|
| Status |
Public on Apr 16, 2012 |
| Title |
AN culture 2 extract 3 |
| Sample type |
RNA |
| |
|
| Source name |
oe:AN1599 (PbcR)
|
| Organism |
Aspergillus nidulans |
| Characteristics |
culture batch: 2
genotype: veA+;oe:AN1599 (PbcR)
|
| Treatment protocol |
Mycelia were filtered and zap-frozen in liquid nitrogen prior to RNA extraction.
|
| Growth protocol |
FGSC A4 control samples were grown at 37°C for 22 hours, and oe:AN1599 (PbcR) samples for 26 hours in YES-medium supplemented with 3 % gelatin. pH values of cultures were monitored and samples collected at pH-values ranging from 5.76 to 5.94 indicating the early exponential growth phase.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was purified with Qiagen Plant Rneasy Kit from 100 uL of frozen wet mycelia, and DNA was removed by DNase digestion with the RNase-Free DNase set (Qiagen). RNA quality and concentration was determined by analysis with an Agilent 2100 bioanalyzer.
|
| Label |
Cy3
|
| Label protocol |
Labeling was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.
|
| |
|
| Hybridization protocol |
Hybridization was performed by NimbleGen Systems Inc., Madison, WI, USA following their standard operating protocol. See www.nimblegen.com.
|
| Scan protocol |
Scanning was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.
|
| Description |
AN1599 (PbcR) expressed under strong constitutive A.nidulans gpdA promoter, random integration of expression cassette
|
| 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, version 2.4.27 (Roche NimbleGen, Inc.).Preliminary data processing was performed by NimbleGen Systems Inc., Madison, WI, USA. Normalized data was further analyzed with ArrayStar software by DNAStar.
|
| |
|
| Submission date |
Oct 13, 2011 |
| Last update date |
Apr 16, 2012 |
| Contact name |
Kirsi Bromann |
| E-mail(s) |
[email protected]
|
| Organization name |
VTT Technical Research Centre of Finland
|
| Department |
TK402, Cell Factory
|
| Lab |
TK4021, Metabolic Engineering
|
| Street address |
Tietotie 2
|
| City |
Espoo |
| ZIP/Postal code |
02044 |
| Country |
Finland |
| |
|
| Platform ID |
GPL14731 |
| Series (1) |
| GSE32954 |
Expression analysis of Aspergillus nidulans AN1599 (PbcR) overexpression mutant |
|
