|
| Status |
Public on Sep 01, 2012 |
| Title |
Col-0 (Replicate 2) |
| Sample type |
RNA |
| |
|
| Source name |
wild type
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
ecotype: Col-0
tissue: 1-3 mm 5th leaf
genotype/variation: wild type
|
| Growth protocol |
Long day conditions (16hrs light 8 hrs dark)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNeasy Plant Mini Kit (Qiagen, Germany)
|
| Label |
cy3
|
| Label protocol |
The samples for Gene expression were labeled using Agilent Quick-Amp labeling Kit (p/n5190-0442). Five hundred nanograms each of the Control and test samples were incubated with reverse trancription mix at 40°C and converted to double stranded cDNA primed by oligodT with a T7 polymerase promoter. The cleaned up double stranded cDNA were used as template for cRNA generation. cRNA was generated by in vitro transcription and the dye Cy3 CTP(Agilent) was incorporated during this step. The cDNA synthesis and in vitro transcription steps were carried out at 40°C. Labeled cRNA was cleaned up and quality assessed for yields and specific activity.
|
| |
|
| Hybridization protocol |
1650ng of cy3 labeled samples were fragmented and hybridized. Fragmentation of labeled cRNA and hybridization were done using the Gene Expression Hybridization kit of Agilent (Part Number 5188-5242). Hybridization was carried out in Agilent's Surehyb Chambers at 65º C for 16 hours. The hybridized slides were washed using Agilent Gene Expression wash buffers (Part No: 5188-5327)
|
| Scan protocol |
Scanned on an Agilent G2505C scanner and Images were quantified using Agilent Feature Extraction Software (version 10.5.1.1)
|
| Description |
Col-0 (Replicate 2)
|
| Data processing |
The normalization was done using GeneSpring GX 11.5 Software. Recommended 75th Percentile Shift Normalization.
|
| |
|
| Submission date |
May 22, 2012 |
| Last update date |
Sep 01, 2012 |
| Contact name |
Genotypic technology |
| E-mail(s) |
[email protected]
|
| Organization name |
Genotypic Technology
|
| Street address |
259, Apoorva 4th cross,80 feet Road,RMV 2ND STAGE
|
| City |
Bangalore |
| State/province |
Karnataka |
| ZIP/Postal code |
560094 |
| Country |
India |
| |
|
| Platform ID |
GPL12621 |
| Series (1) |
| GSE38111 |
Global transcriptome analysis of tarani (tni) |
|
