Department of Bioinformatics and Computational Biology

ResearchOverview

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Research

The individuals in the Department of Bioinformatics and Computational Biology are actively involved in research. We make information on published articles, Bioinformatics Softwares and Services and Public Data Sets available through this web site.

TCGA Genome Data Analysis Center Department of Bioinformatics and Computational Biology

A major research focus of the Department is our TCGA Genome Data Analysis Center led by John Weinstein. Research in the center focuses on the development of advanced software tools for genomic analyses and the analysis of the TCGA data. Specific research projects include

  • Batch effects detection, quantification, and correction
  • Next-generation clustered heatmaps
  • Whole-genome mutual exclusivity analysis
  • Cross tumor type comparisons and analyses
  • Disease specific data analyses

Our current research interests include:

  • optimal designs for the layout of microarrays
  • uses of replicate spots on microarrays
  • assessing and ensuring quality control of microarray data
  • more reliable methods to normalize microarray data
  • more reliable methods for background correction of microarray data
  • more reliable methods to extract underexpressed or overexpressed genes from microarray data
  • assessing the relative variability of various steps in the process of collecting microarray data
  • comparing the effectiveness of various clustering and multivariate analysis methods to reliably extract biologically relevant information from microarray data