Bioinformatics & computational biology
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- A single-cell RNA-seq catalog of ground truth gene coregulation
- Gravlax: an annotation-independent molecular evidence archive for single-cell RNA-seq
- BELL: Biomodel Evidence and LLM-based Logic
- High Reconstruction Quality and Restart Repeatability Do Not Guarantee Recovery of Ground-Truth Muscle Synergies
- Identifying Neural State Changes due to Gain versus Off-Manifold Displacement
- Reliability-Centered Evaluation of Sparse Longitudinal CT Lesion-Size Forecasting with Conformal Interval Calibration and Gompertz-Inspired Regularization
- Attributing Cohen's d: Training Data Attribution for Disease-Related Effects in Normative Age Biomarkers
- LiteMedCoT-VL: Parameter-Efficient Adaptation for Medical Visual Question Answering
- OSIRIS-MCP: Towards secure conversational access to research information in OSIRIS
- Building InterMine databases from RDF Portal
- DBCLS BioHackathon 2026 report: Variant representation in RDF for precision medicine
- A non-invasive approach to study localized forces in 3D epithelia
- A moving target: non-stationary selection governs unsupervised prediction of viral fitness
- ISP Platform powered by Geneformer: Framework for Cross-Species, Sequential, and Multi-Gene In Silico Perturbation Screens with Application to iPS Cell State Transitions
- SurfGraphPro: Integrating Protein Language Models with Geometric Deep Learning On Coarse Protein Surfaces for Binding Site Prediction
- Lossless compression of protein databases for efficient and accurate metagenomic sequence classification with Centrifuger
- FedEdgeR: federated and privacy-preserving edgeR for differential gene expression analysis
- When Prognostic Compatibility Does Not Guarantee Transfer Utility in Event-Limited Cross-Species Survival Modeling
- Extracting interpretable single-cell metabolic states with graph-guided representation learning
- Leakage-controlled benchmarking reveals generalization limits of deep learning for protein-ligand binding affinity prediction
- Open-world fungal ITS embeddings improve higher-rank placement and cross-view retrieval, but percent identity is stronger on a matched ITS2 novelty benchmark
- Generative Access to Make-on-Demand Chemical Space Enables Ultra-Large Virtual Screening
- NoroScope: Exploring the Mutational Landscape of the Human Norovirus Capsid Protein with Context-Aware Machine Learning
- MIRCID: Inferred Hub-miRNAs Drive Cross-Task Improvements in Drug Mechanistic Modeling
- Vritra: gene-specific reference construction for species-resolved functional profiling of metagenomic and metatranscriptomic data