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| Status |
Public on Nov 02, 2005 |
| Title |
Circadian gene expression in the primate adrenal gland |
| Platform organism |
Homo sapiens |
| Sample organism |
Macaca mulatta |
| Experiment type |
Expression profiling by array
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| Summary |
Circadian regulation of gene expression in central and peripheral tissue has been studied in mice. The biomedical implications of this findings led us to the development of a model in which to study the circadian mechanisms underlying primate physiology.
The objective of this experiment has been to identify genes that are circadianly regulated in the monkey (macaca mulatta) adrenal gland.
We analyzed the data using three filters: the first one for presence in at least three out of six time points (presence call=P, P value<0.05). The second one for high amplitude oscillations, using the coefficient of variation with a cutt of value of 0.2 (selecting probesets above that value). The last one for circadian expression, calculating the correlation of each curve to cosine curves of 24h periodicity and defined phases with increments of 10 minutes from 0 to 24h.
After two filtrations, the probesets obtained were identified using gene ID, PubMed accession number, and description, and clustered into well-known pathways.
Identification of clock genes was used as an internal control for the determination of phase distribution of the transcripts across the day.
Part of the array data has been validated by sq PCR, real time-PCR and immunohistochemistry, with succesful results.
This study provides evidences for circadian mechanisms of gene expression in primate tissue, in vivo.
Keywords = primate
Keywords = circadian rhythm
Keywords = adrenal gland
Keywords: time-course
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| Contributor(s) |
Lemos DR, Downs JL, Urbanski HF |
| Citation(s) |
16439464 |
| Submission date |
May 24, 2005 |
| Last update date |
Aug 10, 2018 |
| Contact name |
Dario Lemos |
| E-mail(s) |
lemosd@ohsu.edu
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| Phone |
503 690 5387
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| Organization name |
Oregon National Primate Research Center
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| Street address |
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| City |
Beaverton |
| State/province |
OR |
| ZIP/Postal code |
97006 |
| Country |
USA |
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| Platforms (1) |
| GPL96 |
[HG-U133A] Affymetrix Human Genome U133A Array |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA92349 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE2703_RAW.tar |
20.4 Mb |
(http)(custom) |
TAR (of CEL) |
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