yusuke1997/dblp-id-title huggingface dataset:
A Novel Three-Phase Model of Brain Tissue Microstructure
Mechanistic, Mathematical Model to Predict the Dynamics of Tissue Genesis in Bone Defects via Mechanical Feedback and Mediation of Biochemical Factors
Efficient sensory coding of multidimensional stimuli
Navigating the Multilayered Organization of Eukaryotic Signaling: A New Trend in Data Integration
The importance of geometry in the corneal micropocket angiogenesis assay
Interactions between sensory prediction error and task error during implicit motor learning
Mathematical Modeling of Interacting Glucose-Sensing Mechanisms and Electrical Activity Underlying Glucagon-Like Peptide 1 Secretion
Structural host-microbiota interaction networks
A Simple Model of Optimal Population Coding for Sensory Systems
Simulation of 69 microbial communities indicates sequencing depth and false positives are major drivers of bias in prokaryotic metagenome-assembled genome recovery
Modelling the relative contribution of infection, routine vaccination and supplementary immunisation activities to measles seroconversion in Kenyan Children
Surround suppression in mouse auditory cortex underlies auditory edge detection
Eliminating accidental deviations to minimize generalization error and maximize replicability: Applications in connectomics and genomics
Partial information decomposition reveals that synergistic neural integration is greater downstream of recurrent information flow in organotypic cortical cultures
Population structure across scales facilitates coexistence and spatial heterogeneity of antibiotic-resistant infections
Computational mechanism underlying switching of motor actions
Integrated Module and Gene-Specific Regulatory Inference Implicates Upstream Signaling Networks
Neutral vs. non-neutral genetic footprints of Plasmodium falciparum multiclonal infections
Network-Based Interpretation of Diverse High-Throughput Datasets through the Omics Integrator Software Package
Drug-induced resistance evolution necessitates less aggressive treatment
An in silico analysis of robust but fragile gene regulation links enhancer length to robustness
Where's the Noise? Key Features of Spontaneous Activity and Neural Variability Arise through Learning in a Deterministic Network
Calcium-vesicles perform active diffusion in the sea urchin embryo during larval biomineralization
Functional Basis of Microorganism Classification
The functional role of sequentially neuromodulated synaptic plasticity in behavioural learning
Competition and cooperation of assembly sequences in recurrent neural networks
Goal-related feedback guides motor exploration and redundancy resolution in human motor skill acquisition
Correction: A spatial vaccination strategy to reduce the risk of vaccine-resistant variants
Accurate Computation of Survival Statistics in Genome-Wide Studies
A flexible generative algorithm for growing in silico placentas
Impact of Lipid Composition and Receptor Conformation on the Spatio-temporal Organization of μ-Opioid Receptors in a Multi-component Plasma Membrane Model
Cellular Growth Arrest and Persistence from Enzyme Saturation
Inferring country-specific import risk of diseases from the world air transportation network
Jointly efficient encoding and decoding in neural populations
Importance of localized dilatation and distensibility in identifying determinants of thoracic aortic aneurysm with neural operators
Brain Network Adaptability across Task States
Assessing the durability and efficiency of landscape-based strategies to deploy plant resistance to pathogens
PCB: A pseudotemporal causality-based Bayesian approach to identify EMT-associated regulatory relationships of AS events and RBPs during breast cancer progression
Gene-Boosted Assembly of a Novel Bacterial Genome from Very Short Reads
RSim: A reference-based normalization method via rank similarity
Topology-preserving smoothing of retinotopic maps
A First Attempt to Bring Computational Biology into Advanced High School Biology Classrooms
High-resolution global peptide-protein docking using fragments-based PIPER-FlexPepDock
A saturated reaction in repressor synthesis creates a daytime dead zone in circadian clocks
Modeling neuron-astrocyte interactions in neural networks using distributed simulation
Leveraging high-throughput screening data, deep neural networks, and conditional generative adversarial networks to advance predictive toxicology
Sequence-sensitive elastic network captures dynamical features necessary for miR-125a maturation
Data-driven modeling predicts gene regulatory network dynamics during the differentiation of multipotential hematopoietic progenitors
Cellular determinants of metabolite concentration ranges
Getting More Out of Biomedical Documents with GATE's Full Lifecycle Open Source Text Analytics
The network structure affects the fixation probability when it couples to the birth-death dynamics in finite population
ACME: Automated Cell Morphology Extractor for Comprehensive Reconstruction of Cell Membranes
The relative contributions of infectious and mitotic spread to HTLV-1 persistence
Machine-learning and mechanistic modeling of metastatic breast cancer after neoadjuvant treatment
Pandemic velocity: Forecasting COVID-19 in the US with a machine learning & Bayesian time series compartmental model
Predicting Protein Function with Hierarchical Phylogenetic Profiles: The Gene3D Phylo-Tuner Method Applied to Eukaryotic Genomes
A Multi-cell, Multi-scale Model of Vertebrate Segmentation and Somite Formation
LocusFocus: Web-based colocalization for the annotation and functional follow-up of GWAS
Spatial domain identification method based on multi-view graph convolutional network and contrastive learning
Combining the Finite Element Method with Structural Connectome-based Analysis for Modeling Neurotrauma: Connectome Neurotrauma Mechanics
Measuring Asymmetry in Time-Stamped Phylogenies
Bioinformatics in Africa: The Rise of Ghana?
Assessing Drug Target Association Using Semantic Linked Data
Mcadet: A feature selection method for fine-resolution single-cell RNA-seq data based on multiple correspondence analysis and community detection
Ig-VAE: Generative modeling of protein structure by direct 3D coordinate generation
Systems modelling of the EGFR-PYK2-c-Met interaction network predicts and prioritizes synergistic drug combinations for triple-negative breast cancer
Optimal Control of Saccades by Spatial-Temporal Activity Patterns in the Monkey Superior Colliculus
Towards Increasing the Clinical Relevance of In Silico Methods to Predict Pathogenic Missense Variants
Cell to whole organ global sensitivity analysis on a four-chamber heart electromechanics model using Gaussian processes emulators
The Rise and Fall of HIV in High-Prevalence Countries: A Challenge for Mathematical Modeling
Eight quick tips for biologically and medically informed machine learning
Psychophysical Tests of the Hypothesis of a Bottom-Up Saliency Map in Primary Visual Cortex
Nullspace Sampling with Holonomic Constraints Reveals Molecular Mechanisms of Protein Gαs
Neuraminidase Inhibitor Resistance in Influenza: Assessing the Danger of Its Generation and Spread
DIVERSITY in binding, regulation, and evolution revealed from high-throughput ChIP
PIEZO1 and the mechanism of the long circulatory longevity of human red blood cells
A quick guide for student-driven community genome annotation
Affect-congruent attention modulates generalized reward expectations
On the Firing Rate Dependency of the Phase Response Curve of Rat Purkinje Neurons In Vitro
Unsupervised clustering of temporal patterns in high-dimensional neuronal ensembles using a novel dissimilarity measure
Predictive Modeling of In Vivo Response to Gemcitabine in Pancreatic Cancer
Determining Individual Variation in Growth and Its Implication for Life-History and Population Processes Using the Empirical Bayes Method
Addressing the mean-correlation relationship in co-expression analysis
Cadherin-Dependent Cell Morphology in an Epithelium: Constructing a Quantitative Dynamical Model
Drug-target binding quantitatively predicts optimal antibiotic dose levels in quinolones
Predicting Surgery Targets in Temporal Lobe Epilepsy through Structural Connectome Based Simulations
Reputation Effects in Public and Private Interactions
Spatial dynamics of malaria transmission
A FAIR guide for data providers to maximise sharing of human genomic data
SAGE2Splice: Unmapped SAGE Tags Reveal Novel Splice Junctions
Estimating the time-varying reproduction number of COVID-19 with a state-space method
Learning environment-specific learning rates
A Deep Survival EWAS approach estimating risk profile based on pre-diagnostic DNA methylation: An application to breast cancer time to diagnosis
A computational model of Pseudomonas syringae metabolism unveils a role for branched-chain amino acids in Arabidopsis leaf colonization
Surveillance for TB drug resistance using routine rapid diagnostic testing data: Methodological development and application in Brazil
Adaptation Dynamics in Densely Clustered Chemoreceptors
Serotonin, Inhibition, and Negative Mood
Estimating receptive fields of simple and complex cells in early visual cortex: A convolutional neural network model with parameterized rectification
Learning from Heterogeneous Data Sources: An Application in Spatial Proteomics
Estimating the Relevance of World Disturbances to Explain Savings, Interference and Long-Term Motor Adaptation Effects
Sequence deeper without sequencing more: Bayesian resolution of ambiguously mapped reads
Genetic dissection of complex traits using hierarchical biological knowledge
Spatial exclusion leads to "tug-of-war" ecological dynamics between competing species within microchannels
Comment on "Broadband Criticality of Human Brain Network Synchronization" by Kitzbichler MG, Smith ML, Christensen SR, Bullmore E (2009) PLoS Comput Biol 5: e1000314
Asymmetries around the visual field: From retina to cortex to behavior
Analytical kinetic model of native tandem promoters in E. coli
Computational Models of HIV-1 Resistance to Gene Therapy Elucidate Therapy Design Principles
Use of Artificial Genomes in Assessing Methods for Atypical Gene Detection
A machine learning based framework to identify and classify long terminal repeat retrotransposons
Power Laws from Linear Neuronal Cable Theory: Power Spectral Densities of the Soma Potential, Soma Membrane Current and Single-Neuron Contribution to the EEG
Storm: Incorporating transient stochastic dynamics to infer the RNA velocity with metabolic labeling information
The Power of Malaria Vaccine Trials Using Controlled Human Malaria Infection
A Quantitative Study of the Division Cycle of Caulobacter crescentus Stalked Cells
An Open Forum for Computational Biology
A New View of the Bacterial Cytosol Environment
Deep learning prediction of chemical-induced dose-dependent and context-specific multiplex phenotype responses and its application to personalized alzheimer's disease drug repurposing
A Systematic Computational Analysis of Biosynthetic Gene Cluster Evolution: Lessons for Engineering Biosynthesis
Transcranial Electrical Stimulation Accelerates Human Sleep Homeostasis
Polarization and migration in the zebrafish posterior lateral line system
Generating information-dense promoter sequences with optimal string packing
Glucose Oscillations Can Activate an Endogenous Oscillator in Pancreatic Islets
Feedback, Lineages and Self-Organizing Morphogenesis
Interplay between Graph Topology and Correlations of Third Order in Spiking Neuronal Networks
Using Expression Profiles of Caenorhabditis elegans Neurons To Identify Genes That Mediate Synaptic Connectivity
Selection of stimulus parameters for enhancing slow wave sleep events with a neural-field theory thalamocortical model
Quantifying the Effects of Elastic Collisions and Non-Covalent Binding on Glutamate Receptor Trafficking in the Post-Synaptic Density
Qualitative and Quantitative Protein Complex Prediction Through Proteome-Wide Simulations
VarWalker: Personalized Mutation Network Analysis of Putative Cancer Genes from Next-Generation Sequencing Data
Resolving the conformational ensemble of a membrane protein by integrating small-angle scattering with AlphaFold
Mathematical modeling the order of driver gene mutations in colorectal cancer
Stress generation, relaxation and size control in confined tumor growth
Repressor Dimerization in the Zebrafish Somitogenesis Clock
Modeling Within-Host Effects of Drugs on Plasmodium falciparum Transmission and Prospects for Malaria Elimination
Paradoxical relationship between speed and accuracy in olfactory figure-background segregation
Review: Precision medicine and driver mutations: Computational methods, functional assays and conformational principles for interpreting cancer drivers
Multi-physics modeling for ion homeostasis in multi-compartment plant cells using an energy function
Inter-trial effects in priming of pop-out: Comparison of computational updating models
Heterogeneity of Rift Valley fever virus transmission potential across livestock hosts, quantified through a model-based analysis of host viral load and vector infection
Parameter estimation for multistage clonal expansion models from cancer incidence data: A practical identifiability analysis
Learning context shapes bimanual control strategy and generalization of novel dynamics
Persistence and Adaptation in Immunity: T Cells Balance the Extent and Thoroughness of Search
Correction: Modelling African horse sickness emergence and transmission in the South African control area using a deterministic metapopulation approach
Locus Coeruleus tracking of prediction errors optimises cognitive flexibility: An Active Inference model
Data driven flexible backbone protein design
Learning the rules of collective cell migration using deep attention networks
Signatures of Arithmetic Simplicity in Metabolic Network Architecture
Ten simple rules for training scientists to make better software
DeepPep: Deep proteome inference from peptide profiles
Time-Course Gene Set Analysis for Longitudinal Gene Expression Data
Spatial distribution of poultry farms using point pattern modelling: A method to address livestock environmental impacts and disease transmission risks
Modeling the interactions of sense and antisense Period transcripts in the mammalian circadian clock network
Quasiperiodic rhythms of the inferior olive
The genotype-phenotype map of an evolving digital organism
One is not enough: On the effects of reference genome for the mapping and subsequent analyses of short-reads
Ten Simple Rules for a Successful Collaboration
GEMINI: Integrative Exploration of Genetic Variation and Genome Annotations
Deconvolving sequence features that discriminate between overlapping regulatory annotations
Cellularly-Driven Differences in Network Synchronization Propensity Are Differentially Modulated by Firing Frequency
Reconstructing the Dynamics of HIV Evolution within Hosts from Serial Deep Sequence Data
Dynamics of Trimming the Content of Face Representations for Categorization in the Brain
Unsupervised detection and fitness estimation of emerging SARS-CoV-2 variants: Application to wastewater samples (ANRS0160)
Subjective optimality in finite sequential decision-making
Interpretation of Genomic Variants Using a Unified Biological Network Approach
Personalized prediction of the secondary oocytes number after ovarian stimulation: A machine learning model based on clinical and genetic data
Does Mutational Robustness Inhibit Extinction by Lethal Mutagenesis in Viral Populations?
Preserving friendships in school contacts: An algorithm to construct synthetic temporal networks for epidemic modelling
Immunoinformatics Comes of Age
Recurrent interactions can explain the variance in single trial responses
Modulation of voltage-dependent K+ conductances in photoreceptors trades off investment in contrast gain for bandwidth
Machine learning reveals mesenchymal breast carcinoma cell adaptation in response to matrix stiffness
Emergence of supercoiling-mediated regulatory networks through the evolution of bacterial chromosome organization
Analysis of temporal transcription expression profiles reveal links between protein function and developmental stages of Drosophila melanogaster
Bayesian Analysis for Inference of an Emerging Epidemic: Citrus Canker in Urban Landscapes
Ten simple rules for developing a mentor-mentee expectations document
Correction: Up-down biphasic volume response of human red blood cells to PIEZO1 activation during capillary transits
A rule-based multiscale model of hepatic stellate cell plasticity: Critical role of the inactivation loop in fibrosis progression
Evolutionary Potential of a Duplicated Repressor-Operator Pair: Simulating Pathways Using Mutation Data
HIPI: Spatially resolved multiplexed protein expression inferred from H&E WSIs
Genome Modeling System: A Knowledge Management Platform for Genomics
A Simple Rule for Dendritic Spine and Axonal Bouton Formation Can Account for Cortical Reorganization after Focal Retinal Lesions
MAGMA: Generalized Gene-Set Analysis of GWAS Data
Dissecting Early Differentially Expressed Genes in a Mixture of Differentiating Embryonic Stem Cells
Design and Implementation of a Genomics Field Trip Program Aimed at Secondary School Students
An Imperfect Dopaminergic Error Signal Can Drive Temporal-Difference Learning
Bayesian spatial modelling of localised SARS-CoV-2 transmission through mobility networks across England
Conformational dynamics and putative substrate extrusion pathways of the N-glycosylated outer membrane factor CmeC from Campylobacter jejuni
HIV Competition Dynamics over Sexual Networks: First Comer Advantage Conserves Founder Effects
Benchmarking network propagation methods for disease gene identification
A unifying Bayesian account of contextual effects in value-based choice
CGBayesNets: Conditional Gaussian Bayesian Network Learning and Inference with Mixed Discrete and Continuous Data
Reactome from a WikiPathways Perspective
Sleep prevents catastrophic forgetting in spiking neural networks by forming a joint synaptic weight representation
Spatiotemporal Analysis of the 2014 Ebola Epidemic in West Africa
Multiscale Approach to the Determination of the Photoactive Yellow Protein Signaling State Ensemble
Ten simple rules for typographically appealing scientific texts
ForestQC: Quality control on genetic variants from next-generation sequencing data using random forest
Effects of Macromolecular Crowding on Protein Conformational Changes
Predicting primate tongue morphology based on geometrical skull matching. A first step towards an application on fossil hominins
When Optimal Feedback Control Is Not Enough: Feedforward Strategies Are Required for Optimal Control with Active Sensing
To Cooperate or Not to Cooperate: Why Behavioural Mechanisms Matter
The role of actin protrusion dynamics in cell migration through a degradable viscoelastic extracellular matrix: Insights from a computational model
The meaning of significant mean group differences for biomarker discovery
Decoding of Superimposed Traces Produced by Direct Sequencing of Heterozygous Indels
Utility of constraints reflecting system stability on analyses for biological models
Modular assembly of dynamic models in systems biology
Identifying Selection in the Within-Host Evolution of Influenza Using Viral Sequence Data
A genome-scale metabolic model of Cupriavidus necator H16 integrated with TraDIS and transcriptomic data reveals metabolic insights for biotechnological applications
A Comparison of Mathematical Models for Polarization of Single Eukaryotic Cells in Response to Guided Cues
Topology across scales on heterogeneous cell data
A Self-Directed Method for Cell-Type Identification and Separation of Gene Expression Microarrays
Finding the "Dark Matter" in Human and Yeast Protein Network Prediction and Modelling
Script of Scripts: A pragmatic workflow system for daily computational research
Efficient multi-fidelity computation of blood coagulation under flow
APBioNet - Transforming Bioinformatics in the Asia-Pacific Region
Dynamical modeling of the H3K27 epigenetic landscape in mouse embryonic stem cells
ISOTOPE: ISOform-guided prediction of epiTOPEs in cancer
Overcoming chemotherapy resistance in low-grade gliomas: A computational approach
Avoiding costly mistakes in groups: The evolution of error management in collective decision making
The Spatial Structure of Stimuli Shapes the Timescale of Correlations in Population Spiking Activity
SVXplorer: Three-tier approach to identification of structural variants via sequential recombination of discordant cluster signatures
Correction: Design of field trials for the evaluation of transmissible vaccines in animal populations
EternaBrain: Automated RNA design through move sets and strategies from an Internet-scale RNA videogame
Prediction of VRC01 neutralization sensitivity by HIV-1 gp160 sequence features
Stability of spontaneous, correlated activity in mouse auditory cortex
A Canonical Model of Multistability and Scale-Invariance in Biological Systems
Analysis of Surface Protein Expression Reveals the Growth Pattern of the Gram-Negative Outer Membrane
Inferring cell state by quantitative motility analysis reveals a dynamic state system and broken detailed balance
Influence of the Fibroblastic Reticular Network on Cell-Cell Interactions in Lymphoid Organs
Neural network approaches, including use of topological data analysis, enhance classification of human induced pluripotent stem cell colonies by treatment condition
cytoNet: Spatiotemporal network analysis of cell communities
How well do models of visual cortex generalize to out of distribution samples?
Crowdsourcing image analysis for plant phenomics to generate ground truth data for machine learning
Increasing reproducibility, robustness, and generalizability of biomarker selection from meta-analysis using Bayesian methodology
Exploring Protein-Peptide Binding Specificity through Computational Peptide Screening
A multi-layer encoder prediction model for individual sample specific gene combination effect (MLEC-iGeneCombo)
Ligand-induced perturbation of the HIF-2α: ARNT dimer dynamics
Inter-trial effects in visual pop-out search: Factorial comparison of Bayesian updating models
Learn from the Best
A Mathematical Methodology for Determining the Temporal Order of Pathway Alterations Arising during Gliomagenesis
Single-Molecule Dynamics Reveals Cooperative Binding-Folding in Protein Recognition
Predicting Meridian in Chinese traditional medicine using machine learning approaches
Ten simple rules for organizing a bioinformatics training course in low- and middle-income countries
Machine learning based CRISPR gRNA design for therapeutic exon skipping
Cardiac and renal function interactions in heart failure with reduced ejection fraction: A mathematical modeling analysis
Large eddy simulation of droplet transport and deposition in the human respiratory tract to evaluate inhalation risk
Metacommunity structure preserves genome diversity in the presence of gene-specific selective sweeps under moderate rates of horizontal gene transfer
Collective Behaviour without Collective Order in Wild Swarms of Midges
Stability of Ensemble Models Predicts Productivity of Enzymatic Systems
Dual contribution of ASIC1a channels in the spinal processing of pain information by deep projection neurons revealed by computational modeling
Heart failure-induced atrial remodelling promotes electrical and conduction alternans
Cerebellar Golgi cell models predict dendritic processing and mechanisms of synaptic plasticity
Enhancing breakpoint resolution with deep segmentation model: A general refinement method for read-depth based structural variant callers
Diffusion enables integration of heterogeneous data and user-driven learning in a desktop knowledge-base
Comparing the Dictyostelium and Entamoeba Genomes Reveals an Ancient Split in the Conosa Lineage
The Stem Cell Population of the Human Colon Crypt: Analysis via Methylation Patterns
HepatoDyn: A Dynamic Model of Hepatocyte Metabolism That Integrates 13C Isotopomer Data
Efficient and flexible Integration of variant characteristics in rare variant association studies using integrated nested Laplace approximation
Psychotic Experiences and Overhasty Inferences Are Related to Maladaptive Learning