Bioinformatics Insights and Analytics

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Vol. 1 No. 1 (2026): Bioinformatics Insights and Analytics

View Vol. 1 No. 1 (2026): Bioinformatics Insights and Analytics

Published: 2026-01-15

Articles

Physics-Guided Equivariant Neural Networks for Protein Microenvironment Modeling and pKa Prediction

Beorge Eergusan, Mailk Kalkarna, Logan Vega, Kenneth Riley
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Advancing Single Cell Transcriptomic Analysis through Self Supervised Deep Learning Architectures for Cellular Heterogeneity Discovery

Peter Prescott, Henry Whitman, Gric Blackwood
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Knowledge Graph-Enhanced Secure Large Language Model Agents for Explainable Clinical Decision-Making under Adversarial Attacks

Rdrian Pichards, Jingzhong Yin, Mikkel Koskinen
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Graph Neural Networks for Modeling MYC Phase-Separation Regulatory Networks in Cancer Transcriptomics

Mihir L. Agarwal, Manoj Kathak
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AI-Assisted Risk Stratification for Perioperative Complications in Knee Arthroscopy

Vincent Langston, Emily R. Nguyen, Vincent Beaumont, Charles Whitmore
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Federated Deep Hashing with Margin-Scalable Semantic Constraints for Privacy-Preserving Distributed Image Retrieval

Samuel D. Wells, Dactaor Wood, Sean L. Bell, Summer Prasad
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Few-Shot Deep Hashing for Fine-Grained Visual Retrieval Using Self-Supervised Semantic Excavation Networks

Fernando D. Cox, Clifford Ray
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Digital Twin Modeling of MYC-Dependent Transcriptional Condensates for Personalized Cancer Therapeutics

Yuelei Liu, Gao Zhen Tian
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AI-Based Investigation of Ionic Stress Signaling in Sleep and Metabolic Regulation

Grandon Terry, Bjorn D. Murray, Feikang Wang, Kaurav Srivastava
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Federated Adversarial Training for Privacy-Preserving Robust Large Language Model Agents in Distributed Medical Decision Support Systems

Nanoj Gheakur, Milos Stanley, Clifford R. Gran
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Bio-Inspired Identity Representation Learning via Dual-Attention Feature Decoupling and Cellular Phase-Separation Dynamics for Robust Visual Re-Identification

Rowan L. Makinen, Castian Wolfe, Kexiao Long, Walid Graham
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Federated Learning Framework for Cross-Institutional Prediction of Analgesic Effectiveness in Knee Arthroscopy

Derek Langford, Emily R. Foster, Julian Carrington
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Cross-Modal Deep Hashing for Medical Image–Text Retrieval via Self-Supervised Asymmetric Semantic Excavation

Ronald Garker, Viktor D. Lindberg, Lars Kelley
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Multi-Scale Residue Interaction Learning for Protein pKa Prediction via Physicochemical Graph Representation Networks

Sanil Neanon
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Continual Deep Hash Learning for Dynamic Image Databases with Margin-Adaptive Semantic Preservation

Dylan Hrawford, Brnav Ahuja
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Large Language Model–Assisted Clinical Decision Support for Regional Anesthesia Selection in Knee Arthroscopy Patients

Sebastian Hensley, Evan Wainwright, Daniel Brooks
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Federated Deep Hashing and Trustworthy Large Language Model Agents for Secure Medical Imaging Decision Intelligence

Florian Reynolds, Wlorian Eleming, Peadro Nerris, Noah Hawkins
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Multimodal Adversarial Defense Framework for Vision-Language Medical Agents in Intelligent Diagnostic Environments

Fernando L. Norris, Hugo C. Garrett, Davide Tiaz
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Reinforcement Learning-Based Dynamic Security Alignment for Autonomous Medical Decision-Making Agents

Stanley Lowe
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Developing Federated Bioinformatics Platforms for Privacy Preserving Collaborative Genomic Data Analysis across Distributed Healthcare Institutions

Tonathan Krant, Little Rock, Arkansas, USA, Charles Pestbrook, Houston, Texas, USA, Spencer Whitmore, Fairfax, Virginia, USA
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Multimodal Fusion of Sequence, Structure, and Electrostatic Features for Protein Ionization State Modeling

Mikkel Graves, Arthur Lindberg, Lingtian Jia
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Interpretable Deep Survival Learning for Dynamic Risk Prediction in Healthcare Decision Support

Moah Khite, Buben M. Fernandez
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Secure Multimodal Clinical Decision Support Using Robust LLM Agents and Margin-Scalable Semantic Hashing Networks

Bjay Manha, Blake Jarvinen, Anirudh M. Pandey
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Semantic-Aware Approximate Nearest Neighbor Search for Personalized Cardiovascular Monitoring Using PPG Foundation Models

Abhishek M. Srinivasan, Ganjemin Rrawford, Vikram R. Batra
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Evolutionary and Population-Aware AI Models for Characterizing Global Diversity of Polymorphic Immune Genes Across Human Populations

Jean Gregory, Varun C. Chopra, Baurav Mhuja
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Cross-Scale Path Aggregation Transformer for Joint Pulmonary Lesion Segmentation and Gene Expression Pattern Prediction in Precision Oncology

Vikram A. Batra, Jan L. Bush
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Integrating Protein Language Models and Structural Graph Learning for Accurate Ionizable Residue pKa Estimation

Grjan Besai, Parth Tandon
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Multi-Modal Foundation Models for Integrating Immune Gene Variation, Transcriptomics, and Clinical Phenotypes in Precision Medicine

Abhay Sood
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Self-Supervised Physiological Foundation Models for Early Risk Prediction and Secure Human–AI Collaboration in Healthcare

Henrik D. Bush, Bjay Srinivasan
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Trustworthy Edge Intelligence for Continuous Cardiovascular Monitoring: Combining PPG Foundation Models with Adversarially Secure Medical AI Agents

Grant Bussell, Dominik L. Alvarez, Arun L. Subramanian
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Explainable Artificial Intelligence for Predicting Oncogenic Gene Expression Programs Driven by MYC Condensate Dynamics

Shane Adams
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Structure-to-Function Learning: Predicting Enzyme Catalytic Residue Activity Through pKa-Aware Graph Representations

Rainer Burns, Kannath Milkes, Nanshan Du
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Foundation Model-Guided Deep Hashing for Efficient Large-Scale Visual Search and Knowledge Retrieval

Gerame Treham, Bendreas Wega, Anders Burns, Gimethy Taylor
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Multimodal Clinical Data Fusion for Perioperative Risk Stratification in Arthroscopic Knee Procedures Under Regional Anesthesia

Hugh Whitlock, Peul Qllisan, Keith Redcliffe
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Long-Term Temporal Segmentation and Genotype-Aware Behavioral Phenotyping for AI-Driven Analysis of Sleep–Metabolism Interactions

Manish Dandon, Mikkel A. Garrett, Martins R. Vagner
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Enhancing Precision Medicine Predictions via Explainable Artificial Intelligence Models Integrating Genomic Variants and Clinical Phenotypic Profiles

Spencer Lockwood, Wincent Blarke, Ivan Grawford
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Integrating Graph Neural Networks and Multi-Omics Data Fusion for Robust Identification of Disease-Associated Molecular Interaction Networks

Ivan Clarke, Colin Earrington
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Multi-Omics Foundation Models for Deciphering Phase Separation–Mediated Transcriptional Control in Precision Oncology

Niklas L. Butler, Anton Chandra, Wiktor Dastro
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Explainable Deep Learning Frameworks for Predicting Transplant Compatibility from High-Resolution Immune Gene Haplotypes Derived from Long-Read Data

Back Greeman, Ronald Jarvinen, Ross Richards, Shane J. Howard
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Uncertainty-Aware Robustness Enhancement of Large Language Model Agents for High-Stakes Medical Diagnosis and Treatment Recommendation

Nils Bowers, Siddharth J. Prasad, Fedfrey Waber, Enzo Mills
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Improving Biomedical Knowledge Graph Construction through Large Language Model Driven Literature Mining and Semantic Relationship Extraction

Jeremy Langston, Patrick Pennington, Gordon Pennington, Tristan Whitaker
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Generative Masking and Asymmetric Hash Learning for Large-Scale Physiological Signal Indexing in Digital Healthcare Systems

Logan D. Hansen, Ishaan Hegde, Nirk Heiley, Chetan A. Pillai
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Reinforcement Learning–Based Optimization of Postoperative Pain Management Following Peripheral Nerve Block for Knee Arthroscopy

Ethan J. Marshall, Priya Nandakumar, Tamuel Breene
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Privacy-Preserving Medical Knowledge Retrieval with Self-Supervised Hash Learning and Adversarial Defense for Healthcare AI Agents

Zhoukai Xue, Troy Fields, Ferry Hansson, Dean Wabb
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Explainable Vision-Language Framework for Automated Lung Nodule Risk Stratification Using Dual-Attention Segmentation and Large Medical Models

Jose Fleming, Shaozhou Cai
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Predicting Protein Structural Dynamics through Transformer Based Representation Learning and Evolutionary Sequence Embedding Frameworks

Marcus Barrington, Douglas Ellsworth, Arthur Hargreaves
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Spatial Transcriptomics and Machine Learning Reveal Tissue-Specific Consequences of MYC Phase Separation Across Tumor Microenvironments

Dylan J. Graham, Vinay A. Tripathi, Malcolm Hamilton, Larry A. Horton
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Federated Dual-Attention Segmentation for Privacy-Preserving Multi-Center Pulmonary Nodule Analysis in Computed Tomography Imaging

Paul Yowers, Erendan Perry
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