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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Mar 27, 2007 |
| Title |
MEF_serum response |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by array
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| Summary |
Expression data from specific translational activity and cytoplasmic localization (nuclear retention) of mRNAs of primary mouse embryonic fibroblasts (MEF) early in response to serum.
The goal of the study was to roughly discriminate between different levels of RNA regulation, namely mRNA de-novo transcription, mRNA stability and degradation, mRNA nuclear retention, mRNA translation as well as miRNA expression within a defined cellular system and time point and to link these levels together in order to get a more detailed analysis of the complex RNA regulation system, the ?RNA regulome?. To make the data more stringent the same microarray platform (Affymetrix GeneChip system) for all analyses except the miRNA expression profiling were used. Nuclear and cytoplasmic RNA fractions were separated in order to get more insight into potential nuclear retention of mRNAs. In addition the cytoplasmic mRNA pool was fractionated by its polyribosomal load using sucrose density gradients. Likewise the small RNA was specifically analyzed for miRNA precursor expression and mature miRNA expression. As study system the early serum response model of primary mouse embryonal fibroblast cells was used.
Affymetrix GeneChip microarrays were used to detail regulatory mechanisms of mRNA translation and localization in response to serum (2h).
Keywords: treatment experiment
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| Overall design |
The gene expression and regulation program at the RNA level early (2h) in response to serum was studied. mRNAs was isolated from serum starved and 2h serum treated MEF cells. This experiment allowed detailed regulatory mechanisms of mRNA translational activity and cytoplasmic localization (nuclear retention) of mRNAs of MEF cells in early response to serum.
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| Contributor(s) |
Kenzelmann M, Küffer S, Maertens S, Feuerborn A, Srivastava P, Grandy A, Chai M, Seifert M, Seedorf M, Castoldi M, Benes V, Hotz-Wagenblatt A, Bulashevska S, Li L, Yu X, Shai P, Haak M, Brors B, Muckenthaler M, Gretz N, Schütz G, Gröne HJ |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Mar 26, 2007 |
| Last update date |
Feb 18, 2018 |
| Contact name |
Marc Kenzelmann |
| E-mail(s) |
[email protected]
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| Phone |
+41 31 632 3251
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| Fax |
+41 31 632 3550
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| Organization name |
Institute of Medical Microbiology, University of Bern
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| Department |
Molecular Genome Analysis
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| Street address |
Friedbuhlstrasse 51
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| City |
Bern |
| ZIP/Postal code |
3010 |
| Country |
Switzerland |
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| Platforms (1) |
| GPL81 |
[MG_U74Av2] Affymetrix Murine Genome U74A Version 2 Array |
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| Samples (10)
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| GSM177321 |
Serum starved MEF, cytoplasmic RNA, biological rep1 |
| GSM177322 |
Serum treated MEF, cytoplasmic RNA, biological rep1 |
| GSM177323 |
Serum starved MEF, undertranslated RNA, biological rep1 |
| GSM177324 |
Serum treated MEF, undertranslated RNA, biological rep1 |
| GSM177325 |
Serum starved MEF, undertranslated RNA, biological rep2 |
| GSM177326 |
Serum treated MEF, undertranslated RNA, biological rep2 |
| GSM177327 |
Serum starved MEF, polyribosome-associated mRNA, biological rep1 |
| GSM177328 |
Serum treated MEF, polyribosome-associated mRNA, biological rep1 |
| GSM177329 |
Serum starved MEF, polyribosome-associated mRNA, biological rep2 |
| GSM177331 |
Serum treated MEF, polyribosome-associated mRNA, biological rep2 |
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| Relations |
| BioProject |
PRJNA100435 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE7363_RAW.tar |
26.8 Mb |
(http)(custom) |
TAR (of CEL) |
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