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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Mar 08, 2009 |
| Title |
Obesity study in transgenic and knockout animals |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by array
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| Summary |
A major task in dissecting the genetics of complex traits is to identify causal genes for disease phenotypes. We previously developed a method to infer causal relationships among genes through the integration of DNA variation, gene transcription, and phenotypic information. Here we validated our method through the characterization of transgenic and knockout mouse models of candidate genes that were predicted to be causal for abdominal obesity. Perturbation of eight out of the nine genes, with Gas7, Me1 and Gpx3 being novel, resulted in significant changes in obesity related traits. Liver expression signatures revealed alterations in common metabolic pathways and networks contributing to abdominal obesity and overlapped with a macrophage-enriched metabolic network module that is highly associated with metabolic traits in mice and humans. Integration of gene expression in the design and analysis of traditional F2 intercross studies allows high confidence prediction of causal genes, and identification of involved pathways and networks.
This SuperSeries is composed of the SubSeries listed below.
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| Overall design |
Refer to individual Series
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| Contributor(s) |
Yang X, Deignan J, Qi H, Zhu J, Qian S, Torosyan G, Majid S, Falkard B, Kleinhanz RR, Karlsson J, Castellani LW, Mumick S, Wang K, Lamb JR, Xia T, Coon M, Zhang C, Estrada-Smith D, Farber CR, Wang SS, Van Nas A, Ghazalpour A, Zhang B, MacNeil DJ, Reitman ML, Dipple K, Mehrabian M, Lum PY, Shadt EE, Lusis AJ, Drake TA |
| Citation(s) |
19270708 |
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| Submission date |
Jul 03, 2008 |
| Last update date |
Jan 18, 2013 |
| Contact name |
Josh Deignan |
| E-mail(s) |
jdeignan@mednet.ucla.edu
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| Organization name |
UCLA
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| Department |
Cardiology
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| Lab |
Aldons J. Lusis
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| Street address |
675 Charles E Young Dr South, MRL 3220
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| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90024 |
| Country |
USA |
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| Platforms (3) |
| GPL3562 |
Rosetta/Merck Mouse TOE 75k Array 1 microarray |
| GPL3677 |
Rosetta/Merck Mouse 44k 1.0 microarray |
| GPL4865 |
Sentrix MouseRef-8 Expression BeadChip (Target ID) |
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| Samples (96)
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| GSM303213 |
Liver, Male WT Chow Diet Control Pool (n=9) vs. Liver, Male wt, Chow Diet -1 |
| GSM303214 |
Liver, Male WT Chow Diet Control Pool (n=9) vs. Liver, Male wt, Chow Diet -2 |
| GSM303215 |
Liver, Male WT Chow Diet Control Pool (n=9) vs. Liver, Male wt, Chow Diet -4 |
| GSM303216 |
Liver, Male WT Chow Diet Control Pool (n=9) vs. Liver, Male wt, Chow Diet -5 |
| GSM303217 |
Liver, Male WT Chow Diet Control Pool (n=9) vs. Liver, Male wt, Chow Diet -6 |
| GSM303218 |
Liver, Male WT Chow Diet Control Pool (n=9) vs. Liver, Male wt, Chow Diet -7 |
| GSM303219 |
Liver, Male WT Chow Diet Control Pool (n=9) vs. Liver, Male wt, Chow Diet -8 |
| GSM303220 |
Liver, Male WT Chow Diet Control Pool (n=9) vs. Liver, Male wt, Chow Diet -9 |
| GSM303221 |
Liver, Male WT Chow Diet Control Pool (n=9) vs. Liver, Male Lipoprotein lipase KO (-/+), Chow Diet -1 |
| GSM303222 |
Liver, Male WT Chow Diet Control Pool (n=9) vs. Liver, Male Lipoprotein lipase KO (-/+), Chow Diet -2 |
| GSM303223 |
Liver, Male WT Chow Diet Control Pool (n=9) vs. Liver, Male Lipoprotein lipase KO (-/+), Chow Diet -3 |
| GSM303224 |
Liver, Male WT Chow Diet Control Pool (n=9) vs. Liver, Male Lipoprotein lipase KO (-/+), Chow Diet -4 |
| GSM303225 |
Liver, Male WT Chow Diet Control Pool (n=9) vs. Liver, Male Lipoprotein lipase KO (-/+), Chow Diet -5 |
| GSM303226 |
Liver, Male WT Chow Diet Control Pool (n=9) vs. Liver, Male Lipoprotein lipase KO (-/+), Chow Diet -6 |
| GSM303227 |
Liver, Male WT Chow Diet Control Pool (n=9) vs. Liver, Male Lipoprotein lipase KO (-/+), Chow Diet -7 |
| GSM303228 |
Liver, Male WT Chow Diet Control Pool (n=9) vs. Liver, Male Lipoprotein lipase KO (-/+), Chow Diet -8 |
| GSM303229 |
Liver WT Control Pool (n=5) vs. Mouse Liver Mod1 WT 14 |
| GSM303230 |
Liver WT Control Pool (n=5) vs. Mouse Liver Mod1 WT 15 |
| GSM303231 |
Liver WT Control Pool (n=5) vs. Mouse Liver Mod1 WT 21 |
| GSM303232 |
Liver WT Control Pool (n=5) vs. Mouse Liver Mod1 WT 22 |
| GSM303233 |
Liver WT Control Pool (n=5) vs. Mouse Liver Mod1 WT 26 |
| GSM303234 |
Liver WT Control Pool (n=5) vs. Mouse Liver Mod1 KO 27 |
| GSM303235 |
Liver WT Control Pool (n=5) vs. Mouse Liver Mod1 KO 31 |
| GSM303236 |
Liver WT Control Pool (n=5) vs. Mouse Liver Mod1 KO 33 |
| GSM303238 |
Liver, WT Control Pool, males&females (n=4) vs. Liver, WT, female -3 |
| GSM303239 |
Liver, WT Control Pool, males&females (n=4) vs. Liver, WT, male -2 |
| GSM303240 |
Liver, WT Control Pool, males&females (n=4) vs. Liver, WT, male -3 |
| GSM303241 |
Liver, WT Control Pool, males&females (n=4) vs. Liver, WT, male -4 |
| GSM303242 |
Liver, WT Control Pool, males&females (n=4) vs. Liver, ZFP90 tg, female -1 |
| GSM303243 |
Liver, WT Control Pool, males&females (n=4) vs. Liver, ZFP90 tg, male -1 |
| GSM303244 |
Liver, WT Control Pool, males&females (n=4) vs. Liver, ZFP90 tg, male -2 |
| GSM303246 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, WT Chow Diet -1 |
| GSM303247 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, WT Chow Diet -2 |
| GSM303248 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, WT Chow Diet -3 |
| GSM303249 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, WT Chow Diet -4 |
| GSM303250 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, Tgfbr-/+ males Chow Diet -1 |
| GSM303251 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, Tgfbr-/+ males Chow Diet -2 |
| GSM303252 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, Tgfbr-/+ males Chow Diet -3 |
| GSM303253 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, Tgfbr-/+ males Chow Diet -4 |
| GSM303254 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, Tgfbr-/+ males Chow Diet -5 |
| GSM303255 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, Tgfbr-/+ males Chow Diet -6 |
| GSM303269 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, C3ar1 WT Chow Diet-1 |
| GSM303270 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, C3ar1 WT Chow Diet-2 |
| GSM303271 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, C3ar1 WT Chow Diet-3 |
| GSM303272 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, C3ar1 WT Chow Diet-4 |
| GSM303273 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, C3ar (-/-) KO Chow Diet -2 |
| GSM303274 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, C3ar (-/-) KO Chow Diet -3 |
| GSM303275 |
Liver, WT Chow Diet Control pool (n=6) vs. Liver, C3ar (-/-) KO Chow Diet -4 |
| GSM303439 |
Gas63.2-M1LC |
| GSM303440 |
Gas63.2-M2RW |
| GSM303441 |
Gas63.2-M2LW |
| GSM303442 |
Gas63.2-M3RC |
| GSM303443 |
Gas63.2-M3LC |
| GSM303444 |
Gas63.2-M3BC |
| GSM303445 |
Gas63.2-M6LC |
| GSM303446 |
Gas63.2-M1RC |
| GSM303447 |
Gas63.2-M4LC |
| GSM303448 |
Gas63.2-M5RW |
| GSM303449 |
Gas63.2-M7BC |
| GSM303450 |
Gas63.2-M7RW |
| GSM303451 |
Gas63.2-M8RC |
| GSM303452 |
Gas63.2-M8LC |
| GSM303453 |
Gpx-M4RC |
| GSM303454 |
Gpx-M4LC |
| GSM303455 |
Gpx-M4BC |
| GSM303456 |
Gpx-M7RC |
| GSM303457 |
Gpx-M1RC |
| GSM303458 |
Gpx-M1LC |
| GSM303459 |
Gpx-M1BC |
| GSM303460 |
Gpx-M1RW |
| GSM303461 |
Gyk-1RC |
| GSM303462 |
Gyk-1BC |
| GSM303463 |
Gyk-1LCRW |
| GSM303464 |
Gyk-2RC |
| GSM303465 |
Gyk-2BC |
| GSM303466 |
Gyk-1LWRC |
| GSM303467 |
Gyk-2RW |
| GSM303468 |
Gyk-7RC |
| GSM303469 |
Gyk-7BC |
| GSM303470 |
Gyk-7LCRW |
| GSM303471 |
Lactb-M2RC |
| GSM303472 |
Lactb-M9LC |
| GSM303473 |
Lactb-M12LC |
| GSM303474 |
Lactb-M12BC |
| GSM303475 |
Lactb-M12RW |
| GSM303476 |
Lactb-M13BC |
| GSM303477 |
Lactb-M1RC |
| GSM303478 |
Lactb-M5RC |
| GSM303479 |
Lactb-M5LC |
| GSM303480 |
Lactb-M9RC |
| GSM303481 |
Lactb-M10BC |
| GSM303482 |
Lactb-M10RW |
| GSM303483 |
Lactb-M11RC |
| GSM303484 |
Lactb-M11LC |
| GSM303485 |
Lactb-M12RC |
| GSM303486 |
Lactb-M13RC |
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| This SuperSeries is composed of the following SubSeries:
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| GSE11991 |
Liver gene expression profiling of lipoprotein lipase heterozygous knockout mice |
| GSE11992 |
Liver gene expression profiling of cytosolic malic enzyme knockout mice |
| GSE11993 |
Liver gene expression profiling of zinc finger binding protein 90 (Zfp90) transgenic mice |
| GSE11994 |
Liver gene expression profiling of transforming growth factor beta receptor 2 heterozygous knockout (Tgfbr2+/-) mice |
| GSE11995 |
Liver gene expression profiling of complement component 3a receptor 1 knockout (C3ar1-/-) mice |
| GSE11996 |
Gas7 male transgenic liver expression vs FVB male wildtype control |
| GSE11997 |
Gpx3 male transgenic liver expression vs B6/DBA male wildtype control |
| GSE11998 |
Gyk female heterozygous liver expression vs C57Bl/6J female wildtype control |
| GSE11999 |
Lactb male transgenic liver expression vs FVB male wildtype control |
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| Relations |
| BioProject |
PRJNA105881 |
| Supplementary data files not provided |
| Raw data are available on Series record |
| Processed data included within Sample table |
| Raw data included within Sample table |
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