|
| Status |
Public on Dec 23, 2010 |
| Title |
Female A398 vs A82 dye-swap |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
A82
|
| Organism |
Drosophila melanogaster |
| Characteristics |
strain: A82
sex: female
developmental stage: adult
age: 4-6 days
tissue: whole fly
|
| Growth protocol |
Flies were reared at 22ºC
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TRIzol procedure
|
| Label |
Alexa Fluor 647
|
| Label protocol |
50 µg of total RNA were reverse transcribed and labeled using the SuperScript Plus Indirect cDNA Labeling System and Alexa Flour dyes (Invitrogen, Carlsbad, CA, USA) following the manufacturer's protocol
|
| |
|
| Channel 2 |
| Source name |
A398
|
| Organism |
Drosophila melanogaster |
| Characteristics |
age: 4-6 days
strain: A398
sex: female
developmental stage: adult
tissue: whole fly
|
| Growth protocol |
Flies were reared at 22ºC
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TRIzol procedure
|
| Label |
Alexa Fluor 555
|
| Label protocol |
50 µg of total RNA were reverse transcribed and labeled using the SuperScript Plus Indirect cDNA Labeling System and Alexa Flour dyes (Invitrogen, Carlsbad, CA, USA) following the manufacturer's protocol
|
| |
|
| |
| Hybridization protocol |
Hybridizations were performed following CDMC protocols (http://www.flyarrays.com) using Corning microarray hybridization chambers (Corning Incorporated, Corning, NY, USA)
|
| Scan protocol |
Scanned on an aQuire microarray scanner (Genetix, New Milton, UK), images were quantified using Genetix QScan software (Version 1.1.8.10)
|
| Description |
Competitive hybridization between A82 and A398
|
| Data processing |
Normalized 647/555 ratios were obtained using CARMAweb (https://carmaweb.genome.tugraz.at/). Dye-swap replicates were normalized as pairs. Local background effects, within-array variation, and between-array variation was corrected using the "minimum", "printtiploess", and "quantile" methods, respectively. Spots passed quality control if they showed mean signal intensities of one standard deviation above background for both channels.
|
| |
|
| Submission date |
Aug 17, 2010 |
| Last update date |
Dec 23, 2010 |
| Contact name |
Stephan Hutter |
| Organization name |
University of Munich
|
| Department |
Department of Biology II
|
| Lab |
Section of Evolutionary Biology
|
| Street address |
Grosshaderner Strasse 2
|
| City |
Planegg-Martinsried |
| State/province |
Bavaria |
| ZIP/Postal code |
82152 |
| Country |
Germany |
| |
|
| Platform ID |
GPL3603 |
| Series (1) |
| GSE23662 |
Population transcriptomics of Drosophila melanogaster females |
|
