|
| Status |
Public on Oct 20, 2012 |
| Title |
BPMV-LRR - rep1 |
| Sample type |
RNA |
| |
|
| Source name |
The top fully expanded trifoliolate leaves, petioles and stem segments. (treatment: BPMV-LRR)
|
| Organism |
Glycine max |
| Characteristics |
germplasm name: PI459025B
tissue: The top fully expanded trifoliolate leaves, petioles and stem segments.
development stage: leaf production ('PO:0007133')
growth media: not specified
transfection: BPMV-LRR
infection: soybean rust
|
| Extracted molecule |
total RNA |
| Extraction protocol |
QIAGEN RNeasy Plant Mini Kit
|
| Label |
biotin
|
| Label protocol |
Affymetrix one-cycle target labeling
|
| |
|
| Hybridization protocol |
Affy- Eukaryotic Target Hybridization
|
| Scan protocol |
Affy soybean scanning protocol
|
| Description |
treatment=BPMV-LRR rep 1 (May still include original submitter created erros/discrepancies)
|
| Data processing |
The MAS5.0 Normalization was performed using the justMAS function in the simpleaffy package of Bioconductor (www.bioconductor.org, Version: 2.12.1). The target value is 500 for all cases. The code was developed using R2.4.1 to 2.13.0, Bioconductor 1.9 to 2.12.1, and simpleaffy 2.8.0. to 2.28.0 The CDF files were downloaded from the Bioconductor website at http://www.bioconductor.org/packages/release/AffymetrixChip.html.
|
| |
|
| Submission date |
Oct 19, 2012 |
| Last update date |
Oct 20, 2012 |
| 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 |
GPL4592 |
| Series (1) |
| GSE41724 |
Response of Rpp4-silenced plants to soybean rust |
|
