Transcriptome analyses of whole Drosophila to bacterial and fungal systemic infections
This is the web supplement to De Gregorio et al. PNAS 2001 and De Gregorio et al. EMBO J. 2002. The site includes all of the figures from the papers in an enhanced format as well as several supplemental figures and tables. The site also offers access to the underlying numeric data used to calculate the gene expression patterns presented in the papers.
Choose from the following options:
* Figures
* General statistics on the Drosophila immune regulated genes
* Expression profiles of selected DIRGs
* Drosophila melanization cascade
* Drosophila Toll and Imd pathways
* Data
All of the raw data generated for these papers as well as key processing intermediates are available for download. The processed data tables are available as individual files while the unprocessed data and the MIAME compliant data are available as tarred gzipped archives. The arrays were manufactured by Affymetrix and are based on the DrosGenome1 design. Some data has been removed due to ambiguous gene assignments from the Affymetrix annotations.
=>Array Design Information
Excel file with three columns. The first column is feature name (probeset name . probe pair # . match info). The second and third columns are the array coordinates of the feature (x, y).
o Probeset (gene) information (450KB)
Tab delimited file with four columns (probeset name, transcript identifier, gene identifier, gene symbol).
o Probeset reference sequence (6.7MB)
FASTA formatted file with each probeset and the sequence upon which it is based.
=>From De Gregorio et al. 2002
o Processed Data Tables
+ Fully processed data for only the DIRGs (128KB)
The data are in log(2) ratio format, all replicates are averaged, and the values are time zero corrected. This file can be saved on your computer and opened with Excel or an equivalent spreadsheet .
+ Fully processed data (4.0MB)
The data are in log(2) ratio format, all replicates are averaged, and the values are time zero corrected.
The data are in log(2) ratio form (value /mean value in set), replicates are not averaged, and values are not time zero corrected
o Raw data
=>From De Gregorio et al. 2001
o Processed data tables
+ Fully processed data for only the DIRGs (80KB)
The data are in log(2) ratio format, all replicates are averaged, and the values are time zero corrected. This file can be saved on your computer and opened with Excel or an equivalent spreadsheet .
+ Fully processed data (2.75MB)
The data are in log(2) ratio format, all replicates are averaged, and the values are time zero corrected.
The data are in log(2) ratio form (value /mean value in set), replicates are not averaged, and values are not time zero corrected
The data are presented as the difference between the PM and MM oligos, where missing data indicate that the MM was greater than the PM. Data from each array have been scaled so that the average signal of positive reporter pairs is 1,000
o Raw collections
The complete collection of 51 CEL (Affymetrix feature data) files as well as a text file briefly describing each array. The save as feature is recommended.
* Methods
* Contacts
Please address your questions to [email protected]
For more information, follow this link
Comparison between the De Gregorio microarray analysis and the litterature (last update 2001)
For a comparison between the microarray analysis and other classical approaches to monitor gene expression profiles during microbial infection in Drosophila, click here: comparison list