Molecular Systems Biology - New articles published - 1 Jan 2015

December 2014 | Volume 10, Number 12 Submit Table of Contents Articles News & Views Volume 10, Number 12 Articles Phosphoproteomic analyses reveal novel cross‐modulation mechanisms between two signaling pathways in yeast A quantitative analysis of phosphoproteome dynamics by shotgun mass spectrometry, combined with mathematical modeling reveals complex crosstalk between the Hog1 and the pheromone signaling pathways in budding yeast. Stefania Vaga, Marti Bernardo‐Faura, Thomas Cokelaer, Alessio Maiolica, Christopher A Barnes, Ludovic C Gillet, Björn Hegemann, Frank van Drogen, Hoda Sharifian, Edda Klipp, Matthias Peter, Julio Saez‐Rodriguez, and Ruedi Aebersold Published online 09.12.2014 Annotation of genomics data using bidirectional hidden Markov models unveils variations in Pol II transcription cycle Bidirectional hidden Markov models improve the annotation of DNA‐associated processes from genomics data, reveal variations in the yeast Pol II transcription cycle and identify directed chromatin state patterns at transcribed regions in the human genome. Benedikt Zacher, Michael Lidschreiber, Patrick Cramer, Julien Gagneur, and Achim Tresch Published online 19.12.2014 Loss of growth homeostasis by genetic decoupling of cell division from biomass growth: implication for size control mechanisms Live microscopy of individual of cells growing in conditions that decouple nutrient sensing form nutrient influx reveals independent regulation of biomass accumulation and cell division. Two distinct types of arrest are described with implications for models of cell size control. Hannah Schmidt‐Glenewinkel and Naama Barkai Published online 23.12.2014 Causal signals between codon bias, mRNA structure, and the efficiency of translation and elongation Ribosome profiling experiments in wild‐type yeast and in mutants with altered tRNA levels illustrate that neither elongation rate nor translational efficiency is affected by tRNA abundance under physiological conditions. Cristina Pop, Silvi Rouskin, Nicholas T Ingolia, Lu Han, Eric M Phizicky, Jonathan S Weissman, and Daphne Koller Published online 23.12.2014 ROCK1 is a potential combinatorial drug target for BRAF mutant melanoma An integrated analysis of proteomic and phospho‐proteomic data from BRAF inhibitor‐treated melanoma cells and a functional genomic screen for shRNAs sensitizing melanoma to BRAF inhibitor treatment identifies ROCK1 kinase as a combinatorial drug target. Marjon A Smit, Gianluca Maddalo, Kylie Greig, Linsey M Raaijmakers, Patricia A Possik, Bas van Breukelen, Salvatore Cappadona, Albert JR Heck, AF Maarten Altelaar, and Daniel S Peeper Published online 23.12.2014 Integrated systems analysis reveals a molecular network underlying autism spectrum disorders An integrative analysis of the interactome, gene expression and genome sequencing data identifies protein interaction modules implicated in autism spectrum disorders and reveals the corpus callosum as a potential tissue of origin in ASD. Jingjing Li, Minyi Shi, Zhihai Ma, Shuchun Zhao, Ghia Euskirchen, Jennifer Ziskin, Alexander Urban, Joachim Hallmayer, and Michael Snyder Published online 30.12.2014 News & Views Autism cornered: network analyses reveal mechanisms of autism spectrum disorders A systems biology approach by Snyder and colleagues (Li et al, 2014) sheds light on the molecular and cellular mechanisms underlying autism, thus opening novel avenues for understanding the disease and developing potential treatments. Charles Auffray Published online 30.12.2014   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.