|
| Status |
Public on Aug 26, 2010 |
| Title |
4xX2x interploidy cross, biological replicate 2 |
| Sample type |
RNA |
| |
|
| Source name |
Siliques
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
developmental stage: 5 days after pollination
maternal ecotype: C24
paternal ecotype: C24
maternal genetic modification: A9-barnase transgene
paternal genetic modification: none
|
| Treatment protocol |
none
|
| Growth protocol |
Plants were grown at 18hr day cycles at 60% humidity. Male sterile lines were pollinated by the appropriate pollen depending on the cross, and siliques harvested in liquid nitrogen at 5 days after pollination (DAP). For the msi1 sample, the msi1 mutation was introgressed in a A9 barnase male sterile line, siliques were left to elongate in absence of fertilization and were harvested 7 days after flower opening.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA from siliques was extracted using the RNeasy Plant Mini Kit (Qiagen) and concentrated using an RNeasy MinElute Cleanup Kit (Qiagen).
|
| Label |
Biotin
|
| Label protocol |
Biotin labelling of cRNA using Affymetrix Enzo Kit according to manufacturer’s protocols (done at NASC: http://affymetrix.arabidopsis.info/)
|
| |
|
| Hybridization protocol |
Labelled cRNA was hybridised according to manufacturer’s protocols (done at NASC: http://affymetrix.arabidopsis.info/)
|
| Scan protocol |
Standard manufacturer's protocol (done at NASC: http://affymetrix.arabidopsis.info/)
|
| Description |
4xX2x_2: biological replicate of 4xX2x_1
|
| Data processing |
The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
|
| |
|
| Submission date |
Jan 22, 2010 |
| Last update date |
Aug 15, 2018 |
| Contact name |
Reiner Schulz |
| E-mail(s) |
[email protected]
|
| Organization name |
King's College London
|
| Department |
Medical & Molecular Genetics
|
| Lab |
Epigenetics
|
| Street address |
8th floor Guy's Tower
|
| City |
London |
| ZIP/Postal code |
SE1 9RT |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL198 |
| Series (2) |
| GSE20005 |
Parent-of-origin effects in seeds of Arabidopsis thaliana: Affymetrix |
| GSE20007 |
Transcriptional profiles underlying parent-of-origin effects in seeds of Arabidopsis thaliana |
|
| Relations |
| Reanalyzed by |
GSE118579 |
