|
| Status |
Public on May 30, 2008 |
| Title |
Cellobiose-Glycerol late log phase 1 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Wild type Listeria monocytogenes EGDe
|
| Organism |
Listeria monocytogenes |
| Characteristics |
Wild type Listeria monocytogenes EGDe grown in minimal medium with cellobiose to OD 600 nm 1.0 - late log phase and cells were harvested.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using RNeasy kit from Qiagen according to the manufacturers protocol with modifications as indicated in Marr et al., J Bacteriol. 2006 Jun;188(11):3887-901.
|
| Label |
Cyanine 3
|
| Label protocol |
Labeling performed exactly as described in Marr et al., J Bacteriol. 2006 Jun;188(11):3887-901
|
| |
|
| Channel 2 |
| Source name |
Wild type Listeria monocytogenes EGDe
|
| Organism |
Listeria monocytogenes |
| Characteristics |
Wild type Listeria monocytogenes EGDe grown in minimal medium with glycerol to OD 600 nm 1.0 - late log phase and cells were harvested.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using RNeasy kit from Qiagen according to the manufacturers protocol with modifications as indicated in Marr et al., J Bacteriol. 2006 Jun;188(11):3887-901.
|
| Label |
Cyanine 5
|
| Label protocol |
Labeling performed exactly as described in Marr et al., J Bacteriol. 2006 Jun;188(11):3887-901
|
| |
|
| |
| Hybridization protocol |
Hybridization performed exactly as described in Marr et al., J Bacteriol. 2006 Jun;188(11):3887-901
|
| Scan protocol |
scanning software: ScanArray express software version: 3.0
|
| Description |
Slides were scanned Using Perkin Elmer Scanarray.
|
| Data processing |
VALUE: log2 transformed ratio of normalized medians normalization method: LOWESS algorithm
|
| |
|
| Submission date |
May 15, 2008 |
| Last update date |
May 16, 2008 |
| Contact name |
Biju Joseph Ampattu |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Wuerzburg
|
| Department |
Department of Microbiology
|
| Street address |
Josef-Schneider Str 2
|
| City |
Wuerzburg |
| ZIP/Postal code |
97080 |
| Country |
Germany |
| |
|
| Platform ID |
GPL6847 |
| Series (1) |
| GSE11459 |
Glycerol metabolism and PrfA activity in Listeria monocytogenes |
|
| Data table header descriptions |
| ID_REF |
|
| Flags |
type of flag associated with the spot (absent/bad=0, good=1) |
| Ch1 Median - B |
median channel 1 (median pixel intensity of the spot - background at 543 nm) |
| Ch2 Median - B |
median channel 2 (median pixel intensity of the spot - background at 633 nm) |
| Ch1 N (Median-B) |
normalized channel 1 median |
| Ch2 N (Median-B) |
normalized channel 2 median |
| Ch2 N Ratio of Medians |
ratio of normalized channel 2 median to channel 1 median |
| Unf_Value |
log2 transformed ratio of normalized channel 2 median to channel 1 median |
| VALUE |
log2 transformed ratio of normalized channel 2 median to channel 1 median |
