Terkko Navigator / PLoS Computational Biology

CRBPDL: Identification of circRNA-RBP interaction sites using an ensemble neural network approach

Fine-scale estimation of effective reproduction numbers for dengue surveillance

Bringing bioinformatics to schools with the 4273pi project

Use of Raman and Raman optical activity to extract atomistic details of saccharides in aqueous solution

Extended ensemble simulations of a SARS-CoV-2 nsp1–5’-UTR complex

Evolution enhances mutational robustness and suppresses the emergence of a new phenotype: A new computational approach for studying evolution

DeLTA 2.0: A deep learning pipeline for quantifying single-cell spatial and temporal dynamics

Characterizing non-exponential growth and bimodal cell size distributions in fission yeast: An analytical approach

Simulated poaching affects global connectivity and efficiency in social networks of African savanna elephants—An exemplar of how human disturbance impacts group-living species

Ictal wavefront propagation in slices and simulations with conductance-based refractory density model

Full scale structural, mechanical and dynamical properties of HIV-1 liposomes

Longitudinally monitored immune biomarkers predict the timing of COVID-19 outcomes

Ultrafast population coding and axo-somatic compartmentalization

Diversity of synaptic protein complexes as a function of the abundance of their constituent proteins: A modeling approach

Controlling gene expression timing through gene regulatory architecture

The evolutionary maintenance of Lévy flight foraging

A deep generative model of 3D single-cell organization

Data-driven modeling predicts gene regulatory network dynamics during the differentiation of multipotential hematopoietic progenitors

Computable early <i>Caenorhabditis elegans</i> embryo with a phase field model

A Bayesian approach to modeling phytoplankton population dynamics from size distribution time series

Identification of periodic attractors in Boolean networks using <i>a priori</i> information

An initial‘snapshot’ of sensory information biases the likelihood and speed of subsequent changes of mind

Using population-specific add-on polymorphisms to improve genotype imputation in underrepresented populations

Dominating lengthscales of zebrafish collective behaviour

Hybrid simulation modelling of networks of heterogeneous care homes and the inter-facility spread of Covid-19 by sharing staff

Optimism and pessimism in optimised replay

Robust dynamic experiments for the precise estimation of respiration and fermentation parameters of fruit and vegetables

The activity of human enhancers is modulated by the splicing of their associated lncRNAs

Correction: StanDep: Capturing transcriptomic variability improves context-specific metabolic models

Self-organization of collective escape in pigeon flocks

Asymmetries around the visual field: From retina to cortex to behavior

Profiling transcription factor activity dynamics using intronic reads in time-series transcriptome data

Molecular basis of Arginine and Lysine DNA sequence-dependent thermo-stability modulation

Interpretable machine learning for high-dimensional trajectories of aging health

A lexical approach for identifying behavioural action sequences

Increasing neural network robustness improves match to macaque V1 eigenspectrum, spatial frequency preference and predictivity

Ten simple rules for researchers who want to develop web apps

Beyond advertising: New infrastructures for publishing integrated research objects

Correction: SDImpute: A statistical block imputation method based on cell-level and gene-level information for dropouts in single-cell RNA-seq data

OperonSEQer: A set of machine-learning algorithms with threshold voting for detection of operon pairs using short-read RNA-sequencing data

Computational investigation of blood cell transport in retinal microaneurysms

Microsimulation based quantitative analysis of COVID-19 management strategies

Formation, collective motion, and merging of macroscopic bacterial aggregates

Decision prioritization and causal reasoning in decision hierarchies

Epidemiological and ecological consequences of virus manipulation of host and vector in plant virus transmission

Realistic retinal modeling unravels the differential role of excitation and inhibition to starburst amacrine cells in direction selectivity

When shared concept cells support associations: Theory of overlapping memory engrams

Unsupervised discovery of dynamic cell phenotypic states from transmitted light movies

The automatic parameter-exploration with a machine-learning-like approach: Powering the evolutionary modeling on the origin of life

The quantitative basis for the redistribution of immobile bacterial lipoproteins to division septa