Jakob Peder Pettersen

Genome-scale metabolic models reveal determinants of phenotypic differences in non-Saccharomyces yeasts

The paper uses genome-scale metabolic models to identify metabolic differences between non-Saccharomyces yeasts, finding that Complex I in the electron transport chain distinguishes Metschnikowia pulcherrima from other species.

Parameter inference for enzyme and temperature constrained genome-scale models

The paper develops an evolutionary algorithm to improve parameter inference for enzyme and temperature constrained genome-scale models, showing that the Bayesian approach is unstable and that more data is needed to narrow predictions.

csdR, an R package for differential co-expression analysis

The paper introduces csdR, an R package for differential co-expression analysis, which improves performance and usability compared to existing implementations.

Hairpin: a tool for predicting structural non-coding RNA genes ab initio

Hairpin predicts structural non-coding RNA genes ab initio in E. coli but finds no annotated RNA genes in predicted regions.