ENS microarray platform: January 3-7, 2005, Paris 7 Master

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January 3-7, 2005, Paris VII Master (M2) in Genetic: Training Session on DNA microarrays

Lectures
Training sessions: experimental protocol s
Bioinformatic: Image analysis and normalisation
Bioinformatic : Search for significant genes expressed in repeated experiments
Bioinformatic : Clustering
Useful links

Lectures

DNA microarray bioinformatic analysis, part 1, image analysis and normalisation - Stéphane LE CROM - PDF file format (20 Mb)

Training sessions: experimental protocols

Supplemental material compiling all the experimental protcols used during the practical session - PDF file format (97.4 Kb)

All the experimental protocols used during this training session are form the transcriptome platform. These protocols are available in HTML and PDF format from the "protocols" section of the platform website. Video tutorials are also available.

Bioinformatic: Image analysis and normalisation

Tutorial on image analysis - PDF file format (4 Mb)
Gene Array List used to identify each spot on the GenePix software - GAL file format (363.2 Kb)
Result normalisation tutorial - PDF file format (637.7 Kb)
Link toward the VARAN local copy that will be used during this training session

Bioinformatic: Search for significant genes expressed in repeated experiments

Matrix pretreatment tutorial - PDF file format (925.4 Kb)
Search for differentially expressed genes from replicated experiments tutorial - PDF file format (941.8 Kb)
Sample file to be used with SAM - Excel file format (1.4 Mb)

Bioinformatic: Clustering

Clustering tutorial - PDF file format (2 Mb)
Clustering matrix - Text file format (4.9 Kb)

Useful links