|
| Status |
Public on Mar 01, 2013 |
| Title |
V2 nodal root, biological replicate 3 |
| Sample type |
RNA |
| |
|
| Source name |
V2 nodal root
|
| Organism |
Zea mays |
| Characteristics |
developmental stage: V2
tissue: nodal root
|
| Treatment protocol |
Three biological replicates per sample were harvested in the middle of the day to minimize complications due to diurnal changes in C and N metabolism.
|
| Growth protocol |
An elite Syngenta Zea mays (maize) inbred (SRG200) was grown in a greenhouse at the University of Guelph during the summer of 2007. Growth conditions were 16 hour days (~600 μmol m-2 s-1) at 28°C, 8 hour nights at 23°C, and 50% relative humidity. Plants were grown semi-hydroponically in pots containing Turface® clay, watered with a modified Hoagland’s solution containing: 0.4 g/L 28-14-14 fertilizer, 0.4 g/L 15-15-30 fertilizer, 0.2 g/L NH4NO3, 0.4 g/L of MgSO4•7H2O and 0.03 g/L of micronutrient mix (S, Co, Cu, Fe, Mn, Mo and Zn).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated and used for cDNA, cRNA synthesis.
|
| Label |
biotin
|
| Label protocol |
Labeling followed a standard protocol recommended by Affymetrix.
|
| |
|
| Hybridization protocol |
Labeled cRNAs were fragmented and applied to a maize custom GeneChip microarray for molecular hybridization.
|
| Scan protocol |
The array images with hybridization signals were acquired and quantified by GeneChip Operation System (GCOS) software (Affymetrix).
|
| Description |
root_nodal_V2_3
|
| Data processing |
CEL files were normalized using the Robust Multichip Average (RMA) method from the “affy” library of the BioConductor package (version 2.6) of the R statistical framework (version 2.11.0)
|
| |
|
| Submission date |
Mar 01, 2013 |
| Last update date |
Mar 01, 2013 |
| Contact name |
Gregory S Downs |
| Organization name |
University of Guelph
|
| Street address |
50 Stone Road E
|
| City |
Guelph |
| ZIP/Postal code |
N1G2W1 |
| Country |
Canada |
| |
|
| Platform ID |
GPL16720 |
| Series (1) |
| GSE44743 |
Expression data from Zea mays developmental series. |
|
