Course Details

  • Date: October 2nd, 2012 - October 2nd, 2012
  • Time: 2:00 pm - 3:30 pm
  • Location: Building 37, Room 4041/4107
  • Presenter(s): Gregory Riddick, PhD (Research Fellow, Neuro-Oncology Branch, CCR,NCI)
  1. Microarray Technology and Preprocessing

    • Quality Control
    • Normalization Using MAS5 and RMA
    • Filtering
    • Batch Effect Correction
  2. Basic Statistical Tests for Differentially Expressed Genes

    • T-test
    • ANOVA
    • SAM
    • Calculating False Discovery Rate
    • Principal Components Analysis and Clustering
  3. Functional and Network Analysis

    1. Pathway Analysis

      • Ingenuity Pathway Analysis (IPA)
      • Gene Set Enrichment Analysis (GSEA)
      • Fishers Exact Test
    2. Motif Enrichment Analysis

      • IPA motif enrichment analysis for transcription factor and miRNA motifs
      • PSCAN for transcription factor motifs
      • Fishers Exact Test for transcription factor and miRNA motifs
    3. Network Reconstruction

      • ARACNE
      • Multivariate Regression
         

Course Materials: Lecture Slides in PDF Format