7 protocols
AccessionNameType
P-AGIL-29
image_acquisition
Agilent G2565AA and G2565BA Microarray Scanner and Feature ExtractionVersion: 7.0,10.5Agilent publication number: G2566-90017, G4460-90019URL: http://www.chem.agilent.com/Library/usermanuals/Public/G2566-90017.pdf, http://www.chem.agilent.com/Library/usermanuals/Public/G4460-90019_FE_10.5_User.pdfScanner manual for software release 7.0. The Feature Extraction Software User Guide shows you how to set up and run Feature Extraction automatically for a batch of image files and how to extract image files in real time.
P-AGIL-5
nucleic acid hybridization to array protocol
Overall 25,262 transcripts were represented on the microarray by 1, 2 or 3 individual probes. Hybridizations for all experimental conditions were performed in 4 replicates. Total RNA samples derived from the treatments were hybridized against the pooled control respective to their origin. The microarray hybridization procedure was carried out with 300ng of cyanine-3 and cyanine-5 labelled cRNA for 17h at 65°C. Control/control hybridization were performed, each component of the pooled control (LP 2°C, LP 7°C, LP 12°C) was hybridized against the pooled control to mitigate dye bias effects. Subsequently microarray disassembly and wash procedure followed as described by the manufacturer’s instructions (Agilent).
P-MTAB-21529
labeling
The labeling experiment was performed according to the manufacture's protocol (Agilent technologies, Low RNA Input Fluorescent Linear Amplification Kit Protocol, Version 5.0.1).
(Parameters: Amplification = none, Mass unit = Micro gram)
P-MTAB-21533
labeling
The labeling experiment was performed according to the manufacture's protocol (Agilent technologies, Low RNA Input Fluorescent Linear Amplification Kit Protocol, Version 5.0.1).
(Parameters: Amplification = none, Mass unit = Micro gram)
P-MTAB-21530
grow
The growth conditions of the plants are as follows: The plants were grown in the plastic dishes (20 plants/plastic dish) containing germination medium (GM). GM contained Murashige and Skoog salts, 1% sucrose (WAKO, Osaka, Japan) and 0.9% Bacto-agar (Difco, Detroit, MI, USA). The plants were grown for 3 weeks in a growth chamber at 22C and 50-60% humidity under 16 hr light/8 hr dark and then subjected to the stress treatments.
(Parameters: time unit = seconds, temperature unit = C)
P-MTAB-21532
nucleic_acid_extraction
Total RNAs were isolated using the RNAiso Reagent (Takara, Japan).
(Parameters: Extracted product = total_RNA, Amplification = none)
P-MTAB-21531
specified_biomaterial_action
The plants were incubated at 22C under non-stress condition.