|
| Status |
Public on May 31, 2007 |
| Title |
HSP90_Reduced_RNAi-A1_Biological_Replicate_2_Technical_Replicate_2 |
| Sample type |
RNA |
| |
|
| Source name |
14 day old seedling grown in long days on GM medium, aerial tissue only
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
Accession: Col-0
Age: 14 days
Tissue: All aerial tissue
Transgenic: HSP90 reduced
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using the SV Total RNA Isolation kit (Promega) protocol on the ground tissue, omitting the DNase treatment in the manufacturer’s protocol. Eluted total RNA was treated with RQ1 Rnase-free DNase (Promega). A 65°C, 15 min incubation step inactivated the enzyme, instead of the kit’s Stop Solution. Multiple identical RNA isolations were pooled and concentrated with the (Qiagen) RNeasy (Qiagen) cleanup protocol.
|
| Label |
Biotin
|
| Label protocol |
Standard Affymetrix One-Cycle Eukaryotic Target Labeling Assay (http://www.affymetrix.com/support/technical/manual/expression_manual.affx)
|
| |
|
| Hybridization protocol |
Standard Affymetrix Eukaryotic Target Hybridization Protocol (http://www.affymetrix.com/support/technical/manual/expression_manual.affx)
|
| Scan protocol |
Standard Affymetrix GeneChip Scanner 3000 Protocol (http://www.affymetrix.com/support/technical/manual/expression_manual.affx)
|
| Description |
See Sangster et al. "Phenotypic Diversity and Altered Environmental Plasticity in Arabidopsis thaliana with Reduced HSP90 Levels" for experimental rationale
|
| Data processing |
MAS5 transformed
|
| |
|
| Submission date |
May 14, 2007 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Todd A Sangster |
| Organization name |
Whitehead Institute
|
| Street address |
Nine Cambridge Center
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02141 |
| Country |
USA |
| |
|
| Platform ID |
GPL198 |
| Series (1) |
| GSE7796 |
Phenotypic Diversity and Altered Environmental Plasticity in Arabidopsis thaliana with Reduced HSP90 Levels |
|
| Relations |
| Reanalyzed by |
GSE118579 |
| Reanalyzed by |
GSE119083 |
