Ted Laderas

I am an Assistant Professor in the Bioinformatics and Computational Biology track in the OHSU Department of Medical Informatics and Clinical Epidemiology (BCB/DMICE) and a member of the OHSU Knight Cancer Institute. My research focus is on the Systems Biology of Complex Diseases. I use integrative modeling approaches across OMICs types to achieve this.

Over twelve years of bioinformatics experience, I have developed methods for low-level preprocessing and high-level analysis of many OMICs types, including expression (especially alternative splicing), phosphoproteomics, proteomics, and genomics. My experience in functional genomics has led me to use models such as Graphical Models and Networks to integrate these many OMICs types into building a unified picture of integrated systems-level dysregulation in complex diseases such as alcoholism and cancer.

Research Interests

  • Phenotypic Heterogeneity of Cancer and Measurement using Flow Cytometry Methods
  • Systems Biology of Cancer, especially oncogenic collaboration
  • Prioritization of Combination Therapies in the treatment of cancer
  • Integrating multi-OMICs data to understand dysregulation in cancer
  • Modeling Disease using Graphical Models and Agent-Based Models
  • Interactive visualization of Data

Software Development:

  • flowDashboard. Shiny modules for building interactive and comparative dashboards for flow cytometry data. See a demo here: https://tladeras.shinyapps.io/sampleFlowDashboard/ DOI
  • DSIExplore. Interactive learnr package for teaching beginning exploratory data analysis and statistics. Jessica Minnier and Ted Laderas. Role: author.
  • infer. Tidy statistical inference package. Andrew Bray, Chester Ismay, Ben Baumer, Mine Cetinkaya-Rundel, Ted Laderas and Nick Solomon. Role: Contributor.
  • surrogateMutation - a package for detecting oncogenic collaboration in somatic mutation and copy number data. DOI
  • surrogateShiny - an R/Shiny Framework for exploring oncogenic collaboration in breast cancer cell lines. See a demo here: https://tladeras.shinyapps.io/surrogateShiny/ DOI
  • Consense - a package for comparing clustering methods. DOI
  • ExonModelStrain - a package for detecting alternative exon usage in the Affymetrix Exon Array. DOI
  • TandTRAQ - Perl Script for merging iTRAQ and XTandem Results.

Selected Publications:

Other Interests

I have a parallel career as a composer and performing musician. I started taking cello lessons when I turned 30. I’m a lifelong learner and I love to play with and accompany other musicians. For more information, please see my artist webpage.