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Every paper Pith has read. Search by title, abstract, or pith.
1822 papers in q-bio · page 4
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Neural nets predict flu clade fitness from genomes at R² above 0.95
Inferring and Predicting Clade-Level Relative Transmission Fitness in Seasonal Influenza A Using Differential Population Growth Rate and Deep Learning
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One tokenization unifies bio sequences
BioMatrix: Towards a Comprehensive Biological Foundation Model Spanning the Modality Matrix of Sequences, Structures, and Language
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Top pistachio genotypes hit 99% germination and match in genetic clusters
Germination capacity of pistachio (Pistacia vera L.) seeds related to genotypic variation and phytochemical contents
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Entropy predicts reproductive windows across 130 animal species
Evolutionary Entropy Shapes Reproductive Lifespan in Age-Structured Populations
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Bilayer nanofibers release clindamycin and lift cell viability
Fabrication Of Bilayer Nanofibers From Poly Xylitol Dodecanedioic Acid, Poly Caprolactone, Gelatin Biological Macromolecules And Surface Modification Via Spin Coating Of Capsules For Skin Wound Treatment
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Temporal models lift C
DevoTG: Temporal Graph Neural Networks for Modeling C. elegans Developmental Connectomics
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Dynamic eye test records timing across 1154 human visual trials
Dynamic Computerized Tumbling-E Testing for Temporal Reliability of Human Sequential Perceptual Decisions
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Binocular strips emerge at V1 ocular dominance borders
Mostly-monocular responses and other visual functions in a multiscale network model of Macaque V1
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Neuron delays trigger sudden synchronization jumps
Delay coordinates synchronization and induces abrupt transition in excitable networks
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Gamma mixing of stopping rates produces heavy-tailed subdiffusive kernels
Heavy-Tailed Dispersal Kernels from Stopped Subdiffusive Fractional Brownian Motion
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Flow matching refines noisy masks into continuous curvilinear segmentations
CurvSegFlow: Time-Conditioned Flow Matching for Robust Segmentation of Curvilinear Structures in Noisy Biomedical Images
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Myelination plasticity locks delays to network periods
Adaptive conduction delays and phase locking in spiking Haken Lighthouse networks
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Re-infection shortens BUNV eclipse phase more than BATV
Mechanistic mathematical model of the in vitro infection dynamics of Bunyamwera and Batai viruses including MOI-dependent shortening of the eclipse phase
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Minimal spiking net generates stable soliton waves in 2D
Soliton-like Waves in a Two-Dimensional Recurrent Spiking Neural Network with Weighted Spike-Timing-Dependent Plasticity
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Convergent mutations map fitness tradeoffs across 10,000 antibody clonotypes
Surveying the adaptive landscapes of 10,000 antibodies
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Two methods restore cell dynamics on reflective surfaces
Dynamic dark-field FFOCT and dynamic reflection differential phase contrast for label-free functional imaging at reflective biomaterial interfaces
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Omics data forms testable hypothesis for WSI region retrieval
HERO: Hypothesis-Driven Evidence Retrieval from Omics for Multi-Task Breast Cancer Analysis
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Decomposing molecules into atom-pair subgraphs improves predictions
MMGNN: Multi-level, multi-color graph neural networks for molecular property prediction
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Gaze shifts between related objects predict scene recall
Relational Gaze Transitions During Encoding Predict Episodic Recall of Naturalistic Scenes
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Quantum Game of Life fits West Nile virus spread in Italy
West Nile virus outbreak in Italy modelled with the quantum Game of Life
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Bipartite oscillator network yields self-organized quasiperiodicity
Synchronization modes in bipartite oscillator networks
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Confidential Beacon queries run on fully homomorphic EVM
bioETH-Beacon: A Confidential On-Chain Genomic Beacon with Encrypted Counts, Filters, and Bounded Noise over a Fully Homomorphic EVM
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Camera-trap model adds classes for 29 taxa across African forests
DeepForestVisionV2: Ecology-Driven Taxonomy Expansion for Camera-Trap Monitoring in African Tropical Forests
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Dataset labels 5996 km² of cocoa and non-cocoa land at 99% accuracy
COLD-CI: A large-scale very high-resolution label polygon dataset for cocoa and non-cocoa classification in Cote d'Ivoire
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Recursive agents inspect long patient records for clinical decisions
MedRLM: Recursive Multimodal Health Intelligence for Long-Context Clinical Reasoning, Sensor-Guided Screening, Evidence-Grounded Decision Support, and Community-to-Tertiary Referral Optimization
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Cold-start selector picks first 3D medical volumes without labels
Dataset-Aware Cold-Start Active Learning for Annotation-Efficient 3D Medical Image Segmentation
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Quadratic forms measure directional spread in 3D geometric trees
Quadratic Forms for Measuring Geometric Trees in 3-dimensional Space
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Noise creates Turing patterns in stable gene networks
Oscillations and Spatial Patterns in Large-Scale Stochastic Gene Regulatory Networks
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Stochastic modules reveal brain consistency drop in infants
Robust probabilistic measurement of structural-functional module consistency in infant brain development
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R package automates validation for team data entry
CollaboratoR: A scalable workflow for collaborative data entry and management
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Linear contrastive decoders beat complex models for fMRI decoding
Retrieval-Based Brain Decoding by Alignment, not Complexity
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ODEs give likelihood for SIR on contact trees from tracing data
Multi-type branching inference on contact trees with application to COVID-19
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Delays in inhibitory networks create slow rhythms
Dissecting emerging slow rhythms in delay-coupled neural oscillators
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Biomedical QA scores rise from 65.9 to 71.0 with selective evidence escalation
BioHarness: Substrate-Aware Evidence Assembly for Biomedical Question Answering across Literature, Knowledge Bases, and Biological Atlases
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Logit alignment conditions bio LMs on contexts
Contextualizing Biological Language Models across Modalities via Logit-Space Contrastive Alignment
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Siamese graph transformer improves single-cell RNA clustering accuracy
scGTN: Deep Siamese Graph Transformer Network for Single-cell RNA Sequencing Clustering
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Decoder turns single-neuron spikes into scene descriptions
Can neurons speak? Semantic narration of vision at single-cell resolution
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Annealed noise expands cooperation and extinction regions
Effects of spatial environmental noise on evolution of cooperation
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Multimodal data improves glucose forecasts only for complex models
MetaboNet-Bench: A Multi-modal Benchmark for Glucose Forecasting in Type 1 Diabetes
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Bandit weighting cuts epidemic forecast WIS scores
Adaptive COVID-19 Trajectory Forecasting Using MAB-Inspired Ensemble Weighting
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Fiducial markers let microfluidic imaging run in real time
DART: A design-aware microfluidic chip paradigm for real-time live-cell image analysis
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Jeffreys measure normalizes Bayesian ensemble posteriors
Bayesian Sampling of Structural Ensembles: The Role of Ensemble-Counting Measures
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Noise erases nonlinear edge over linear models in biomedicine
Measurement noise limits the advantage of nonlinear models over linear models in biomedical prediction
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Separates clean molecular properties from noisy labels
MOLAR: Learning Multimodal Molecular Representations from Noisy Labels
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Tool builds standard TSV matrix from ATAC-seq peaks
PyPeakRankR: Reproducible Peak-Level Feature Extraction for Regulatory Element Ranking
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Multiscale backbone model recovers protein structures from noisy cryo-EM
Multiscale reconstruction of protein conformations from cryo-EM images
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Four regimes classify chemotactic fronts of mixed cell populations
A nonlinear theory for chemotactic fronts of mixed populations
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Degree and weight statistics fix connectome dynamics
A frozen rate operator from the complete larval connectome: degree and weight govern the gross response, exact wiring governs input routing and mushroom-body modes
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Coarse stats set fly connectome response regime
A frozen rate operator from the complete larval connectome: degree and weight govern the gross response, exact wiring governs input routing and mushroom-body modes
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Structural MRI context yields stable 400-frame fMRI generation
BrainWorld: A Structural-Prior-Conditioned Generative Model for Whole-Brain 4D fMRI Dynamics