Subtype classification based on the ErbB signaling dynamics

Extraction of response characteristics from patient-specific simulations

• Execute subtyping()

  simulations.subtyping(
      fname=None,
      dynamical_features={
          "Phosphorylated_Akt": {"EGF": ["max"], "HRG": ["max"]},
          "Phosphorylated_ERK": {"EGF": ["max"], "HRG": ["max"]},
          "Phosphorylated_c-Myc": {"EGF": ["max"], "HRG": ["max"]},
      }
  )
  

Model-based patient stratification

• Run brca_heatmap.R

  $ cd classification
  # $ Rscript brca_heatmap.R [n_cluster: int] [figsize: tuple]
  $ Rscript brca_heatmap.R 6 8,5