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| Status |
Public on Mar 10, 2016 |
| Title |
Control cells when cultured in the absence of 4mM H2O2, replicate 2 |
| Sample type |
RNA |
| |
|
| Source name |
Saccharomyces cerevisiae cells
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
genotype/variation: Control cells
strain: CENPK.2-1C
growth phase: Exponential Phase
|
| Treatment protocol |
The cells were collected by centrifugation and washed twice with ddH2O.
|
| Growth protocol |
Yeast cells were grown in YPD medium supplemented with/without 4mM H2O2
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with RNeasy® Mini Kit and RNase-Free DNase Set following manufacture's instructions. RNA quality and integrity was verified by gel electrophoresis, as well as by measuring 260/230 ratios with a NanoDrop 1000 spectrophotometer (Thermo Scientific, USA).
|
| Label |
Cy3
|
| Label protocol |
Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using Low Input Quick Amp Labeling Kit, One-Color (Agilent) according to the manufacturer's instructions
|
| |
|
| Hybridization protocol |
1.5 ug of Cy3-labelled cRNA (specific activity >10.0 pmol Cy3/ug cRNA) was applied for the hybridization process. To ensure the accuracy of the collected data, Agilent G2545A Hybridization Calibration Procedure (p/n G2545-90002, version A1 or higher) was performed.
|
| Scan protocol |
Slides were scanned immediately after washing on SureScan microarray scanner using one color scan setting for 8x15k array slides
|
| Description |
Gene expression when OD600 of cell culture reached 1.0
|
| Data processing |
Agilent Genespring GX software was used for raw data analysis and p-values were calculated with unpaired Student t-test
Normalized signal intensity, using the 75th percentile signal value for inter-array comparisons. Compared to the median or 50th percentile signalsignal value, the 75th percentile of all of non-control probes on the microarray is a more robust and representative value of the overall microarray signal.
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| |
|
| Submission date |
Mar 09, 2016 |
| Last update date |
Mar 10, 2016 |
| Contact name |
Hefang Geng |
| E-mail(s) |
genghefang45@gmail.com
|
| Organization name |
Nanyang Technological University
|
| Street address |
62 Nanyang Drive, School of Chemical & Biomedical Engineering, Nanyang Technological University
|
| City |
Singapore |
| ZIP/Postal code |
637459 |
| Country |
Singapore |
| |
|
| Platform ID |
GPL16244 |
| Series (1) |
| GSE79037 |
Yeast cells: Mutant M1 vs. the control with and without oxidative stress |
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