Journal: PLoS Computational Biology

Volume 13, Issue 6

0 -- 0C. Victor Jongeneel, Ovokeraye Achinike-Oduaran, Ezekiel F. Adebiyi, Marion O. Adebiyi, Seun Adeyemi, Bola Akanle, Shaun Aron, Efejiro Ashano, Hocine Bendou, Gerrit Botha, Emile R. Chimusa, Ananyo Choudhury, Ravikiran Donthu, Jenny Drnevich, Oluwadamila Falola, Christopher J. Fields, Scott Hazelhurst, Liesl Hendry, Itunuoluwa Isewon, Radhika S. Khetani, Judit Kumuthini, Magambo Phillip Kimuda, Lerato Magosi, Liudmila S. Mainzer, Suresh Maslamoney, Mamana Mbiyavanga, Ayton Meintjes, Danny Mugutso, Phelelani T. Mpangase, Richard Munthali, Victoria Nembaware, Andrew Ndhlovu, Trust Odia, Adaobi Okafor, Olaleye Oladipo, Sumir Panji, Venesa Pillay, Gloria Rendon, Dhriti Sengupta, Nicola J. Mulder. Assessing computational genomics skills: Our experience in the H3ABioNet African bioinformatics network
0 -- 0Yan Zhang, Shantao Li, Alexej Abyzov, Mark B. Gerstein. Landscape and variation of novel retroduplications in 26 human populations
0 -- 0En-Yu Lai, Yi-Hau Chen, Kun-Pin Wu. A knowledge-based T2-statistic to perform pathway analysis for quantitative proteomic data
0 -- 0Darshan Bryner, Stephen Criscione, Andrew Leith, Quyen Huynh, Fred W. Huffer, Nicola Neretti. GINOM: A statistical framework for assessing interval overlap of multiple genomic features
0 -- 0Patricia Wollstadt, Kristin K. Sellers, Lucas Rudelt, Viola Priesemann, Axel Hutt, Flavio Fröhlich, Michael Wibral. Breakdown of local information processing may underlie isoflurane anesthesia effects
0 -- 0Xiangxiang Zeng, Wei Lin, Maozu Guo, Quan Zou. A comprehensive overview and evaluation of circular RNA detection tools
0 -- 0Jae Kyoung Kim, Eduardo D. Sontag. Reduction of multiscale stochastic biochemical reaction networks using exact moment derivation
0 -- 0David M. Fox, Hua-an Tseng, Tomasz G. Smolinski, Horacio G. Rotstein, Farzan Nadim. Mechanisms of generation of membrane potential resonance in a neuron with multiple resonant ionic currents
0 -- 0Dominic G. Whittaker, Haibo Ni, Aziza El Harchi, Jules C. Hancox, Henggui Zhang. Atrial arrhythmogenicity of KCNJ2 mutations in short QT syndrome: Insights from virtual human atria
0 -- 0Jhuma Das, Andrei A. Aleksandrov, Liying Cui, Lihua He, John R. Riordan, Nikolay V. Dokholyan. Transmembrane helical interactions in the CFTR channel pore
0 -- 0Caroline Baroukh, Violette Turon, Olivier Bernard. Dynamic metabolic modeling of heterotrophic and mixotrophic microalgal growth on fermentative wastes
0 -- 0Christiana N. Fogg, Diane E. Kovats, Bonnie Berger. 2017 Outstanding Contributions to ISCB Award: Fran Lewitter
0 -- 0Peyman Khorsand, Alireza Soltani. Optimal structure of metaplasticity for adaptive learning
0 -- 0Diego A. Gutnisky, Jianing Yu, Samuel Andrew Hires, Minh-Son To, Michael Ross Bale, Karel Svoboda, David Golomb. Mechanisms underlying a thalamocortical transformation during active tactile sensation
0 -- 0Marine Le Morvan, Andrei Zinovyev, Jean-Philippe Vert. NetNorM: Capturing cancer-relevant information in somatic exome mutation data with gene networks for cancer stratification and prognosis
0 -- 0Meng Ke, Yafei Yuan, Xin Jiang, Nieng Yan, Haipeng Gong. Molecular determinants for the thermodynamic and functional divergence of uniporter GLUT1 and proton symporter XylE
0 -- 0Sonia Cortassa, Steven J. Sollott, Miguel Antonio Aon. Mitochondrial respiration and ROS emission during β-oxidation in the heart: An experimental-computational study
0 -- 0Christiana N. Fogg, Diane E. Kovats, Bonnie Berger. 2017 ISCB Accomplishment by a Senior Scientist Award given to Pavel Pevzner
0 -- 0Stefano Castellana, Caterina Fusilli, Gianluigi Mazzoccoli, Tommaso Biagini, Daniele Capocefalo, Massimo Carella, Angelo L. Vescovi, Tommaso Mazza. High-confidence assessment of functional impact of human mitochondrial non-synonymous genome variations by APOGEE
0 -- 0Yuriy Sverchkov, Mark Craven. A review of active learning approaches to experimental design for uncovering biological networks
0 -- 0Christiana N. Fogg, Diane E. Kovats, Bonnie Berger. 2017 ISCB Overton Prize awarded to Christoph Bock
0 -- 0Mathieu Ouellet, Gérald Guillebaud, Valerie Gervais, David Lupien St-Pierre, Marc Germain. A novel algorithm identifies stress-induced alterations in mitochondrial connectivity and inner membrane structure from confocal images
0 -- 0Michael A. Colman, Haibo Ni, Bo Liang, Nicole Schmitt, Henggui Zhang. In silico assessment of genetic variation in KCNA5 reveals multiple mechanisms of human atrial arrhythmogenesis
0 -- 0Gen Kurosawa, Atsuko Fujioka, Satoshi Koinuma, Atsushi Mochizuki, Yasufumi Shigeyoshi. Temperature-amplitude coupling for stable biological rhythms at different temperatures
0 -- 0Peter Marx, Peter Antal, Bence Bolgár, Gyorgy Bagdy, Bill Deakin, Gabriella Juhász. Comorbidities in the diseasome are more apparent than real: What Bayesian filtering reveals about the comorbidities of depression
0 -- 0Gabriel Koch Ocker, Kresimir Josic, Eric Shea-Brown, Michael A. Buice. Linking structure and activity in nonlinear spiking networks
0 -- 0Tobias Kühn, Moritz Helias. Locking of correlated neural activity to ongoing oscillations
0 -- 0Rasmus Magnusson, Guido Pio Mariotti, Mattias Köpsén, William Lövfors, Danuta R. Gawel, Rebecka Jörnsten, Jörg Linde, Torbjörn E. M. Nordling, Elin Nyman, Sylvie Schulze, Colm E. Nestor, Huan Zhang, Gunnar Cedersund, Mikael Benson, Andreas Tjärnberg, Mika Gustafsson. LASSIM - A network inference toolbox for genome-wide mechanistic modeling
0 -- 0David L. Gibbs, Ilya Shmulevich. Solving the influence maximization problem reveals regulatory organization of the yeast cell cycle
0 -- 0Daniel L. Barton, Silke Henkes, Cornelis J. Weijer, Rastko Sknepnek. Active Vertex Model for cell-resolution description of epithelial tissue mechanics
0 -- 0Matthew Chalk, Paul Masset, Sophie Denève, Boris S. Gutkin. Sensory noise predicts divisive reshaping of receptive fields
0 -- 0Raony G. C. C. L. Cardenas, Natália Duarte Linhares, Raquel L. Ferreira, Sérgio D. Junho Pena. Mendel, MD: A user-friendly open-source web tool for analyzing WES and WGS in the diagnosis of patients with Mendelian disorders
0 -- 0Shaohuan Wu, Ke Li, Yingshu Li, Tong Zhao, Ting Li, Yu-Fei Yang, Wenfeng Qian. Independent regulation of gene expression level and noise by histone modifications
0 -- 0Ryan R. Wick, Louise M. Judd, Claire L. Gorrie, Kathryn E. Holt. Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads
0 -- 0Samira Abbasi, Amber E. Hudson, Selva K. Maran, Ying Cao, Ataollah Abbasi, Detlef H. Heck, Dieter Jaeger. Robust transmission of rate coding in the inhibitory Purkinje cell to cerebellar nuclei pathway in awake mice
0 -- 0Yiming Hu, Qiongshi Lu, Ryan Powles, Xinwei Yao, Can Yang, Fang Fang, Xinran Xu, Hongyu Zhao. Leveraging functional annotations in genetic risk prediction for human complex diseases
0 -- 0Qiwen Hu, Eun Ji Kim, Jian Feng, Gregory R. Grant, Elizabeth A. Heller. Histone posttranslational modifications predict specific alternative exon subtypes in mammalian brain
0 -- 0Rocío Espada, R. Gonzalo Parra, Thierry Mora, Aleksandra M. Walczak, Diego U. Ferreiro. Inferring repeat-protein energetics from evolutionary information
0 -- 0Jim R. Potvin, Andrew J. Fuglevand. A motor unit-based model of muscle fatigue
0 -- 0Greg Wilson, Jennifer Bryan, Karen Cranston, Justin Kitzes, Lex Nederbragt, Tracy K. Teal. Good enough practices in scientific computing
0 -- 0Noga Mosheiff, Haggai Agmon, Avraham Moriel, Yoram Burak. An efficient coding theory for a dynamic trajectory predicts non-uniform allocation of entorhinal grid cells to modules
0 -- 0Moritz Augustin, Josef Ladenbauer, Fabian Baumann, Klaus Obermayer. Low-dimensional spike rate models derived from networks of adaptive integrate-and-fire neurons: Comparison and implementation
0 -- 0Daniel Durstewitz. A state space approach for piecewise-linear recurrent neural networks for identifying computational dynamics from neural measurements
0 -- 0Sebastián A. Romano, Verónica Pérez-Schuster, Adrien Jouary, Jonathan Boulanger-Weill, Alessia Candeo, Thomas Pietri, Germán Sumbre. An integrated calcium imaging processing toolbox for the analysis of neuronal population dynamics
0 -- 0David W. Rogers, Marvin A. Böttcher, Arne Traulsen, Duncan Greig. Ribosome reinitiation can explain length-dependent translation of messenger RNA
0 -- 0Christiana N. Fogg, Diane E. Kovats, Bonnie Berger. 2017 ISCB Innovator Award: Aviv Regev
0 -- 0Mattias Frånberg, Rona J. Strawbridge, Anders Hamsten, PROCARDIS consortium, Ulf de Faire, Jens Lagergren, Bengt Sennblad. Fast and general tests of genetic interaction for genome-wide association studies
0 -- 0Jens Christian Claussen, Jurgita Skieceviciene, Jun Wang, Philipp Rausch, Tom H. Karlsen, Wolfgang Lieb, John F. Baines, Andre Franke, Marc-Thorsten Hütt. Boolean analysis reveals systematic interactions among low-abundance species in the human gut microbiome
0 -- 0Andreas Kühne, Urs Mayr, Daniel C. Sévin, Manfred Claassen, Nicola Zamboni. Metabolic network segmentation: A probabilistic graphical modeling approach to identify the sites and sequential order of metabolic regulation from non-targeted metabolomics data
0 -- 0Maxwell B. Wang, Julia P. Owen, Pratik Mukherjee, Ashish Raj. Brain network eigenmodes provide a robust and compact representation of the structural connectome in health and disease
0 -- 0Hadi Maboudi, Hideaki Shimazaki, Martin Giurfa, Lars Chittka. Olfactory learning without the mushroom bodies: Spiking neural network models of the honeybee lateral antennal lobe tract reveal its capacities in odour memory tasks of varied complexities
0 -- 0Anthony R. Bradley, Alexander S. Rose, Antonín Pavelka, Yana Valasatava, Jose M. Duarte, Andreas Prlic, Peter W. Rose. MMTF - An efficient file format for the transmission, visualization, and analysis of macromolecular structures
0 -- 0Patrick Löffler, Samuel Schmitz, Enrico Hupfeld, Reinhard Sterner, Rainer Merkl. Rosetta: MSF: a modular framework for multi-state computational protein design
0 -- 0Miquel Duran-Frigola, Lydia Siragusa, Eytan Ruppin, Xavier Barril, Gabriele Cruciani, Patrick Aloy. Detecting similar binding pockets to enable systems polypharmacology
0 -- 0Aliza B. Rubenstein, Manasi A. Pethe, Sagar D. Khare. MFPred: Rapid and accurate prediction of protein-peptide recognition multispecificity using self-consistent mean field theory
0 -- 0Nargesalsadat Dorratoltaj, Achla Marathe, Bryan L. Lewis, Samarth Swarup, Stephen G. Eubank, Kaja M. Abbas. Epidemiological and economic impact of pandemic influenza in Chicago: Priorities for vaccine interventions
0 -- 0Sheng Wang, Jian Peng 0001. Network-assisted target identification for haploinsufficiency and homozygous profiling screens