Table of Contents: December 2008

In "Ceci n'est pas une pipe," René Magritte faithfully depicts a pipe but all the same proclaims that it isn't a pipe: it is a painting of a pipe. We allude to Magritte's painting here, showing that by rebuilding a neuron's anatomy, we create something that is not a neuron: it is the model of a neuron (see Cuntz et al., doi:10.1371/journal.pcbi.1000251).

Image Credit: Hermann Cuntz (University College London).


I Am Not a Scientist, I Am a Number

Philip E. Bourne, J. Lynn Fink

Research Articles

Spontaneous Reaction Silencing in Metabolic Optimization

Takashi Nishikawa, Natali Gulbahce, Adilson E. Motter

Formation and Growth of Oligomers: A Monte Carlo Study of an Amyloid Tau Fragment

Da-Wei Li, Sandipan Mohanty, Anders Irbäck, Shuanghong Huo

Encoding of Naturalistic Stimuli by Local Field Potential Spectra in Networks of Excitatory and Inhibitory Neurons

Alberto Mazzoni, Stefano Panzeri, Nikos K. Logothetis, Nicolas Brunel

Dynamic Correlation between Intrahost HIV-1 Quasispecies Evolution and Disease Progression

Ha Youn Lee, Alan S. Perelson, Su-Chan Park, Thomas Leitner

Disordered Flanks Prevent Peptide Aggregation

Sanne Abeln, Daan Frenkel

Dependence of Bacterial Chemotaxis on Gradient Shape and Adaptation Rate

Nikita Vladimirov, Linda Løvdok, Dirk Lebiedz, Victor Sourjik

Malleable Machines in Transcription Regulation: The Mediator Complex

Ágnes Tóth-Petróczy, Christopher J. Oldfield, István Simon, Yuichiro Takagi, A. Keith Dunker, Vladimir N. Uversky, Monika Fuxreiter

Association Rate Constants of Ras-Effector Interactions Are Evolutionarily Conserved

Christina Kiel, Dorothee Aydin, Luis Serrano

Mechanics and Dynamics of X-Chromosome Pairing at X Inactivation

Antonio Scialdone, Mario Nicodemi

A Mathematical Framework for the Selection of an Optimal Set of Peptides for Epitope-Based Vaccines

Nora C. Toussaint, Pierre Dönnes, Oliver Kohlbacher

Tag-Trigger-Consolidation: A Model of Early and Late Long-Term-Potentiation and Depression

Claudia Clopath, Lorric Ziegler, Eleni Vasilaki, Lars Büsing, Wulfram Gerstner

Search Algorithms as a Framework for the Optimization of Drug Combinations

Diego Calzolari, Stefania Bruschi, Laurence Coquin, Jennifer Schofield, Jacob D. Feala, John C. Reed, Andrew D. McCulloch, Giovanni Paternostro

Identification of Mechanosensitive Genes during Embryonic Bone Formation

Niamh C. Nowlan, Patrick J. Prendergast, Paula Murphy

The Morphological Identity of Insect Dendrites

Hermann Cuntz, Friedrich Forstner, Juergen Haag, Alexander Borst

Game Theory of Mind

Wako Yoshida, Ray J. Dolan, Karl J. Friston