|
| Status |
Public on Dec 11, 2013 |
| Title |
genotype: ALLO_195 - rep3 |
| Sample type |
RNA |
| |
|
| Source name |
second fully expanded leaf (genotype: ALLO_195)
|
| Organism |
Triticum aestivum |
| Characteristics |
germplasm name: Conserved IAS-CSIC_Cordoba_Spain
tissue: second fully expanded leaf
development stage: 14 days old seedling
growth media: garden soil
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol RNA extraction followed by RNeasy purification
|
| Label |
biotin
|
| Label protocol |
Affymetrix one-cycle target labeling
|
| |
|
| Hybridization protocol |
Affy-Oven320
|
| Scan protocol |
Affymetrix MAS 5.0 Standard Scanning at NASC
|
| Description |
Wheat alloplasmic line-Genome donor CHRIS; Plasmon donor Aegilops squarrosa; Plasmon type (D) (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 |
Jul 01, 2013 |
| Last update date |
Dec 11, 2013 |
| 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 |
GPL3802 |
| Series (1) |
| GSE48439 |
Alteration in transcript level in wheat alloplasmic lines |
|
