|
| Status |
Public on Feb 07, 2011 |
| Title |
Control soft tissue 4 |
| Sample type |
RNA |
| |
|
| Source name |
Control tissue, no infection 4
|
| Organism |
Mus musculus |
| Characteristics |
tissue: soft tissue overlying calvarial bone
infection: uninfected (control)
age: 9 weeks
|
| Treatment protocol |
P. gingivalis was injected at 1.5 x 109 (N = 10) into the soft tissues overlying the calvaria of the mice for 3 days. A control group (N = 9) was injected with vehicle once daily for 3 days. Mice were euthanized 8 h after the last injection. The calvarial bones and overlying soft tissues from 5 mice in each group were excised, snap frozen in liquid nitrogen, and stored at –80°C until RNA isolation.
|
| Growth protocol |
P. gingivalis strain 381was cultured in CDC blood agar plates under anaerobic conditions for 72 hours and counted using bacterial counting chamber and suspended in reduced transport fluid at 1.5X1011 cells per ml.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from total RNA.
|
| |
|
| Hybridization protocol |
Equal amounts of RNA from samples were labeled and hybridized on a mouse GeneChip following the protocol described in the GeneChip Expression Analysis Technical manual (Affymetrix, Santa Clara, CA).
|
| Scan protocol |
The GeneChip arrays were stained and scanned in an Affymetrix GCS 3000 7G Scanner.
|
| Description |
Gene expression data from control tissue.
|
| Data processing |
The data was normalized using dChip. Gene Ontology was categorised using BRB array tools, DAVID EASE and NetAffx.Onto-Express was used to construct functional profiles
|
| |
|
| Submission date |
Oct 21, 2009 |
| Last update date |
Feb 07, 2011 |
| Contact name |
Kesavalu Naidu Lakshmyya |
| Organization name |
University of Florida, College of Dentistry
|
| Department |
Periodontology
|
| Lab |
Oral Microbiology
|
| Street address |
1600 SW Archer road, D11-24
|
| City |
Gainesville |
| State/province |
FL |
| ZIP/Postal code |
32608 |
| Country |
USA |
| |
|
| Platform ID |
GPL339 |
| Series (4)
|
| GSE17110 |
Gene expression data from P. gingivalis infected Mouse |
| GSE19855 |
Molecular Characterization of Treponema denticola infection-induced bone and soft tissue transcriptional profiles |
| GSE20389 |
Molecular Characterization of Tannerella forsythia infection-induced bone and soft tissue transcriptional profiles |
| GSE29670 |
Polymicrobial periodontal pathogens transcriptomes in calvarial bone and soft tissue |
|
Less...
More...