Bioinformatics & computational biology
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- Rapid, accurate, and memory-frugal sub-gene-level quantification of probe-based, multiplexed single-cell data
- Agentic AI enables cell segmentation-free cell-type inference and cell-type-guided cell segmentation in spatial transcriptomics
- Residual barcode-like sequences and barcode-associated artifacts after Dorado and Barbell preprocessing of metagenomic reads
- Predicting Transcriptional Responses to Unseen Compounds through Context Modeling and Multi-View Transfer
- Growing a Root from Its Genome : Emergent Tissue Layers and Zones in a GPU-Native Simulation of the Arabidopsis Root Tip
- Hybrid RY-mers increase aDNA alignment sensitivity
- Towards a foundation model for raw nanopore signal through discrete tokenization
- QRAFT: Scaling coalescent-based species tree inference to one million taxa
- Theoretical prediction of assembly contiguity
- QUANTA: A quantum annealing framework for species tree estimation using weighted quartet amalgamation
- scCont: Interpretable Contrastive Learning for Functional Characterization of Cellular State Transitions
- Leveraging deep generative modelling at the agent level in discrete-event simulations
- PharmAgents2: Towards Autonomous End-to-End Drug Discovery
- How Deep is the Signal? Time-Context up to 30 Years for Colorectal Cancer Prediction in a Primary-Care EHR Model
- scDNM-VAE enables directly inspectable deep clustering of single-cell RNA-seq data through signed dendritic gating
- Interpretable many-body interaction laws for collective motion from few trajectories
- Pattern selection and biomass shifts in a vegetation model with nonlocal competition and Allee activation
- Unveiling Molecular Basis of Terminalia chebula in Modulating the AGE-RAGE-PRKCB Axis in Diabetic Nephropathy: Integrative Network Pharmacology and Computational Study
- A pretreatment ECM-high/immune-low transcriptomic score is associated with pathological complete response after neoadjuvant therapy in breast cancer
- Early terminated transcripts and missing proteins reflect artifacts in bacterial proteomes
- Learning Constraints in Protein Evolution beyond Known Substitution Frequencies
- RadMultiBench: A Reproducible Dual-Task Benchmark Exposing the Limits of Pre-Trained Vision-Language Models Across Thoracic and Breast Imaging
- Organotchi: an open-source tool for the automated segmentation, morphological characterization, and longitudinal tracking of organoids
- TailEnrich enables discovery of dysregulated genes through disease sample enrichment testing
- DisCell: Separating Spillover from Niche Response in Spatial Transcriptomics