1. There are two types of microarray data analysis that you can can perform using Array2BIO:
- Comparative analysis: Identification of genes differentially expressed in two sets of microarrays,
- Clustering analysis: Identification of co-expressed clusters of genes related to different conditions.
2. Start by uploading your Affymetrix .CEL files to the server. They will be automatically converted to the .TAG format that maps probe intensities to corresponding Affy tags.
Original files will be compressed and saved on the server. You can remove them later to save some disk space.
3. Comparative analysis identifies genes differentially expressed in two sets of microarrays.
Gene Ontology (GO) and KEGG analysis of differentially expressed genes and pathways is performed after that.
Detailed description of each category is dynamically linked to the count of its members.
For example,
Each GO or KEGG category is linked to a descriptive list of genes populating it.
Chromosomal location leads to the ECR Browser evolutionary analysis of the gene.
Accession numbers lead to the NCBI description of the corresponding transcript.
Description of each KEGG category also provides a diagram of underlying gene interactions. Differentially expressed genes highlighted in red.
4. Clustering analysis employs Eisen's Cluster tool to identify groups of co-expressed genes.
Visualization of clustering results contains an interactive tree of clustering relationships. You can select a group of genes by clicking on the corresponding tree branch (orange dot provides location of the click).
Zoom into the expression of the selected set of genes automatically appears by the main image.
Details on these genes follow the zoom in image.
5. Processing results saved on the server, so you can access them later.
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