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| Status |
Public on Jun 27, 2005 |
| Title |
Comparison of human and non-human primate gene expression profiles |
| Platform organism |
Homo sapiens |
| Sample organisms |
Chlorocebus aethiops; Macaca fascicularis; Macaca mulatta; Homo sapiens |
| Experiment type |
Expression profiling by array
|
| Summary |
Gene expression profiling is an important tool in the development of medical countermeasures against chemical warfare agents (CWAs). Non-human primates (NHPs), specifically the rhesus macaque (Macaca mulatta), the cynomologus macaque (Macaca fascicularis) and the African green monkey (Chlorocebus aethiops), are vital models in the development of CWA prophylactics, therapeutics, and diagnostics. However, gene expression profiling of these NHPs is complicated by the fact their genomes are not completely sequenced, and that no commercially available oligonucleotide microarrays (genechips) exist. We, therefore, sought to determine whether gene expression profiling of NHPs could be performed using human genechips. Whole blood RNA was isolated from each species and used to generate genechip probes. Hybridization of the NHP samples to human genechips (Affymetrix Human U133 Plus 2.0) resulted in comparable numbers of transcripts detected compared with human samples. Statistical analysis revealed intraspecies reproducibility of genechip quality control metrics; interspecies comparison between NHPs and humans showed little significant difference in the quality and reproducibility of data generated using human genechips. Expression profiles of each species were compared using principal component analysis (PCA) and hierarchical clustering to determine the similarity of the expression profiles within and across the species. The cynomologus group showed the least intraspecies variability, while the human group showed the greatest intraspecies variability. Intraspecies comparison of the expression profiles identified probesets that were reproducibly detected within each species. Each NHP species was found to be dissimilar to humans; the cynomologus group was the most dissimilar. Interspecies comparison of the expression profiles revealed probesets that were reproducibly detected in all species examined. These results show that human genechips can be used for expression profiling of NHP samples and provide a foundation for the development of tools for comparing human and NHP gene expression profiles.
Keywords = human
Keywords = homo sapien
Keywords = blood
Keywords = rhesus macaque
Keywords = cynomologus macaque
Keywords = African green monkey
Keywords: parallel sample
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| Contributor(s) |
Dillman JF, Phillips CS |
| Citation(s) |
15976184 |
| Submission date |
May 06, 2005 |
| Last update date |
Mar 25, 2019 |
| Contact name |
James F Dillman |
| E-mail(s) |
james.f.dillman2.civ@mail.mil
|
| Phone |
4104361723
|
| Organization name |
U.S. Army Medical Research Institute of Chemical Defense
|
| Department |
Cell and Molecular Biology Branch
|
| Lab |
Molecular Toxicology Team
|
| Street address |
3100 Ricketts Point Rd
|
| City |
Aberdeen Proving Ground |
| State/province |
MD |
| ZIP/Postal code |
21010-5400 |
| Country |
USA |
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| Platforms (1) |
| GPL570 |
[HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array |
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| Samples (17)
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| Relations |
| BioProject |
PRJNA92273 |
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