|
| Status |
Public on Dec 21, 2011 |
| Title |
-HAQs - 2AA replicate 1 |
| Sample type |
RNA |
| |
|
| Source name |
Pseudomonas aeruginosa PA14
|
| Organism |
Pseudomonas aeruginosa PA14 |
| Characteristics |
strain: PA14
genotype/variation: non-polar pqsA mutant
agent: control
|
| Treatment protocol |
Culture of pqsA mutant was grown to OD600nm of 2.0 in LB
|
| Growth protocol |
medium: LB, OD600nm of 2, Shaking 200rpm in 37C. 2-AA: 3mM
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Qiagen RNeasy kit
|
| Label |
Biotin
|
| Label protocol |
Enzo Bioarray kit
|
| |
|
| Hybridization protocol |
The P. aeruginosa PAO1 GeneChipH Genome array (Affymetrix) was used for hybridization.
|
| Scan protocol |
Standard Affymetrix protocol
|
| Description |
NA
|
| Data processing |
Affymetrix DAT files were processed using the Affymetrix Gene Chip Operating System (GCOS) to create .cel files. The raw intensity .cel files were normalized using GCOS (see CHP file and Data table below). Array quality control metrics generated by the Affymetrix Microarray Suite 5.0 were used to assess hybridization quality. Normalized expression values were analyzed with SAM (Significance Analysis of Microarray) using the permuted unpaired two-class test.
|
| |
|
| Submission date |
Sep 22, 2010 |
| Last update date |
Dec 21, 2011 |
| Contact name |
Laurence G Rahme |
| E-mail(s) |
rahme@molbio.mgh.harvard.edu
|
| Phone |
617-724-5003
|
| Fax |
617-724-8558
|
| Organization name |
Massachusetts General Hospital
|
| Department |
Surgery
|
| Street address |
50 Blosson St, Thier 340
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02114 |
| Country |
USA |
| |
|
| Platform ID |
GPL84 |
| Series (1) |
| GSE24036 |
The effect of 2-AA on P. aeruginosa PA14 and its mutants |
|
