Computational Biology Methods Development


Single-cell Analysis

  • Embryo-scale, Single-cell Spatial Transcriptomics

    • Cross-Platform Analysis and Dataset Integration

  • Feature-Specific Quantile Normalization Enables Cross-Platform Classification of Molecular Subtypes using Gene Expression Data

    • Machine Learning

  • A Machine Learning Classifier for Assigning Patients with Systemic Sclerosis to Intrinsic Molecular Subsets

    • Methylation

  • BioMethyl: An R Package for Biological Interpretation of DNA Methylation Data

    • Biostatistics Methods Development

  • Clinical and molecular findings after autologous stem cell transplantation or cyclophosphamide for scleroderma: handling missing longitudinal data in a randomized clinical trial
  • Precision weighted RNA-seq analyses of Molecular Abundance (RoMA) for detecting differential gene expression