|
| Status |
Public on Nov 22, 2011 |
| Title |
treated or untreated: water control - time: 12 hrs - rep3 |
| Sample type |
RNA |
| |
|
| Source name |
leaf (treated or untreated: water control - time: 12 hrs)
|
| Organism |
Hordeum vulgare |
| Characteristics |
tissue: leaf
time: 12 hrs
infection: water control
|
| Growth protocol |
Growth Description: Growth chamber grown Environmental Conditions: Seeds were stored at 4 deg C for one week. Plants were then moved to a growth chamber set to 20-22 deg C, approx. 70% RH, with 14hr photoperiod provided by 160 W VHO fluorescent and 60 W incandescent lamps. Plants were watered daily or as needed.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA Isolation Using Trizol And Qiagen RNAeasy Columns
|
| Label |
biotin
|
| Label protocol |
Affymetrix one-cycle target labeling
|
| |
|
| Hybridization protocol |
Affy- Eukaryotic Target Hybridization
|
| Scan protocol |
Affy- Array Scanning
|
| Description |
hv ssp spontaneum accession shechem 12-32 (germplasm name); po: 0009025 leaf, (Organism Part); PO:0001052 2 leaf expansion stage (Development Stage); 2 weeks (Age); 50% steamed soil, 50% Metro Mix 200 (Growth Media).
|
| Data processing |
The MAS5.0 Normalization is performed using the justMAS function in the simpleaffy package of Bioconductor (www.bioconductor.org). The target value is 500 for all cases. The code was developed using R2.4.1, Bioconductor 1.9, and simpleaffy 2.8.0. The CDF files were downloaded from the Bioconductor website at http://www.bioconductor.org/packages/release/AffymetrixChip.html. The normalization scripts are available from the PLEXdb team by request.
|
| |
|
| Submission date |
Nov 02, 2011 |
| Last update date |
Nov 22, 2011 |
| Contact name |
PLEXdb Curator, Sudhansu Dash |
| Organization name |
Iowa State University
|
| Department |
Virtual Reality Application Center
|
| Lab |
PLEXdb
|
| Street address |
1023 Crop Genomes Informatics Lab (Iowa State University)
|
| City |
Ames |
| State/province |
IA |
| ZIP/Postal code |
50011 |
| Country |
USA |
| |
|
| Platform ID |
GPL1340 |
| Series (1) |
| GSE33401 |
Transcriptome analysis of wild barley (H. vulgare ssp spontaneum) after pathogen inoculation |
|
