Our papers are the official record of our discoveries. They allow others to build on and apply our work. Each paper is the result of many months of research, so we make a special effort to make them clear, beautiful and inspirational, and publish them in leading journals.

icon
  • On the number of biologically valid logics

    TFT. Fink Draft for Physical Review E

    Biological logics are restricted

    The fraction of logics that are biologically permitted can be bounded and shown to be tiny, which makes inferring them from experiments easier.

  • Composition of Boolean functions restricts biologically permitted logics

    TFT. FinkRHR. Hannam Sub. to Physical Review Letters

    In life, there are few rules

    The bipartite nature of genetic regulatory networks means their logics are composed, which severely restricts which ones can show up in life.

  • Acute immune signatures and their legacies in severe acute respiratory syndrome coronavirus-2 infected cancer patients

    SALBTAIdAG... Cancer Cell

    Cancer and coronavirus

    Cancer patients who contract and recover from Coronavirus-2 exhibit long-term immune system weaknesses, depending on the type of cancer.

  • Bayesian networks analysis of malocclusion data

    MSPAGCG. CaldarelliLF Scientific Reports

    Bayesian analysis of medical data

    Bayesian networks describe the evolution of orthodontic features on patients receiving treatment versus no treatment for malocclusion.

  • Journal of the Royal Society Interface

    Protein interaction experiments

    Properties of protein interaction networks test the reliability of data and hint at the underlying mechanism with which proteins recruit each other.

  • PLoS ONE

    Networks for medical data

    Network analysis of diagnostic data identifies combinations of the key factors which cause Class III malocclusion and how they evolve over time.

  • Interface Focus

    What you see is not what you get

    Methods from tailored random graph theory reveal the relation between true biological networks and the often-biased samples taken from them.