoGene-1_0-st] Affymetrix Mouse Gene 1.0 ST Array [CDF: MoGene10stv1_Mm_ENST] |
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| Samples (300)
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| Relations |
| BioProject |
PRJNA134845 |
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