|
| Status |
Public on Sep 18, 2009 |
| Title |
SAM SE agl15 agl18 double mutant, biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
10 day SAM somatic embryo culture
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
ecotype/variety: columbia
genome/variation: Insertional loss-of-function agl15-4 agl18-1
|
| Treatment protocol |
Tissue was collected 10 days after the start of culture and flash frozen for RNA isolation.
|
| Growth protocol |
Arabidopsis seeds (Columbia wild type, agl15-4 agl18-1 double mutant, and 35S:AGL15) were surface sterilized and grown to complete germination in liquid MS media with 2% w/v sucrose, 10 mM MES and 4.5 micromolar 2,4-D under a 23 hour light/1 hour dark cycle on a rotary shaker.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions, and the RNA was further purified using the RNeasy® plant mini kit (Qiagen, www.qiagen.com).
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 4 ug total RNA (Expression Analysis Technical Manual, 2007, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45°C on Arabidopsis ATH1 Genome Array in the Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GCS 3000 7G scanner.
|
| Description |
Gene expression data from the shoot apical meristem somatic embryo culture of double mutant, replicate 1
|
| Data processing |
The data was scaled using the Affymetrix analysis software to a target intensity of 500 and log2 transformed.
|
| |
|
| Submission date |
Aug 12, 2009 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Sharyn E Perry |
| E-mail(s) |
sperr2@uky.edu
|
| Phone |
859-218-0732
|
| Organization name |
University of Kentucky
|
| Department |
Plant and Soil Sciences
|
| Street address |
1405 Veterans Dr.
|
| City |
Lexington |
| State/province |
KY |
| ZIP/Postal code |
40546-0312 |
| Country |
USA |
| |
|
| Platform ID |
GPL198 |
| Series (2) |
| GSE17610 |
Gene expression in response to AGL15 during somatic embryogenesis |
| GSE17742 |
Global identification of targets of the Arabidopsis MADS-domain protein AGAMOUS-Like 15 |
|
| Relations |
| Reanalyzed by |
GSE119083 |
