Bioinformatics & computational biology
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- PTMExplorer: A Multi-Dimensional Integrative Visualization Platform for Protein Post-Translational Modification Function and Structure
- Integrative analysis of the MDM2 promoter switch and cellular lineage plasticity in colorectal cancer: a contrast between the autonomous-proliferation type (CIN/CMS2) and the environment-adaptive type (MSI/gastric metaplasia)
- Heterogeneous Graph Contrastive Learning for Drug-Gene-Disease Motif Prediction
- Limitations of general protein language models and public TCRpMHC data in training specificity prediction models
- Learning Environment-Associated Marker Rankings with Attention-Based Graph Neural Networks
- HaloClassifier: integrating coding-signature features and k-mer composition for plasmid-chromosome discrimination in haloarchaeal genomes
- An Enhanced Pipeline for Multi-Omic Integration Based on Topological Data Analysis
- HR-FRGS: A Novel Biomarker Discovery Protocol using Dual Layer Hypergraph Learning for NGS RNA Sequence Data
- MetExPred: A Comprehensive Prediction Framework with Protein-Context-Aware Multi-view Learning for Drug Metabolism and Excretion
- Benchmarking 16S rRNA gene amplicon analysis in high-diversity microbial communities reveals fundamental trade-offs in clustering and denoising
- Novel human long noncoding RNA responses to Candida auris and its cell-wall components in peripheral blood mononuclear cells
- Zika virus sequence and secondary structure analysis using VADR
- FlowMap: Geometry Dynamics Consistent Embedding of RNA Velocity for Interpretable Cellular Trajectories
- Lineage-informed factor analysis reveals heritable programs of single-cell gene expression
- Physics-constrained inference of somatic dynamics from dendritic recordings with sparse somatic supervision in weakly coupled two-compartment neuron model
- Uncertainty Quantification-Incorporated Ensemble Model for Personalized Prediction of Severe Radiotherapy-Induced Immunosuppression Among Esophageal Cancer Patients
- QLoRA Fine-Tuning of Ministral LLM for Sequence-to-Function Protein Annotation
- Adapting Boltz-2 with limited experimental activity data improves early enrichment in virtual screening
- Vision Transformers versus convolutional neural networks for fine-grained orchid genus identification in a species-rich, data-poor flora: a controlled benchmark on the Orchidaceae of New Guinea
- Retracing the Process of Translation: Proteome-wide mapping of stable transcriptomic predictors of protein abundance in cancer cell lines
- Experimental evidence of generalization in quantum machine learning in small-data regime
- Developmental and tissue expression breadth define distinct but overlapping classes of housekeeping genes
- RosaSeed: Faster and Accurate Short Read Alignment Using a Configurable Seeding Strategy
- LoGoPPI enables fast and accurate protein protein interaction mapping at scale
- fastACCORD enables ultrahigh-dimensional partial correlation modeling for multi-omic data integration