|
| Status |
Public on Oct 01, 2016 |
| Title |
Control/Lysates_Log_rep3 |
| Sample type |
RNA |
| |
|
| Source name |
PA3/pUCP24 lysates, logarithmic phase
|
| Organism |
Pseudomonas aeruginosa |
| Characteristics |
phage protein: control (empty plasmid)
growth phase: logarithmic phase
|
| Treatment protocol |
PA3 were electrotransformed with pUCP24 (control) or PA3/pUCP24-orf70.1.
|
| Growth protocol |
PA3 was grown in Luria-Bertani (LB) broth medium aerobically.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using SV Total RNA Isolation System (Promega) according to the manufacturer’s instructions and checked for a RIN number to inspect RNA integration by an Agilent Bioanalyzer
|
| Label |
cy5
|
| Label protocol |
Labeling efficiency can be calculated by the concentration of CyDye and RNA measured by K5500 micro-spectrophotometer. For good microarray result, labeling efficiency should be between 1.0~3.6.
|
| |
|
| Hybridization protocol |
Ribobio gene Hybridization Protocol
|
| Scan protocol |
Slides were scanned by Agilent Microarray Scanner (Cat#G2565BA, Agilent ) technologies, Santa Clara, CA, US) and Feature Extraction software 10.7 (Agilent technologies, Santa Clara, CA, US) with default settings，Scan resolution=5μm, PMT 100%，10%.
|
| Description |
Gene expression with empty plasmid control at logarithmic phase
|
| Data processing |
Raw signals were normalized with subtract background correction and quantile normalization method. Normalized intensities were transformed to gene expression log2 value. Ratio and log2 ratio of normalized spot intensites between test sample and control sample were calculated. The p-values are calculated with ANOVA Method(O'Mahony, Michael (1986). Sensory Evaluation of Food: Statistical Methods and Procedures. CRC Press. pp. 487. ISBN 0-8247-7337-3). It means the probability of control sample and test sample are no differential expression. So, if p-value (Differentially expressed) is greater than thethreshold it means no differential expression was observed.
|
| |
|
| Submission date |
Jan 27, 2016 |
| Last update date |
Oct 01, 2016 |
| Contact name |
Xia Zhao |
| E-mail(s) |
zhaoxia413@163.com
|
| Organization name |
Third military medical school
|
| Street address |
Shapingba
|
| City |
ChongQing |
| ZIP/Postal code |
400000 |
| Country |
China |
| |
|
| Platform ID |
GPL21378 |
| Series (1) |
| GSE77297 |
The effects of a phage protein gp70.1 on Pseudomonas aerugonosa |
|
