Jörg Stelling

TL;DR: This work summarizes the Systems Biology Markup Language (SBML) Level 1, a free, open, XML-based format for representing biochemical reaction networks, a software-independent language for describing models common to research in many areas of computational biology.

TL;DR: This work states that theoretical approaches to complex engineered systems can provide guidelines for investigating cellular robustness and may be a key to understanding cellular complexity, elucidating design principles, and fostering closer interactions between experimentation and theory.

TL;DR: A theoretical method for simultaneously predicting key aspects of network functionality, robustness and gene regulation from network structure alone is devised by determining and analysing the non-decomposable pathways able to operate coherently at steady state (elementary flux modes).

TL;DR: A synthetic mammalian oscillator based on an auto-regulated sense–antisense transcription control circuit encoding a positive and a time-delayed negative feedback loop enabling autonomous, self-sustained and tunable oscillatory gene expression is described.

TL;DR: A new recursive enumeration strategy with bit pattern trees for adjacent rays--the ancestors of extreme rays--that is roughly one order of magnitude faster than previous methods is presented, and a rank updating method that is particularly well suited for parallel computation and a residue arithmetic method for matrix rank computations, which circumvents potential numerical instability problems.