|
| Status |
Public on Nov 01, 2014 |
| Title |
S_meliloti_wild-type_37C_40min_rep4 |
| Sample type |
RNA |
| |
|
| Source name |
Wild-type cells, with heat shock for 40 min
|
| Organism |
Sinorhizobium meliloti 1021 |
| Characteristics |
genotype: Wild-type
|
| Growth protocol |
Sinorhizobium meliloti 1021 was grown to mid-log phase (O.D.660nm 0.3) aerobically at 25°C in LB/MC medium.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with TRIzol reagent (Invitrogen) and further purified using a RNeasy Midi kit (Qiagen). DNA was removed by DNase digestion with the RNase-Free DNase set (Takara Bio). RNA quality and concentration was determined by analysis with an Agilent 2100 bioanalyzer.
|
| Label |
Cy3
|
| Label protocol |
Labeling was performed by Roche Diagnostics Japan, following their standard operating protocol.
|
| |
|
| Hybridization protocol |
Hybridization was performed by Roche Diagnostics Japan, following their standard operating protocol.
|
| Scan protocol |
Scanning was performed with GenePix 4000B Microarray Scanner by Roche Diagnostics Japan, following their standard operating protocol.
|
| Description |
This sample is of wild-type Sinorhizobium meliloti 1021. It is the fourth of four biological replicates of wild-type cells with heat shock for 40 min, each from separate cultures.
|
| Data processing |
The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and background correction as implemented in the NimbleScan software package (Roche NimbleGen, Inc.).
|
| |
|
| Submission date |
Oct 31, 2014 |
| Last update date |
Nov 01, 2014 |
| Contact name |
Hisayuki Mitsui |
| Organization name |
Tohoku University
|
| Department |
Graduate School of Life Sciences
|
| Street address |
2-1-1, Katahira, Aoba-ku
|
| City |
Sendai |
| ZIP/Postal code |
980-8577 |
| Country |
Japan |
| |
|
| Platform ID |
GPL19375 |
| Series (1) |
| GSE62900 |
Expression analysis of Sinorhizobium meliloti 1021rpoH1 rpoH2 mutant during heat shock |
|
