367 citations · 444 across the 7 of their papers we have counts for
7 papers
Atmospheric reaction systems as null-models to identify structural traces of evolution in metabolism
Petter Holme, Mikael Huss, Sang Hoon Lee
The metabolism is the motor behind the biological complexity of an organism. One problem of characterizing its large-scale structure is that it is hard to know what to compare it t…
Substance graphs are optimal simple-graph representations of metabolism
Petter Holme, Mikael Huss
One approach to studying the system-wide organization of biochemistry is to use statistical graph theory. Even in such a heavily simplified method, which disregards most of the dyn…
Comment on "Regularizing capacity of metabolic networks"
Petter Holme, Mikael Huss
In a recent paper, Marr, Muller-Linow and Hutt [Phys. Rev. E 75, 041917 (2007)] investigate an artificial dynamic system on metabolic networks. They find a less complex time evolut…
Prediction of transcription factor binding to DNA using rule induction methods
Mikael Huss, Karin Nordstrom
The transcription of DNA into mRNA is initiated and aided by a number of transcription factors (TFs), proteins with DNA-binding regions that attach themselves to binding sites in t…
Role-similarity based functional prediction in networked systems: Application to the yeast proteome
Petter Holme, Mikael Huss
We propose a general method to predict functions of vertices where: 1. The wiring of the network is somehow related to the vertex functionality. 2. A fraction of the vertices are f…
Discovery and analysis of biochemical subnetwork hierarchies
Petter Holme, Mikael Huss
The representation of a biochemical network as a graph is the coarsest level of description in cellular biochemistry. By studying the network structure one can draw conclusions on…