PLOS Computational Biology

2005 - 2025

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Volume 8, issue 12, 2012

Molecular Evolution of Peptide Ligands with Custom-Tailored Characteristics for Targeting of Glycostructures pp. 1-10

Niels Röckendorf, Markus Borschbach and Andreas Frey

Reliable B Cell Epitope Predictions: Impacts of Method Development and Improved Benchmarking pp. 1-10

Jens Vindahl Kringelum, Claus Lundegaard, Ole Lund and Morten Nielsen

ACME: Automated Cell Morphology Extractor for Comprehensive Reconstruction of Cell Membranes pp. 1-14

Kishore R Mosaliganti, Ramil R Noche, Fengzhu Xiong, Ian A Swinburne and Sean G Megason

SnIPRE: Selection Inference Using a Poisson Random Effects Model pp. 1-14

Kirsten E Eilertson, James G Booth and Carlos D Bustamante

Parameter Identifiability and Sensitivity Analysis Predict Targets for Enhancement of STAT1 Activity in Pancreatic Cancer and Stellate Cells pp. 1-14

Katja Rateitschak, Felix Winter, Falko Lange, Robert Jaster and Olaf Wolkenhauer

A Comparison of Computational Models for Eukaryotic Cell Shape and Motility pp. 1-17

William R Holmes and Leah Edelstein-Keshet

Chapter 10: Mining Genome-Wide Genetic Markers pp. 1-9

Xiang Zhang, Shunping Huang, Zhaojun Zhang and Wei Wang

Computational Phenotyping of Two-Person Interactions Reveals Differential Neural Response to Depth-of-Thought pp. 1-9

Ting Xiang, Debajyoti Ray, Terry Lohrenz, Peter Dayan and P Read Montague

Chapter 2: Data-Driven View of Disease Biology pp. 1-8

Casey S Greene and Olga G Troyanskaya

Chapter 13: Mining Electronic Health Records in the Genomics Era pp. 1-15

Joshua C Denny

Chapter 9: Analyses Using Disease Ontologies pp. 1-12

Nigam H Shah, Tyler Cole and Mark A Musen

Chapter 8: Biological Knowledge Assembly and Interpretation pp. 1-12

Ju Han Kim

Novel Modeling of Combinatorial miRNA Targeting Identifies SNP with Potential Role in Bone Density pp. 1-13

Claudia Coronnello, Ryan Hartmaier, Arshi Arora, Luai Huleihel, Kusum V Pandit, Abha S Bais, Michael Butterworth, Naftali Kaminski, Gary D Stormo, Steffi Oesterreich and Panayiotis V Benos

Volume 8, issue 11, 2012

Strategy Diversity Stabilizes Mutualism through Investment Cycles, Phase Polymorphism, and Spatial Bubbles pp. 1-14

Gergely Boza, Ádám Kun, István Scheuring and Ulf Dieckmann

A Bayesian Inference Framework to Reconstruct Transmission Trees Using Epidemiological and Genetic Data pp. 1-14

Marco J Morelli, Gaël Thébaud, Joël Chadœuf, Donald P King, Daniel T Haydon and Samuel Soubeyrand

Stochastic Modeling of Expression Kinetics Identifies Messenger Half-Lives and Reveals Sequential Waves of Co-ordinated Transcription and Decay pp. 1-14

Filippo Cacace, Paola Paci, Valerio Cusimano, Alfredo Germani and Lorenzo Farina

Functional Inference of Complex Anatomical Tendinous Networks at a Macroscopic Scale via Sparse Experimentation pp. 1-17

Anupam Saxena, Hod Lipson and Francisco J Valero-Cuevas

Mesoscopic Model of Actin-Based Propulsion pp. 1-12

Jie Zhu and Alex Mogilner

A Graphical Modelling Approach to the Dissection of Highly Correlated Transcription Factor Binding Site Profiles pp. 1-13

Robert Stojnic, Audrey Qiuyan Fu and Boris Adryan

Chemotactic Migration of T Cells towards Dendritic Cells Promotes the Detection of Rare Antigens pp. 1-13

Renske M A Vroomans, Athanasius F M Marée, Rob J de Boer and Joost B Beltman

Coordinated Optimization of Visual Cortical Maps (II) Numerical Studies pp. 1-26

Lars Reichl, Dominik Heide, Siegrid Löwel, Justin C Crowley, Matthias Kaschube and Fred Wolf

Coordinated Optimization of Visual Cortical Maps (I) Symmetry-based Analysis pp. 1-24

Lars Reichl, Dominik Heide, Siegrid Löwel, Justin C Crowley, Matthias Kaschube and Fred Wolf

Internal Representations of Temporal Statistics and Feedback Calibrate Motor-Sensory Interval Timing pp. 1-19

Luigi Acerbi, Daniel M Wolpert and Sethu Vijayakumar

How Random Is Social Behaviour? Disentangling Social Complexity through the Study of a Wild House Mouse Population pp. 1-11

Nicolas Perony, Claudio J Tessone, Barbara König and Frank Schweitzer

Reconstructing Mammalian Sleep Dynamics with Data Assimilation pp. 1-15

Madineh Sedigh-Sarvestani, Steven J Schiff and Bruce J Gluckman

Ten Simple Rules to Protect Your Intellectual Property pp. 1-4

Mark Jolly, Anthony C Fletcher and Philip E Bourne

Volume 8, issue 10, 2012

A Model of Reward- and Effort-Based Optimal Decision Making and Motor Control pp. 1-13

Lionel Rigoux and Emmanuel Guigon

Analysis of Slow (Theta) Oscillations as a Potential Temporal Reference Frame for Information Coding in Sensory Cortices pp. 1-13

Christoph Kayser, Robin A A Ince and Stefano Panzeri

Evaluating the Adequacy of Gravity Models as a Description of Human Mobility for Epidemic Modelling pp. 1-12

James Truscott and Neil M Ferguson

CAVER 3.0: A Tool for the Analysis of Transport Pathways in Dynamic Protein Structures pp. 1-12

Eva Chovancova, Antonin Pavelka, Petr Benes, Ondrej Strnad, Jan Brezovsky, Barbora Kozlikova, Artur Gora, Vilem Sustr, Martin Klvana, Petr Medek, Lada Biedermannova, Jiri Sochor and Jiri Damborsky

Very Slow Search and Reach: Failure to Maximize Expected Gain in an Eye-Hand Coordination Task pp. 1-12

Hang Zhang, Camille Morvan, Louis-Alexandre Etezad-Heydari and Laurence T Maloney

Predictive Dynamics of Human Pain Perception pp. 1-12

Guillermo A Cecchi, Lejian Huang, Javeria Ali Hashmi, Marwan Baliki, María V Centeno, Irina Rish and A Vania Apkarian

Coding and Decoding with Adapting Neurons: A Population Approach to the Peri-Stimulus Time Histogram pp. 1-14

Richard Naud and Wulfram Gerstner

Estimating the Hidden Burden of Bovine Tuberculosis in Great Britain pp. 1-14

Andrew J K Conlan, Trevelyan J McKinley, Katerina Karolemeas, Ellen Brooks Pollock, Anthony V Goodchild, Andrew P Mitchell, Colin P D Birch, Richard S Clifton-Hadley and James L N Wood

Connecting Macroscopic Observables and Microscopic Assembly Events in Amyloid Formation Using Coarse Grained Simulations pp. 1-10

Noah S Bieler, Tuomas P J Knowles, Daan Frenkel and Robert Vácha

Ubiquitin Dynamics in Complexes Reveal Molecular Recognition Mechanisms Beyond Induced Fit and Conformational Selection pp. 1-10

Jan H Peters and Bert L de Groot

Probability Fluxes and Transition Paths in a Markovian Model Describing Complex Subunit Cooperativity in HCN2 Channels pp. 1-10

Klaus Benndorf, Jana Kusch and Eckhard Schulz

How Recent History Affects Perception: The Normative Approach and Its Heuristic Approximation pp. 1-10

Ofri Raviv, Merav Ahissar and Yonatan Loewenstein

Seven Years; It's Time for a Change pp. 1-2

Philip E Bourne

Spatially Pooled Contrast Responses Predict Neural and Perceptual Similarity of Naturalistic Image Categories pp. 1-16

Iris I A Groen, Sennay Ghebreab, Victor A F Lamme and H Steven Scholte

Volume 8, issue 9, 2012

Evolutionary Dynamics on Protein Bi-stability Landscapes can Potentially Resolve Adaptive Conflicts pp. 1-17

Tobias Sikosek, Erich Bornberg-Bauer and Hue Sun Chan

Substrate-Specific Reorganization of the Conformational Ensemble of CSK Implicates Novel Modes of Kinase Function pp. 1-8

Michael A Jamros, Leandro C Oliveira, Paul C Whitford, José N Onuchic, Joseph A Adams and Patricia A Jennings

Speeded Reaching Movements around Invisible Obstacles pp. 1-9

Todd E Hudson, Uta Wolfe and Laurence T Maloney

Binding of Two Intrinsically Disordered Peptides to a Multi-Specific Protein: A Combined Monte Carlo and Molecular Dynamics Study pp. 1-9

Iskra Staneva, Yongqi Huang, Zhirong Liu and Stefan Wallin

Risk-Sensitivity in Bayesian Sensorimotor Integration pp. 1-7

Jordi Grau-Moya, Pedro A Ortega and Daniel A Braun

Correlated Electrostatic Mutations Provide a Reservoir of Stability in HIV Protease pp. 1-10

Omar Haq, Michael Andrec, Alexandre V Morozov and Ronald M Levy

High-throughput Computer Method for 3D Neuronal Structure Reconstruction from the Image Stack of the Drosophila Brain and Its Applications pp. 1-12

Ping-Chang Lee, Chao-Chun Chuang, Ann-Shyn Chiang and Yu-Tai Ching

Spike-based Decision Learning of Nash Equilibria in Two-Player Games pp. 1-12

Johannes Friedrich and Walter Senn

Dependencies among Editing Sites in Serotonin 2C Receptor mRNA pp. 1-13

Liran Carmel, Eugene V Koonin and Stella Dracheva

Spike-Timing Dependence of Structural Plasticity Explains Cooperative Synapse Formation in the Neocortex pp. 1-13

Moritz Deger, Moritz Helias, Stefan Rotter and Markus Diesmann

Predicting the Extension of Biomedical Ontologies pp. 1-16

Catia Pesquita and Francisco M Couto

Why Open Drug Discovery Needs Four Simple Rules for Licensing Data and Models pp. 1-3

Antony J Williams, John Wilbanks and Sean Ekins

Ten Simple Rules To Commercialize Scientific Research pp. 1-3

Anthony C Fletcher and Philip E Bourne

Volume 8, issue 8, 2012

Evolutionary Dynamics of Strategic Behavior in a Collective-Risk Dilemma pp. 1-7

Maria Abou Chakra and Arne Traulsen

Hybrid Models and Biological Model Reduction with PyDSTool pp. 1-8

Robert Clewley

A Topological Paradigm for Hippocampal Spatial Map Formation Using Persistent Homology pp. 1-14

Y Dabaghian, F Mémoli, L Frank and G Carlsson

The Landscape of the Prion Protein's Structural Response to Mutation Revealed by Principal Component Analysis of Multiple NMR Ensembles pp. 1-14

Deena M A Gendoo and Paul M Harrison

Locust Dynamics: Behavioral Phase Change and Swarming pp. 1-11

Chad M Topaz, Maria R D'Orsogna, Leah Edelstein-Keshet and Andrew J Bernoff

Decorrelation of Neural-Network Activity by Inhibitory Feedback pp. 1-29

Tom Tetzlaff, Moritz Helias, Gaute T Einevoll and Markus Diesmann

The Roots of Bioinformatics in ISMB pp. 1-10

Todd A Gibson

Unifying Time to Contact Estimation and Collision Avoidance across Species pp. 1-1

Matthias S Keil and Joan López-Moliner

Design and Implementation of a Genomics Field Trip Program Aimed at Secondary School Students pp. 1-1

Jennifer McQueen, Jody J Wright and Joanne A Fox

A Network-based Approach for Predicting Missing Pathway Interactions pp. 1-13

Saket Navlakha, Anthony Gitter and Ziv Bar-Joseph

Combining the Finite Element Method with Structural Connectome-based Analysis for Modeling Neurotrauma: Connectome Neurotrauma Mechanics pp. 1-15

Reuben H Kraft, Phillip Justin Mckee, Amy M Dagro and Scott T Grafton

Volume 8, issue 7, 2012

Which of Our Modeling Predictions Are Robust? pp. 1-5

Rob J De Boer

Coding Conspecific Identity and Motion in the Electric Sense pp. 1-16

Na Yu, Ginette Hupé, Charles Garfinkle, John E Lewis and André Longtin

Efficiency and Power as a Function of Sequence Coverage, SNP Array Density, and Imputation pp. 1-13

Jason Flannick, Joshua M Korn, Pierre Fontanillas, George B Grant, Eric Banks, Mark A Depristo and David Altshuler

Spectral Analysis of Input Spike Trains by Spike-Timing-Dependent Plasticity pp. 1-22

Matthieu Gilson, Tomoki Fukai and Anthony N Burkitt

Genome-Wide Localization of Protein-DNA Binding and Histone Modification by a Bayesian Change-Point Method with ChIP-seq Data pp. 1-12

Haipeng Xing, Yifan Mo, Will Liao and Michael Q Zhang

Assessing Drug Target Association Using Semantic Linked Data pp. 1-10

Bin Chen, Ying Ding and David J Wild

A Preformed Binding Interface in the Unbound Ensemble of an Intrinsically Disordered Protein: Evidence from Molecular Simulations pp. 1-10

Michael Knott and Robert B Best

Network-Assisted Investigation of Combined Causal Signals from Genome-Wide Association Studies in Schizophrenia pp. 1-11

Peilin Jia, Lily Wang, Ayman H Fanous, Carlos N Pato, Todd L Edwards, The International Schizophrenia Consortium and Zhongming Zhao

Why SIT Works: Normal Function Despite Typical Myofiber Pattern in Situs Inversus Totalis (SIT) Hearts Derived by Shear-induced Myofiber Reorientation pp. 1-11

Marieke Pluijmert, Wilco Kroon, Alessandro C Rossi, Peter H M Bovendeerd and Tammo Delhaas

Modular Design of Artificial Tissue Homeostasis: Robust Control through Synthetic Cellular Heterogeneity pp. 1-18

Miles Miller, Marc Hafner, Eduardo Sontag, Noah Davidsohn, Sairam Subramanian, Priscilla E M Purnick, Douglas Lauffenburger and Ron Weiss

Automated Tracking of Whiskers in Videos of Head Fixed Rodents pp. 1-8

Nathan G Clack, Daniel H O'Connor, Daniel Huber, Leopoldo Petreanu, Andrew Hires, Simon Peron, Karel Svoboda and Eugene W Myers

Volume 8, issue 6, 2012

MC EMiNEM Maps the Interaction Landscape of the Mediator pp. 1-10

Theresa Niederberger, Stefanie Etzold, Michael Lidschreiber, Kerstin C Maier, Dietmar E Martin, Holger Fröhlich, Patrick Cramer and Achim Tresch

A Report of the Curriculum Task Force of the ISCB Education Committee pp. 1-2

Lonnie R Welch, Russell Schwartz and Fran Lewitter

Charge Profile Analysis Reveals That Activation of Pro-apoptotic Regulators Bax and Bak Relies on Charge Transfer Mediated Allosteric Regulation pp. 1-11

Crina-Maria Ionescu, Radka Svobodová Vařeková, Jochen H M Prehn, Heinrich J Huber and Jaroslav Koča

Short Term Synaptic Depression Imposes a Frequency Dependent Filter on Synaptic Information Transfer pp. 1-18

Robert Rosenbaum, Jonathan Rubin and Brent Doiron

Deceleration of Fusion–Fission Cycles Improves Mitochondrial Quality Control during Aging pp. 1-18

Marc Thilo Figge, Andreas S Reichert, Michael Meyer-Hermann and Heinz D Osiewacz

Modeling Boundary Vector Cell Firing Given Optic Flow as a Cue pp. 1-17

Florian Raudies and Michael E Hasselmo

Fast Spatiotemporal Smoothing of Calcium Measurements in Dendritic Trees pp. 1-17

Eftychios A Pnevmatikakis, Keith Kelleher, Rebecca Chen, Petter Saggau, Krešimir Josić and Liam Paninski

Protein Scaffolds Can Enhance the Bistability of Multisite Phosphorylation Systems pp. 1-9

Carlo Chan, Xinfeng Liu, Liming Wang, Lee Bardwell, Qing Nie and Germán Enciso

A Model-Based Bayesian Estimation of the Rate of Evolution of VNTR Loci in Mycobacterium tuberculosis pp. 1-9

R Zachariah Aandahl, Josephine F Reyes, Scott A Sisson and Mark M Tanaka

Fast Coding of Orientation in Primary Visual Cortex pp. 1-16

Oren Shriki, Adam Kohn and Maoz Shamir

Posterior Association Networks and Functional Modules Inferred from Rich Phenotypes of Gene Perturbations pp. 1-16

Xin Wang, Mauro A Castro, Klaas W Mulder and Florian Markowetz

The Role of Non-Native Interactions in the Folding of Knotted Proteins pp. 1-12

Tatjana Škrbić, Cristian Micheletti and Pietro Faccioli

Structural Drift: The Population Dynamics of Sequential Learning pp. 1-12

James P Crutchfield and Sean Whalen

A Maximum Entropy Test for Evaluating Higher-Order Correlations in Spike Counts pp. 1-12

Arno Onken, Valentin Dragoi and Klaus Obermayer

A Scalable Algorithm to Explore the Gibbs Energy Landscape of Genome-Scale Metabolic Networks pp. 1-12

Daniele De Martino, Matteo Figliuzzi, Andrea De Martino and Enzo Marinari

Volume 8, issue 5, 2012

A Spatial Model of Mosquito Host-Seeking Behavior pp. 1-13

Bree Cummins, Ricardo Cortez, Ivo M Foppa, Justin Walbeck and James M Hyman

Optimality of Human Contour Integration pp. 1-17

Udo A Ernst, Sunita Mandon, Nadja Schinkel–Bielefeld, Simon D Neitzel, Andreas K Kreiter and Klaus R Pawelzik

Crossing Over…Markov Meets Mendel pp. 1-12

Saad Mneimneh

Exploring Massive, Genome Scale Datasets with the GenometriCorr Package pp. 1-12

Alexander Favorov, Loris Mularoni, Leslie M Cope, Yulia Medvedeva, Andrey A Mironov, Vsevolod J Makeev and Sarah J Wheelan

Measuring Granger Causality between Cortical Regions from Voxelwise fMRI BOLD Signals with LASSO pp. 1-14

Wei Tang, Steven L Bressler, Chad M Sylvester, Gordon L Shulman and Maurizio Corbetta

Intermittent Motion in Desert Locusts: Behavioural Complexity in Simple Environments pp. 1-10

Sepideh Bazazi, Frederic Bartumeus, Joseph J Hale and Iain D Couzin

Resolving the Ortholog Conjecture: Orthologs Tend to Be Weakly, but Significantly, More Similar in Function than Paralogs pp. 1-10

Adrian M Altenhoff, Romain A Studer, Marc Robinson-Rechavi and Christophe Dessimoz

Optimal Control of Saccades by Spatial-Temporal Activity Patterns in the Monkey Superior Colliculus pp. 1-18

H H L M Goossens and A J van Opstal

Volume 8, issue 4, 2012

Evolutionary Game Theory and Social Learning Can Determine How Vaccine Scares Unfold pp. 1-12

Chris T Bauch and Samit Bhattacharyya

Optimizing Provider Recruitment for Influenza Surveillance Networks pp. 1-12

Samuel V Scarpino, Nedialko B Dimitrov and Lauren Ancel Meyers

Computational Design of a PDZ Domain Peptide Inhibitor that Rescues CFTR Activity pp. 1-12

Kyle E Roberts, Patrick R Cushing, Prisca Boisguerin, Dean R Madden and Bruce R Donald

Tension and Robustness in Multitasking Cellular Networks pp. 1-12

Jeffrey V Wong, Bochong Li and Lingchong You

Exploring the Contextual Sensitivity of Factors that Determine Cell-to-Cell Variability in Receptor-Mediated Apoptosis pp. 1-15

Suzanne Gaudet, Sabrina L Spencer, William W Chen and Peter K Sorger

Predictive Features of Persistent Activity Emergence in Regular Spiking and Intrinsic Bursting Model Neurons pp. 1-15

Kyriaki Sidiropoulou and Panayiota Poirazi

Geometric Theory Predicts Bifurcations in Minimal Wiring Cost Trees in Biology Are Flat pp. 1-7

Yihwa Kim, Robert Sinclair, Nol Chindapol, Jaap A Kaandorp and Erik De Schutter

Parameters in Dynamic Models of Complex Traits are Containers of Missing Heritability pp. 1-9

Yunpeng Wang, Arne B Gjuvsland, Jon Olav Vik, Nicolas P Smith, Peter J Hunter and Stig W Omholt

Optimization of Muscle Activity for Task-Level Goals Predicts Complex Changes in Limb Forces across Biomechanical Contexts pp. 1-17

J Lucas McKay and Lena H Ting

Power-Law Inter-Spike Interval Distributions Infer a Conditional Maximization of Entropy in Cortical Neurons pp. 1-11

Yasuhiro Tsubo, Yoshikazu Isomura and Tomoki Fukai

Storage of Correlated Patterns in Standard and Bistable Purkinje Cell Models pp. 1-10

Claudia Clopath, Jean-Pierre Nadal and Nicolas Brunel

Theoretical Analysis of Competing Conformational Transitions in Superhelical DNA pp. 1-21

Dina Zhabinskaya and Craig J Benham

Are Long-Range Structural Correlations Behind the Aggregration Phenomena of Polyglutamine Diseases? pp. 1-1

Mahmoud Moradi, Volodymyr Babin, Christopher Roland and Celeste Sagui

Volume 8, issue 3, 2012

Highly Sensitive and Specific Detection of Rare Variants in Mixed Viral Populations from Massively Parallel Sequence Data pp. 1-10

Alexander R Macalalad, Michael C Zody, Patrick Charlebois, Niall J Lennon, Ruchi M Newman, Christine M Malboeuf, Elizabeth M Ryan, Christian L Boutwell, Karen A Power, Doug E Brackney, Kendra N Pesko, Joshua Z Levin, Gregory D Ebel, Todd M Allen, Bruce W Birren and Matthew R Henn

Traffic Instabilities in Self-Organized Pedestrian Crowds pp. 1-10

Mehdi Moussaïd, Elsa G Guillot, Mathieu Moreau, Jérôme Fehrenbach, Olivier Chabiron, Samuel Lemercier, Julien Pettré, Cécile Appert-Rolland, Pierre Degond and Guy Theraulaz

A Self-Organizing State-Space-Model Approach for Parameter Estimation in Hodgkin-Huxley-Type Models of Single Neurons pp. 1-1

Dimitrios V Vavoulis, Volko A Straub, John A D Aston and Jianfeng Feng

Cortical Surround Interactions and Perceptual Salience via Natural Scene Statistics pp. 1-18

Ruben Coen-Cagli, Peter Dayan and Odelia Schwartz

State-Space Analysis of Time-Varying Higher-Order Spike Correlation for Multiple Neural Spike Train Data pp. 1-27

Hideaki Shimazaki, Shun-ichi Amari, Emery N Brown and Sonja Grün

Efficient Sparse Coding in Early Sensory Processing: Lessons from Signal Recovery pp. 1-14

András Lörincz, Zsolt Palotai and Gábor Szirtes

Uncovering the Dynamics of Cardiac Systems Using Stochastic Pacing and Frequency Domain Analyses pp. 1-14

Mathieu Lemay, Enno de Lange and Jan P Kucera

Ten Simple Rules for Starting a Company pp. 1-3

Anthony C Fletcher and Philip E Bourne

Impact of Network Structure and Cellular Response on Spike Time Correlations pp. 1-15

James Trousdale, Yu Hu, Eric Shea-Brown and Krešimir Josić

Feedforward Inhibition and Synaptic Scaling – Two Sides of the Same Coin? pp. 1-15

Christian Keck, Cristina Savin and Jörg Lücke

Ensemble Models of Neutrophil Trafficking in Severe Sepsis pp. 1-16

Sang O K Song, Justin Hogg, Zhi-Yong Peng, Robert Parker, John A Kellum and Gilles Clermont

Volume 8, issue 2, 2012

Multi-Scale Modeling of HIV Infection in vitro and APOBEC3G-Based Anti-Retroviral Therapy pp. 1-17

Iraj Hosseini and Feilim Mac Gabhann

Human Visual Search Does Not Maximize the Post-Saccadic Probability of Identifying Targets pp. 1-11

Camille Morvan and Laurence T Maloney

Joint Analysis of Multiple Metagenomic Samples pp. 1-11

Yael Baran and Eran Halperin

Integrating Flux Balance Analysis into Kinetic Models to Decipher the Dynamic Metabolism of Shewanella oneidensis MR-1 pp. 1-11

Xueyang Feng, You Xu, Yixin Chen and Yinjie J Tang

Comparison of Insertional RNA Editing in Myxomycetes pp. 1-11

Cai Chen, David Frankhouser and Ralf Bundschuh

Paradoxical Evidence Integration in Rapid Decision Processes pp. 1-10

Johannes Rüter, Nicolas Marcille, Henning Sprekeler, Wulfram Gerstner and Michael H Herzog

Use It and Improve It or Lose It: Interactions between Arm Function and Use in Humans Post-stroke pp. 1-13

Yukikazu Hidaka, Cheol E Han, Steven L Wolf, Carolee J Winstein and Nicolas Schweighofer

Stochastic De-repression of Rhodopsins in Single Photoreceptors of the Fly Retina pp. 1-13

Pranidhi Sood, Robert J Johnston and Edo Kussell

Robust Detection of Hierarchical Communities from Escherichia coli Gene Expression Data pp. 1-15

Santiago Treviño, Yudong Sun, Tim F Cooper and Kevin E Bassler

Volume 8, issue 1, 2012

Parsimonious Higher-Order Hidden Markov Models for Improved Array-CGH Analysis with Applications to Arabidopsis thaliana pp. 1-15

Michael Seifert, André Gohr, Marc Strickert and Ivo Grosse

Protein Design Using Continuous Rotamers pp. 1-15

Pablo Gainza, Kyle E Roberts and Bruce R Donald

A Dynamic View of Domain-Motif Interactions pp. 1-13

Eyal Akiva, Gilgi Friedlander, Zohar Itzhaki and Hanah Margalit

Kinetic Rate Constant Prediction Supports the Conformational Selection Mechanism of Protein Binding pp. 1-13

Iain H Moal and Paul A Bates

Multi-scale Inference of Interaction Rules in Animal Groups Using Bayesian Model Selection pp. 1-12

Richard P Mann, Andrea Perna, Daniel Strömbom, Roman Garnett, James E Herbert-Read, David J T Sumpter and Ashley J W Ward

Macro-level Modeling of the Response of C. elegans Reproduction to Chronic Heat Stress pp. 1-12

Patrick D McMullen, Erin Z Aprison, Peter B Winter, Luis A N Amaral, Richard I Morimoto and Ilya Ruvinsky

Dynamic Modelling under Uncertainty: The Case of Trypanosoma brucei Energy Metabolism pp. 1-11

Fiona Achcar, Eduard J Kerkhoven, The SilicoTryp Consortium, Barbara M Bakker, Michael P Barrett and Rainer Breitling

Joint Modelling of Confounding Factors and Prominent Genetic Regulators Provides Increased Accuracy in Genetical Genomics Studies pp. 1-9

Nicoló Fusi, Oliver Stegle and Neil D Lawrence

Failure of Adaptive Self-Organized Criticality during Epileptic Seizure Attacks pp. 1-8

Christian Meisel, Alexander Storch, Susanne Hallmeyer-Elgner, Ed Bullmore and Thilo Gross

Adjusting Phenotypes by Noise Control pp. 1-14

Kyung H Kim and Herbert M Sauro

Prediction by Promoter Logic in Bacterial Quorum Sensing pp. 1-14

Navneet Rai, Rajat Anand, Krishna Ramkumar, Varun Sreenivasan, Sugat Dabholkar, K V Venkatesh and Mukund Thattai