Mass spectrometry based proteomic experiments generate ever larger datasets and, as a consequence, complex data interpretation challenges. This course focuses on the statistical concepts for peptide identification, quantification, and differential analysis. Moreover, more advanced experimental designs and blocking will also be introduced.

Our tool msqrob2 provides a

The package include workflows that


  1. Two group comparison: cptac spike-in study

  2. Block designs

  3. Hurdle workflow

  4. Clustered designs

    • Designs with technical and biological repeats:francisella example
    • Repeated measures design
    • longitudinal design
  5. Method comparison