Microarray processing is a high throughput technology that provides a global view of gene expression in a cell under given condition, e.g., cell transformation, normal state, cell cycle, gene knockout, etc. The WIS Microarray Unit together with the Bioinformatics unit, support microarray experiments of both Affymetrix and Agilent technologies from the design through the quantification to the data analysis that makes biological sense out of your results.
The Bioinformatics unit also analyze microarray datasets from various sources, such as GEO datasets.


Helping you analyze your microarray data

The Bioinformatics Unit can help with or perform analyses of your microarray data. The current list of standard analyses follows. We can also often help with new or other kinds of non-standard analyses; please contact us for more information.

Experiment Standard analysis Optional
mRNA/miRNA Expression Pre-processing: background subtraction, scaling, and summarizing (as needed)
Calculation of differentially-expressed genes
Pairwise comparisons between conditions/treatments as requested
Clustering
Pathway analysis
Ontologies analysis (GO)
Results are delivered as Excel tables and or Jpeg pictures.


Microarray data processing tools

We support the following microarray software.

  • Partek Genomics Suite An application for expression analysis that integrates microarray analysis results with gene anotation resources
  • NetAffx A web-based application to annotate Affymetrix chips