Ingenuity Pathway Analysis (IPA) Training

Tufts University Users should follows these instructions to set up their IPA account before attending the workshop:

Part I: Navigating the IPA knowledgebase (BKB): Query and visualize molecular-phenotypic interactions 

  • Overview of the Biomedical Knowledge Base
  • Generate a network for genes, chemicals and diseases 
    • Activity prediction for hypothesis generation and experiment design
    • Project searching

Part II: Core Analysis of user Omics data (gene/transcript/protein or metabolite)

  • Preparing your data for upload
    • Dataset and file formats
    • Settings and options for configuring a core analysis
  • Paradigms for data reduction and biological interpretation in the core analysis
    • Biological mechanisms, regulators and targets
    • Compare across groups (time points, treatments, sc clusters etc.)
    • Activity heatmap for pathways, regulators and bio functions
    • Compare contrast activity of pathways, bio. functions and regulators
    • Discover condition-specific biomarkers 
  • Functional comparisons of user data with published data
    • Analysis Match, activity plot, patter search
    • Heatmaps, hierarchical clustering

Part III: Surveillance of Public Data with Land Explorer

  • (GEO, SRA, TCGA etc.) 
    • Investigate a gene/biomarker’s expression across diseases, tissues, cell types etc.
    • Derive gene/biomarker signatures for condition of interest (ex. treatment, disease subtype, cell type etc.)
  • Searching and interpretation of published expression analyses
    • Search and open pathway analyses of public datasets
    • Study biological mechanisms and discover key regulators/drug targets

574 Boston 310

Registration needed?

Scott Magin from Qiagen