Computational Intelligence Methods for Bioinformatics and Biostatistics

Extending Autoencoders approaches for Binning Metagenomics Contigs.- Optimization of gene set collections for cancer transcriptomics using sparse principal component analysis.- Drug-Sensitivity Biomarkers Identification through a Network-Based Integration of mRNA and miRNA Data.- Sequence-to-expression prediction in synthetic biology using ezSTEP.- Cell Types classification of spatial proteomics data in normal human lymph nodes.- A Learning Algorithm for Threshold Boolean Networks with Prescribed Fixed Points.- Petri net model of glucose regulatory processes in the pancreas and the liver.- Prioritization of Influenza Type A virus genomes as possible recombinants.- UniBioEmbed: Heterogeneous Multi-Modal Knowledge Graph for Unified Biomedical Concept Embeddings.- Abstractions for RNA Secondary Structure Analysis.- A Differential Abundance Analysis Framework for the Indoor Microbiome in Asthma.- A network science-based computational approach to unveil the FMT-induced changes in the microbiota of enteropathic dogs.- RTimpu: Efficient Imputation for Left-Censored Missing Values in Metabolomics Studies.- Extending Generative Machine Learning for Sustainable Polymer Design: An Integrated Workflow from Generative Models to Bio-Based Candidates.- Interpretable Pancreatic Cancer Diagnosis Using Structured EUS Data and Machine Learning: A Multicenter Evaluation.- Classification of Bundle Branch Blocks from ECG Signals using Explainable Graph Neural Networks.- Decoding Visual Representations from BOLD fMRI Using Semantic Category-Specific Brain ROIs.- ARTInp: CBCT-to-CT with Gap Inpainting for Adaptive Radiation Therapy.- AdipoInsights: An Automated Framework for Large-scale Adipocyte Morphology Analysis.- TORTOISE: A Network Analysis Tool for Molecular Patient Clustering Based on Somatic Mutations.- Multimodal Machine Learning for Mixed Dementia Diagnosis: A Real-World Retrospective Study with Clinical and Imaging Integration.- Machine Learning for Predicting Continuous and Binary CFTR Modulator Response from Clinical and Microbiome Data.- Gen: Interpretable Multimodal Generation of Gene Expression Profiles Using Clinical and Imaging Data.- Explainable and Reliable Clinical Case Retrieval with RAG models.- Snakemaker applies generative AI for automatic translation of ad-hoc analyses into sustainable Snakemake workflows.- Exploring Uncertainty in Label-Free Brightfield Cell Image Detection with Deep Pretrained Neural Networks and Explainable AI.- Novel Knowledge-Guided Generative Methods for Synthetic Transcriptomic Data.