|
| Status |
Public on Jun 20, 2019 |
| Title |
dcp5_SS_L4h_rep3 |
| Sample type |
RNA |
| |
|
| Source name |
4-d-old dcp5-1, L4h
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
tissue: seedlings (aerial parts)
ecotype: Col-0
genotype: dcp5-1
treatment: white light
rna fraction: total RNA
|
| Treatment protocol |
4-d-old etiolated seedlings treated with or without 4-h white light
|
| Growth protocol |
Seeds were surface-sterilized and germinated on half-strength Murashige and Skoog
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA and polysome-bound RNA were extracted as described previously [(Liu et al, Mol Syst Biol 8, 566 (2012)]
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNAs were prepared according to the standard Affymetrix protocol from 300 ng total RNA (MessageAmp Premier RNA Amplification Kit Manual, 4386269 Rev. G, Life Technologies Corporation).Technical Manual, 701021 Rev. 5, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, cRNAs were hybridized for 16.5 hr at 45°C on GeneChip Arabidopsis ATH1 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using Affymetrix GeneChip Scanner 3000 7G.
|
| Data processing |
The data were analyzed with GeneChip Operating System 1.4 (GCOS 1.4) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500. The value of polysome-bound RNAs is normalized to PL% (the ratio of polysome-bound RNAs in total RNA).
|
| |
|
| Submission date |
Dec 11, 2017 |
| Last update date |
Jun 20, 2019 |
| Contact name |
Geng-Jen Jang |
| E-mail(s) |
[email protected]
|
| Phone |
+886-2-2787-1066
|
| Organization name |
Academia Sinica
|
| Street address |
128 Sec. 2, Academia Rd, Nankang
|
| City |
Taipei |
| ZIP/Postal code |
11529 |
| Country |
Taiwan |
| |
|
| Platform ID |
GPL198 |
| Series (1) |
| GSE107892 |
P-body mediated translational control in photomorphogenesis |
|
