Molecular Systems Biology - New articles published - 1 Aug 2015

July 2015 | Volume 11, Number 7 Submit Table of Contents Articles Reports Articles News & Views Articles Volume 11, Number 7 Articles Predominant contribution of cis‐regulatory divergence in the evolution of mouse alternative splicing A genomewide study using two divergent mouse strains and their F1 hybrid demonstrates the predominant contribution of cis‐regulatory changes in the evolution of mouse alternative splicing. Qingsong Gao, Wei Sun, Marlies Ballegeer, Claude Libert, and Wei Chen Published online 01.07.2015 Reports Pom1 gradient buffering through intermolecular auto‐phosphorylation Theoretical modeling and experimental data show that the DYRK‐family kinase Pom1 auto‐phosphorylates intermolecularly. This mechanism confers robustness to Pom1 concentration gradients through super‐linear decay. Micha Hersch, Olivier Hachet, Sascha Dalessi, Pranav Ullal, Payal Bhatia, Sven Bergmann, and Sophie G Martin Published online 06.07.2015 Articles Data‐driven modelling of a gene regulatory network for cell fate decisions in the growing limb bud A dynamical 2D computer model of limb development, combining tissue movements and spatially controlled gene regulatory interactions, allows reverse‐engineering the regulatory network controlling cell fate decisions along the main proximodistal (PD) axis. Manu Uzkudun, Luciano Marcon, and James Sharpe Published online 14.07.2015 Time‐ and compartment‐resolved proteome profiling of the extracellular niche in lung injury and repair A proteome‐wide view of lung injury and repair was elucidated by mass spectrometry analysis of the dynamic composition of lung tissue compartments. In particular, the extracellular matrix proteome uncovers potential factors in stem cell mobilization and fibrosis resolution. Herbert B Schiller, Isis E Fernandez, Gerald Burgstaller, Christoph Schaab, Richard A Scheltema, Thomas Schwarzmayr, Tim M Strom, Oliver Eickelberg, and Matthias Mann Published online 14.07.2015 Genetic variation in insulin‐induced kinase signaling Genetic variants contribute to individual variation in insulin response, including kinase activation, changes in gene expression and cell growth, suggesting kinase modulators as promising therapeutics for diseases characterized by insulin resistance. Isabel Xiaorong Wang, Girish Ramrattan, and Vivian G Cheung Published online 22.07.2015 News & Views Extensive mapping of an innate immune network with CRISPR The application of the CRISPR‐Cas9 system marks a major breakthrough for genetic screens in mammalian cells. Parnas et al (2015) apply this technology to primary mouse dendritic cells in order to study immune regulatory networks at unprecedented resolution. Michael Aregger, Traver Hart, and Jason Moffat Published online 24.07.2015 Articles Structure of silent transcription intervals and noise characteristics of mammalian genes Analysis of transcriptional bursting from time‐lapse imaging of single alleles in mammalian cells identifies the kinetic structure of promoter cycles underlying refractoriness, and explains noise in mRNA abundance. Benjamin Zoller, Damien Nicolas, Nacho Molina, and Felix Naef Published online 27.07.2015 Isolated cell behavior drives the evolution of antibiotic resistance Cooperative growth dynamics can influence the minimum inhibitory concentration (MIC) of antibiotics. Quantifying the fitness of single cells (single‐cell MIC) provides a better metric for predicting the evolution of antibiotic resistance. Tatiana Artemova, Ylaine Gerardin, Carmel Dudley, Nicole M Vega, and Jeff Gore Published online 29.07.2015 Cancer type‐dependent genetic interactions between cancer driver alterations indicate plasticity of epistasis across cell types Analysis of genetic interactions using data from > 3,000 tumors shows that co‐occurrence and mutual exclusivity between cancer driver alterations change extensively in different cancer types, thus indicating plasticity of epistasis across cell types. Solip Park and Ben Lehner Published online 30.07.2015   Unsubscribe from or edit your subscription for this service. Or by mail: Customer Service * 425 Broadway St * Redwood City, CA 94063 * U.S.A. Copyright © 2015 by the European Molecular Biology Organisation.