Simon Brunner | Postdoctoral Fellow

Brunner, Simon

Research focus: somatic mutations in non-cancerous tissue.

The DNA in our cells is undergoing mutagenesis as we age and as we expose ourselves to mutagens (eg. UV, tobacco). How many mutations do we accumulate in each tissue? Are there "clonal patches" of cells containing the same somatic mutations? How do we go from healthy tissue to cancer? I am part of a research team that uses whole-genome sequencing and deep sequencing of healthy tissue to detect somatic variants. My main interest is in the computational analysis of the datasets that we generate, constantly challenging myself to learn new methods and expand my computational horizon.

Interests: computational biology, genomics, data science

Publications

  • Biosynthesis and genetic encoding of phosphothreonine through parallel selection and deep sequencing.

    Zhang MS, Brunner SF, Huguenin-Dezot N, Liang AD, Schmied WH et al.

    Nature methods 2017;14;7;729-736

  • Defining synonymous codon compression schemes by genome recoding.

    Wang K, Fredens J, Brunner SF, Kim SH, Chia T and Chin JW

    Nature 2016;539;7627;59-64

  • Few regulatory metabolites coordinate expression of central metabolic genes in Escherichia coli.

    Kochanowski K, Gerosa L, Brunner SF, Christodoulou D, Nikolaev YV and Sauer U

    Molecular systems biology 2017;13;1;903

  • Development of an orthogonal fatty acid biosynthesis system in E. coli for oleochemical production.

    Haushalter RW, Groff D, Deutsch S, The L, Chavkin TA et al.

    Metabolic engineering 2015;30;1-6

  • Biosynthesis and genetic encoding of phosphothreonine through parallel selection and deep sequencing.

    Zhang MS, Brunner SF, Huguenin-Dezot N, Liang AD, Schmied WH et al.

    Nature methods 2017;14;7;729-736

  • Few regulatory metabolites coordinate expression of central metabolic genes in Escherichia coli.

    Kochanowski K, Gerosa L, Brunner SF, Christodoulou D, Nikolaev YV and Sauer U

    Molecular systems biology 2017;13;1;903

  • Defining synonymous codon compression schemes by genome recoding.

    Wang K, Fredens J, Brunner SF, Kim SH, Chia T and Chin JW

    Nature 2016;539;7627;59-64

  • Development of an orthogonal fatty acid biosynthesis system in E. coli for oleochemical production.

    Haushalter RW, Groff D, Deutsch S, The L, Chavkin TA et al.

    Metabolic engineering 2015;30;1-6

Brunner, Simon
Simon's Timeline
2017

Early Postdoc.Mobility Fellowship of the Swiss National Science Foundation

2016

Postdoctoral Fellow at The Wellcome Trust Sanger Institute

PhD, University of Cambridge, MRC Laboratory of Molecular Biology

2012

MSc, ETH Zurich, Systems Biology

2011

BSc, ETH Zurich, Biochemistry