Subject: PLOS Computational Biology Volume 13(10) October 2017 Content-Type: text/html; charset="utf-8" Content-Transfer-Encoding: 8bit

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New Articles in PLOS Computational Biology

PUBLISHED: October 01, 2017 to October 31, 2017

Editorials

Ten simple rules in considering a career in academia versus government

Network approaches and applications in biology

Ten simple rules for writing a response to reviewers

Education

Designing a course model for distance-based online bioinformatics training in Africa: The H3ABioNet experience

Unmet needs for analyzing biological big data: A survey of 704 NSF principal investigators

Learning infectious disease epidemiology in a modern framework

Review

Structural host-microbiota interaction networks

Research Articles

A single-cell spiking model for the origin of grid-cell patterns

A continuum-mechanical skeletal muscle model including actin-titin interaction predicts stable contractions on the descending limb of the force-length relation

Bistability, non-ergodicity, and inhibition in pairwise maximum-entropy models

Designing small universal k-mer hitting sets for improved analysis of high-throughput sequencing

Estimating time of HIV-1 infection from next-generation sequence diversity

A theoretical framework for analyzing coupled neuronal networks: Application to the olfactory system

Learning causal networks with latent variables from multivariate information in genomic data

The evolutionary origins of Lévy walk foraging

Signatures of criticality arise from random subsampling in simple population models

Identifying parameter regions for multistationarity

A unifying Bayesian account of contextual effects in value-based choice

Differential temperature sensitivity of synaptic and firing processes in a neural mass model of epileptic discharges explains heterogeneous response of experimental epilepsy to focal brain cooling

The ins and outs of vanillyl alcohol oxidase: Identification of ligand migration paths

A Bayesian approach to modelling heterogeneous calcium responses in cell populations

Inferring oscillatory modulation in neural spike trains

Object detection through search with a foveated visual system

Clonal dominance and transplantation dynamics in hematopoietic stem cell compartments

Image-based model of the spectrin cytoskeleton for red blood cell simulation

General principles of binding between cell surface receptors and multi-specific ligands: A computational study

Neural coding in the visual system of Drosophila melanogaster: How do small neural populations support visually guided behaviours?

The structured low temperature' phase of the retinal population code

Women are underrepresented in computational biology: An analysis of the scholarly literature in biology, computer science and computational biology

The role of glutamate in neuronal ion homeostasis: A case study of spreading depolarization

Identifying direct contacts between protein complex subunits from their conditional dependence in proteomics datasets

BeWith: A Between-Within method to discover relationships between cancer modules via integrated analysis of mutual exclusivity, co-occurrence and functional interactions

Incorporating networks in a probabilistic graphical model to find drivers for complex human diseases

Systematic, network-based characterization of therapeutic target inhibitors

Vicus: Exploiting local structures to improve network-based analysis of biological data

Network propagation in the cytoscape cyberinfrastructure

Clusternomics: Integrative context-dependent clustering for heterogeneous datasets

A machine learning approach for predicting CRISPR-Cas9 cleavage efficiencies and patterns underlying its mechanism of action

A quadratically regularized functional canonical correlation analysis for identifying the global structure of pleiotropy with NGS data

Analysis of temporal transcription expression profiles reveal links between protein function and developmental stages of Drosophila melanogaster

Bayesian refinement of protein structures and ensembles against SAXS data using molecular dynamics

Distinct prediction errors in mesostriatal circuits of the human brain mediate learning about the values of both states and actions: evidence from high-resolution fMRI

Seasonality in risk of pandemic influenza emergence

A deep convolutional neural network for classification of red blood cells in sickle cell anemia

Deconvolving sequence features that discriminate between overlapping regulatory annotations

Quantifying the strength of quorum sensing crosstalk within microbial communities

Machine learning to design integral membrane channelrhodopsins for efficient eukaryotic expression and plasma membrane localization

Automated deconvolution of structured mixtures from heterogeneous tumor genomic data

Diverse type 2 diabetes genetic risk factors functionally converge in a phenotype-focused gene network

Decoding brain activity using a large-scale probabilistic functional-anatomical atlas of human cognition

Scaffolding the cup-shaped double membrane in autophagy

Prediction of HIV-1 sensitivity to broadly neutralizing antibodies shows a trend towards resistance over time

Identification of immune signatures predictive of clinical protection from malaria

Neural field model to reconcile structure with function in primary visual cortex

Transcriptomic correlates of neuron electrophysiological diversity

Un-gating and allosteric modulation of a pentameric ligand-gated ion channel captured by molecular dynamics

Modeling the adenosine system as a modulator of cognitive performance and sleep patterns during sleep restriction and recovery

Dynamics and heterogeneity of brain damage in multiple sclerosis

Unified thalamic model generates multiple distinct oscillations with state-dependent entrainment by stimulation

The influence of astrocytes on the width of orientation hypercolumns in visual cortex: A computational perspective

Point process analysis of noise in early invertebrate vision

A mechanistic spatio-temporal framework for modelling individual-to-individual transmission'With an application to the 2014-2015 West Africa Ebola outbreak

Maximum entropy methods for extracting the learned features of deep neural networks

Concerted regulation of npc2 binding to endosomal/lysosomal membranes by bis(monoacylglycero)phosphate and sphingomyelin

A method to quantify mechanobiologic forces during zebrafish cardiac development using 4-D light sheet imaging and computational modeling

Correction

Correction: Spatial organization of the budding yeast genome in the cell nucleus and identification of specific chromatin interactions from multi-chromosome constrained chromatin model

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