yusuke1997/dblp-id-title huggingface dataset:
Deep-sequencing of viral genomes from a large and diverse cohort of treatment-naive HIV-infected persons shows associations between intrahost genetic diversity and viral load
A model for time interval learning in the Purkinje cell
Computational studies reveal structural characterization and novel families of Puccinia striiformis f. sp. tritici effectors
Structure and Dynamics of Interphase Chromosomes
Modelling the structures of frameshift-stimulatory pseudoknots from representative bat coronaviruses
Disproportionate impacts of COVID-19 in a large US city
Pre-existing resistance in the latent reservoir can compromise VRC01 therapy during chronic HIV-1 infection
Embodied Choice: How Action Influences Perceptual Decision Making
Split Histidine Kinases Enable Ultrasensitivity and Bistability in Two-Component Signaling Networks
Functional analysis of Rossmann-like domains reveals convergent evolution of topology and reaction pathways
A Third Measure-Metastable State in the Dynamics of Spontaneous Shape Change in Healthy Human's White Cells
A computational algorithm for optimal design of a bioartificial organ scaffold architecture
Covasim: An agent-based model of COVID-19 dynamics and interventions
On variational solutions for whole brain serial-section histology using a Sobolev prior in the computational anatomy random orbit model
A Hepatitis C Virus Infection Model with Time-Varying Drug Effectiveness: Solution and Analysis
How distinct sources of nuisance variability in natural images and scenes limit human stereopsis
Dynamical Localization of DivL and PleC in the Asymmetric Division Cycle of Caulobacter crescentus : A Theoretical Investigation of Alternative Models
A View from the Dark Side
Wide range of metabolic adaptations to the acquisition of the Calvin cycle revealed by comparison of microbial genomes
Randomness as a driver of inactivity in social groups
A hierarchical sparse coding model predicts acoustic feature encoding in both auditory midbrain and cortex
In heart failure reactivation of RNA-binding proteins is associated with the expression of 1, 523 fetal-specific isoforms
A novel single-cell based method for breast cancer prognosis
Assessing microbiome engraftment extent following fecal microbiota transplant with q2-fmt
Stability criteria for the consumption and exchange of essential resources
Dynamical mean-field theory for a highly heterogeneous neural population with graded persistent activity of the entorhinal cortex
A method of determining where to target surveillance efforts in heterogeneous epidemiological systems
Human Dominant Disease Genes Are Enriched in Paralogs Originating from Whole Genome Duplication
Cannabinoids disrupt memory encoding by functionally isolating hippocampal CA1 from CA3
Disentangled deep generative models reveal coding principles of the human face processing network
Seasonality in risk of pandemic influenza emergence
The spectrum of covariance matrices of randomly connected recurrent neuronal networks with linear dynamics
The relative contribution of color and material in object selection
Mechanistic model for human brain metabolism and its connection to the neurovascular coupling
Robust Detection of Hierarchical Communities from Escherichia coli Gene Expression Data
Metaproteomics as a tool for studying the protein landscape of human-gut bacterial species
Reduced Lateral Mobility of Lipids and Proteins in Crowded Membranes
Spatial and temporal heterogeneity alter the cost of plasticity in Pristionchus pacificus
Multi-view clustering by CPS-merge analysis with application to multimodal single-cell data
Predicting gene regulatory interactions based on spatial gene expression data and deep learning
Selective recruitment of cortical neurons by electrical stimulation
Spatially Distributed Dendritic Resonance Selectively Filters Synaptic Input
Nitric Oxide Regulates Input Specificity of Long-Term Depression and Context Dependence of Cerebellar Learning
Dysfunctions of the basal ganglia-cerebellar-thalamo-cortical system produce motor tics in Tourette syndrome
Systematic Prediction of Scaffold Proteins Reveals New Design Principles in Scaffold-Mediated Signal Transduction
External mechanical loading overrules cell-cell mechanical communication in sprouting angiogenesis during early bone regeneration
Stochastic model of IP3-induced Ca2+ spiking of HEK293 cells
The Timing and Targeting of Treatment in Influenza Pandemics Influences the Emergence of Resistance in Structured Populations
Digital Epidemiology
The shape of cancer relapse: Topological data analysis predicts recurrence in paediatric acute lymphoblastic leukaemia
A mechanism for bistability in glycosylation
Interaction between decision-making and motor learning when selecting reach targets in the presence of bias and noise
Epidemiological and economic impact of pandemic influenza in Chicago: Priorities for vaccine interventions
Inference of Ancestral Recombination Graphs through Topological Data Analysis
Quantitative Dynamics of Telomere Bouquet Formation
A Likelihood Approach for Real-Time Calibration of Stochastic Compartmental Epidemic Models
Optimal Information Representation and Criticality in an Adaptive Sensory Recurrent Neuronal Network
Mathematical modeling of plant cell fate transitions controlled by hormonal signals
Cheminformatics-aided discovery of small-molecule Protein-Protein Interaction (PPI) dual inhibitors of Tumor Necrosis Factor (TNF) and Receptor Activator of NF-κB Ligand (RANKL)
Cholinergic modulation supports dynamic switching of resting state networks through selective DMN suppression
Systems biology reveals how altered TGFβ signalling with age reduces protection against pro-inflammatory stimuli
Barking up the right tree: Immune checkpoint signatures of human and dog cancers
Data-based stochastic modeling reveals sources of activity bursts in single-cell TGF-β signaling
Mathematical reconstruction of the metabolic network in an in-vitro multiple myeloma model
Modeling microbial cross-feeding at intermediate scale portrays community dynamics and species coexistence
The Generation of Promoter-Mediated Transcriptional Noise in Bacteria
Forecasting of influenza activity and associated hospital admission burden and estimating the impact of COVID-19 pandemic on 2019/20 winter season in Hong Kong
MPLasso: Inferring microbial association networks using prior microbial knowledge
Irradiation of Neurons with High-Energy Charged Particles: An In Silico Modeling Approach
Literature Mining for the Discovery of Hidden Connections between Drugs, Genes and Diseases
Correction: Evaluating epidemic forecasts in an interval format
Predicting Spatial and Temporal Gene Expression Using an Integrative Model of Transcription Factor Occupancy and Chromatin State
Multi-timescale Modeling of Activity-Dependent Metabolic Coupling in the Neuron-Glia-Vasculature Ensemble
Modeling Boundary Vector Cell Firing Given Optic Flow as a Cue
Modelling Growth and Form of the Scleractinian Coral Pocillopora verrucosa and the Influence of Hydrodynamics
High-performing neural network models of visual cortex benefit from high latent dimensionality
A framework for macroscopic phase-resetting curves for generalised spiking neural networks
Modeling functional cell types in spike train data
Sparse Coding Models Can Exhibit Decreasing Sparseness while Learning Sparse Codes for Natural Images
Distinguishing excess mutations and increased cell death based on variant allele frequencies
gmxapi: A GROMACS-native Python interface for molecular dynamics with ensemble and plugin support
A Comparison of Computational Models for Eukaryotic Cell Shape and Motility
High Resolution Genome Wide Binding Event Finding and Motif Discovery Reveals Transcription Factor Spatial Binding Constraints
Ribosome Traffic on mRNAs Maps to Gene Ontology: Genome-wide Quantification of Translation Initiation Rates and Polysome Size Regulation
Roles for Coincidence Detection in Coding Amplitude-Modulated Sounds
Genetic grouping of SARS-CoV-2 coronavirus sequences using informative subtype markers for pandemic spread visualization
Detecting DNA Modifications from SMRT Sequencing Data by Modeling Sequence Context Dependence of Polymerase Kinetic
Transcriptomic entropy benchmarks stem cell-derived cardiomyocyte maturation against endogenous tissue at single cell level
Ten Simple Rules for Building and Maintaining a Scientific Reputation
Fine-scale diversity of microbial communities due to satellite niches in boom and bust environments
Accurate influenza forecasts using type-specific incidence data for small geographic units
Removing direct photocurrent artifacts in optogenetic connectivity mapping data via constrained matrix factorization
Cell-Sorting at the A/P Boundary in the Drosophila Wing Primordium: A Computational Model to Consolidate Observed Non-Local Effects of Hh Signaling
Filter-based models of suppression in retinal ganglion cells: Comparison and generalization across species and stimuli
Identification and Analysis of Genes and Pseudogenes within Duplicated Regions in the Human and Mouse Genomes
Quantifying biochemical reaction rates from static population variability within incompletely observed complex networks
Competition and cooperation: The plasticity of bacterial interactions across environments
Conformational Changes in Talin on Binding to Anionic Phospholipid Membranes Facilitate Signaling by Integrin Transmembrane Helices
If you don't let it in, you don't have to get it out: Thought preemption as a method to control unwanted thoughts
Achieving stable dynamics in neural circuits
A Division in PIN-Mediated Auxin Patterning during Organ Initiation in Grasses
A computational framework to assess genome-wide distribution of polymorphic human endogenous retrovirus-K In human populations
Rotation of sex combs in Drosophila melanogaster requires precise and coordinated spatio-temporal dynamics from forces generated by epithelial cells
The drift diffusion model as the choice rule in inter-temporal and risky choice: A case study in medial orbitofrontal cortex lesion patients and controls
Brain-state invariant thalamo-cortical coordination revealed by non-linear encoders
PaIRKAT: A pathway integrated regression-based kernel association test with applications to metabolomics and COPD phenotypes
Resolving the Ortholog Conjecture: Orthologs Tend to Be Weakly, but Significantly, More Similar in Function than Paralogs
The Effects of NMDA Subunit Composition on Calcium Influx and Spike Timing-Dependent Plasticity in Striatal Medium Spiny Neurons
Deploying digital health data to optimize influenza surveillance at national and local scales
A variational autoencoder trained with priors from canonical pathways increases the interpretability of transcriptome data
Patient-specific modeling of individual sickle cell behavior under transient hypoxia
Unraveling Adaptation in Eukaryotic Pathways: Lessons from Protocells
Inversion of the Balance between Hydrophobic and Hydrogen Bonding Interactions in Protein Folding and Aggregation
Implications for human odor sensing revealed from the statistics of odorant-receptor interactions
An Expanded Notch-Delta Model Exhibiting Long-Range Patterning and Incorporating MicroRNA Regulation
A Threading-Based Method for the Prediction of DNA-Binding Proteins with Application to the Human Genome
Bacteria Modulate the CD8+ T Cell Epitope Repertoire of Host Cytosol-Exposed Proteins to Manipulate the Host Immune Response
Exploring the miRNA Regulatory Network Using Evolutionary Correlations
Ligands binding diffusively to protein target act as inhibitors of protein-protein interactions
Comparative Analysis of RNA Families Reveals Distinct Repertoires for Each Domain of Life
Dose-response relationships for environmentally mediated infectious disease transmission models
Agent-based modeling of the central amygdala and pain using cell-type specific physiological parameters
Correction: Including population and environmental dynamic heterogeneities in continuum models of collective behaviour with applications to locust foraging and group structure
Graded, Dynamically Routable Information Processing with Synfire-Gated Synfire Chains
Computational design of novel Cas9 PAM-interacting domains using evolution-based modelling and structural quality assessment
Constructing functional models from biophysically-detailed neurons
Osteoprotegerin in Bone Metastases: Mathematical Solution to the Puzzle
Polyglutamine Induced Misfolding of Huntingtin Exon1 is Modulated by the Flanking Sequences
How evolution learns to generalise: Using the principles of learning theory to understand the evolution of developmental organisation
Are Long-Range Structural Correlations Behind the Aggregration Phenomena of Polyglutamine Diseases?
Inferring Developmental Stage Composition from Gene Expression in Human Malaria
Dimeric allostery mechanism of the plant circadian clock photoreceptor ZEITLUPE
Modeling the effects of motivation on choice and learning in the basal ganglia
Predicting Network Activity from High Throughput Metabolomics
PoCos: Population Covering Locus Sets for Risk Assessment in Complex Diseases
Multi-level Modeling of Light-Induced Stomatal Opening Offers New Insights into Its Regulation by Drought
Dynamic Correlation between Intrahost HIV-1 Quasispecies Evolution and Disease Progression
Optimal Sampling Strategies for Detecting Zoonotic Disease Epidemics
Combination therapeutics of Nilotinib and radiation in acute lymphoblastic leukemia as an effective method against drug-resistance
Discovery and Annotation of Functional Chromatin Signatures in the Human Genome
Computational multiplex panel reduction to maximize information retention in breast cancer tissue microarrays
The osteogenetic activities of mesenchymal stem cells in response to Mg2+ ions and inflammatory cytokines: a numerical approach using fuzzy logic controllers
Ensemble modeling of auditory streaming reveals potential sources of bistability across the perceptual hierarchy
Spatially resolved in silico modeling of NKG2D signaling kinetics suggests a key role of NKG2D and Vav1 Co-clustering in generating natural killer cell activation
The Binding of Learning to Action in Motor Adaptation
Quantifying the Value of Perfect Information in Emergency Vaccination Campaigns
pyActigraphy: Open-source python package for actigraphy data visualization and analysis
Community-level impacts of spatial repellents for control of diseases vectored by Aedes aegypti mosquitoes
3-D Visualization of Atlantic salmon skin through Ultrasound and Photoacoustic Microscopy
Residual Structures, Conformational Fluctuations, and Electrostatic Interactions in the Synergistic Folding of Two Intrinsically Disordered Proteins
Dynamic optimization reveals alveolar epithelial cells as key mediators of host defense in invasive aspergillosis
Implications of Behavioral Architecture for the Evolution of Self-Organized Division of Labor
The Formation of Multi-synaptic Connections by the Interaction of Synaptic and Structural Plasticity and Their Functional Consequences
Integrated computational and Drosophila cancer model platform captures previously unappreciated chemicals perturbing a kinase network
Using machine learning and big data to explore the drug resistance landscape in HIV
Buffering Mechanisms in Aging: A Systems Approach Toward Uncovering the Genetic Component of Aging
Learning from Sensory and Reward Prediction Errors during Motor Adaptation
Biological complexity facilitates tuning of the neuronal parameter space
An educational guide for nanopore sequencing in the classroom
BeadArray Expression Analysis Using Bioconductor
Dynamics of Cell Ensembles on Adhesive Micropatterns: Bridging the Gap between Single Cell Spreading and Collective Cell Migration
Data-driven learning of structure augments quantitative prediction of biological responses
Feedforward Inhibition and Synaptic Scaling - Two Sides of the Same Coin?
Mapping the Pareto Optimal Design Space for a Functionally Deimmunized Biotherapeutic Candidate
Revealing a Two-Loop Transcriptional Feedback Mechanism in the Cyanobacterial Circadian Clock
Multi-modality in gene regulatory networks with slow promoter kinetics
High-Frequency Resonance in the Gerbil Medial Superior Olive
Power-Law Scaling in the Brain Surface Electric Potential
An empirical model of aminoacylation kinetics for E. coli class I and II aminoacyl tRNA synthetases
Modeling binary and graded cone cell fate patterning in the mouse retina
Mathematical modeling to reveal breakthrough mechanisms in the HIV Antibody Mediated Prevention (AMP) trials
Coherent Conformational Degrees of Freedom as a Structural Basis for Allosteric Communication
The Mechanism of Ubiquitination in the Cullin-RING E3 Ligase Machinery: Conformational Control of Substrate Orientation
Tumor Growth Rate Determines the Timing of Optimal Chronomodulated Treatment Schedules
The Correlation Structure of Local Neuronal Networks Intrinsically Results from Recurrent Dynamics
Hybrid computational modeling demonstrates the utility of simulating complex cellular networks in type 1 diabetes
Coalescent Tree Imbalance and a Simple Test for Selective Sweeps Based on Microsatellite Variation
Natural scene statistics predict how humans pool information across space in surface tilt estimation
In Memoriam: Rolf Kötter (1961-2010)
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
Network mechanisms and dysfunction within an integrated computational model of progression through mitosis in the human cell cycle
Calibration of transmission-dynamic infectious disease models: A scoping review and reporting framework
Detecting changes in generation and serial intervals under varying pathogen biology, contact patterns and outbreak response
The Characteristics of Heterozygous Protein Truncating Variants in the Human Genome
Contributions of action potentials to scalp EEG: Theory and biophysical simulations
Thermal Adaptation of Conformational Dynamics in Ribonuclease H
Matrix Formalism to Describe Functional States of Transcriptional Regulatory Systems
Network Archaeology: Uncovering Ancient Networks from Present-Day Interactions
Slowness and Sparseness Lead to Place, Head-Direction, and Spatial-View Cells
Modelling quantitative fungicide resistance and breakdown of resistant cultivars: Designing integrated disease management strategies for Septoria of winter wheat
Statistical integration of multi-omics and drug screening data from cell lines
Understanding the Origins of Bacterial Resistance to Aminoglycosides through Molecular Dynamics Mutational Study of the Ribosomal A-Site
Studying gastrulation by invagination: The bending of a cell sheet by mechanical cell properties using 3D deformable cell based simulations
Population-specific design of de-immunized protein biotherapeutics
Observing hidden neuronal states in experiments
Colony Expansion of Socially Motile Myxococcus xanthus Cells Is Driven by Growth, Motility, and Exopolysaccharide Production
Spatio-temporal Dynamics and Mechanisms of Stress Granule Assembly
Low-dimensional spike rate models derived from networks of adaptive integrate-and-fire neurons: Comparison and implementation
Evaluation of Paired-End Sequencing Strategies for Detection of Genome Rearrangements in Cancer
Meta-analysis of Inter-species Liver Co-expression Networks Elucidates Traits Associated with Common Human Diseases
Ten simple rules on how to develop a stakeholder engagement plan
Is cell segregation like oil and water: Asymptotic versus transitory regime
Twisting Right to Left: A...A Mismatch in a CAG Trinucleotide Repeat Overexpansion Provokes Left-Handed Z-DNA Conformation
Achieving global perfect homeostasis through transporter regulation
ISCB's Initial Reaction to The New England Journal of Medicine Editorial on Data Sharing
Evolutionary graph theory beyond pairwise interactions: Higher-order network motifs shape times to fixation in structured populations
High Affinity vs. Native Fibronectin in the Modulation of αvβ3 Integrin Conformational Dynamics: Insights from Computational Analyses and Implications for Molecular Design
Ten Simple Rules for Writing a PLOS Ten Simple Rules Article
Modelling-informed cell-seeded nerve repair construct designs for treating peripheral nerve injuries
A benchmark dataset for canopy crown detection and delineation in co-registered airborne RGB, LiDAR and hyperspectral imagery from the National Ecological Observation Network
Joint Modelling of Confounding Factors and Prominent Genetic Regulators Provides Increased Accuracy in Genetical Genomics Studies
The 5th ISCB Wikipedia Competition: Coming to a Classroom Near You?
Automated classification of dolphin echolocation click types from the Gulf of Mexico
A Bayesian computational model reveals a failure to adapt interoceptive precision estimates across depression, anxiety, eating, and substance use disorders
Incomplete Lineage Sorting and Hybridization Statistics for Large-Scale Retroposon Insertion Data
Towards a theory of cortical columns: From spiking neurons to interacting neural populations of finite size
IonBench: A benchmark of optimisation strategies for mathematical models of ion channel currents
Predicting the Evolution of Sex on Complex Fitness Landscapes
Features influencing the health and economic impact of preventing COVID-19 in immunocompromised individuals
Two Misfolding Routes for the Prion Protein around pH 4.5
Machine learning to predict mesenchymal stem cell efficacy for cartilage repair
Forecasting national and regional influenza-like illness for the USA
Scalable Design of Paired CRISPR Guide RNAs for Genomic Deletion
Predicting recognition between T cell receptors and epitopes with TCRGP
Inference of Gene Regulatory Network Based on Local Bayesian Networks
Ultrasensitivity in Phosphorylation-Dephosphorylation Cycles with Little Substrate
Reconstruction of the Gene Regulatory Network Involved in the Sonic Hedgehog Pathway with a Potential Role in Early Development of the Mouse Brain
Structure-aware annotation of leucine-rich repeat domains
Evolution of Bow-Tie Architectures in Biology
Decreases in Gap Junction Coupling Recovers Ca2+ and Insulin Secretion in Neonatal Diabetes Mellitus, Dependent on Beta Cell Heterogeneity and Noise
Estimating influenza incidence using search query deceptiveness and generalized ridge regression
Immune-Mediated Competition in Rodent Malaria Is Most Likely Caused by Induced Changes in Innate Immune Clearance of Merozoites
Machine learning approach for automatic recognition of tomato-pollinating bees based on their buzzing-sounds
Predicting Cortical Dark/Bright Asymmetries from Natural Image Statistics and Early Visual Transforms
Improved visualization of high-dimensional data using the distance-of-distance transformation
Systematic comparison of modeling fidelity levels and parameter inference settings applied to negative feedback gene regulation
Short-term synaptic depression can increase the rate of information transfer at a release site
Pattern of Tick Aggregation on Mice: Larger Than Expected Distribution Tail Enhances the Spread of Tick-Borne Pathogens
Non-genetic differences underlie variability in proliferation among esophageal epithelial clones
From Nonspecific DNA-Protein Encounter Complexes to the Prediction of DNA-Protein Interactions
A new phylodynamic model of Mycobacterium bovis transmission in a multi-host system uncovers the role of the unobserved reservoir
The Structural Basis for Activation and Inhibition of ZAP-70 Kinase Domain
Computational Analysis of MDR1 Variants Predicts Effect on Cancer Cells via their Effect on mRNA Folding
Opportunities for machine learning to predict cross-neutralization in FMDV serotype O
Aedes-AI: Neural network models of mosquito abundance
Comparison of stochastic and deterministic models for gambiense sleeping sickness at different spatial scales: A health area analysis in the DRC
From Pathways Databases to Network Models of Switching Behavior
PLNMFG: Pseudo-label guided non-negative matrix factorization model with graph constraint for single-cell multi-omics data clustering
Un-gating and allosteric modulation of a pentameric ligand-gated ion channel captured by molecular dynamics