|
| Status |
Public on Nov 03, 2006 |
| Title |
JKD6000 and JKD6001 genomic comparison |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
JKD6001
|
| Organism |
Staphylococcus aureus |
| Characteristics |
Vancomycin intermediate Staphylococcus aureus (VISA) strain related to vancomycin susceptible strain JKD6000
|
| Extracted molecule |
genomic DNA |
| Label |
Cy5
|
| |
|
| Channel 2 |
| Source name |
JKD6000
|
| Organism |
Staphylococcus aureus |
| Characteristics |
Vancomycin susceptible staphylococcus aureus strain (VSSA), precursor of VISA strain JKD6001
|
| Extracted molecule |
genomic DNA |
| Label |
Cy3
|
| |
|
| |
| Description |
Genomic DNA was extracted after growth in brain heart infusion broth
Two µg of genomic DNA from each isolate was digested with AluI then purified using the QIAquick PCR purification kit (Qiagen). Cy3 and Cy5 were directly incorporated during cDNA synthesis and the probe was hybridized to TIGR version2 Staphylococcus aureus arrays. Slide data was obtained using IMAGENE.
|
| Data processing |
The data was normalized and analyzed using freely available filters and plug-in applications for the BioArray Software Environment (BASE) (available at http://base.thep.lu.se). The data was subjected to a global median ratio and Lowess transformation. The fold ratio of the background-corrected mean signal intensities for each gene ID in the data set were calculated.
|
| |
|
| Submission date |
Jun 10, 2006 |
| Last update date |
Nov 03, 2006 |
| Contact name |
Benjamin Peter Howden |
| E-mail(s) |
benjamin.howden@austin.org.au
|
| Phone |
+61 3 9496 6676
|
| Organization name |
Austin Health
|
| Department |
Infectious Diseases
|
| Street address |
Studley Rd
|
| City |
Heidelberg |
| State/province |
Victoria |
| ZIP/Postal code |
3084 |
| Country |
Australia |
| |
|
| Platform ID |
GPL3866 |
| Series (1) |
| GSE5047 |
Genomic comparison of vancomycin susceptible and vancomycin intermediate Staphylococcus aureus pairs |
|
