Skip to Content

Most Recent

  • Article
  • Open Access
BioMedInformatics2026, 6(6), 103;https://doi.org/10.3390/biomedinformatics6060103 
(registering DOI)

1 November 2026

Background: Prospective bedside data collection in perioperative research is labour-intensive and error-prone. Methods: We describe a workflow for prospective data capture in a 10-bed cardiac surgical intensive care unit: four Google Forms modules wr...

(This article belongs to the Section Clinical Informatics)
  • Article
  • Open Access

Bayesian Probability-Based Classification for CYP2D6 Copy Number Determination by Digital PCR

  • Blanca Iturbe Sanz,
  • Tania S. Rubio-Lepe,
  • Fiorela C. Dueñas-López,
  • Elena Diago-Sempere and ,
  • Pedro Arias,
  • Belén Ferrer-Martínez,
  • Itsaso Losantos-García,
  • Alberto M. Borobia and
  • Rocío Rosas-Alonso
  • + 4 authors+ 0 author

Background: Accurate determination of CYP2D6 copy number variation (CNV) is essential for reliable phenotype assignment in pharmacogenetics. Although digital PCR (dPCR) is widely used for CNV analysis, standardized approaches for selecting and probab...

  • Tutorial
  • Open Access
71 Views
17 Pages

Optimal Cut-Point Calculation of a Predictor Variable for Binary Classification: A Practical How-To Guide with Examples for Clinicians

  • Francesco Bianconi,
  • Luca Filippi,
  • Barbara Palumbo,
  • Elisabetta Maria Zanetti and ,
  • Angela Spanu and
  • Mario Luca Fravolini
  • + 1 author+ 0 author

Calculating the optimal cut-point of a predictor variable for a binary classification task is a crucial step in clinical practice, directly influencing diagnostic accuracy and patient management. This tutorial offers a practical, step-by-step guide f...

(This article belongs to the Section Medical Statistics and Data Science)
  • Article
  • Open Access
101 Views
17 Pages

AI-Assisted Imaging for Suspected Adolescent Endometriosis: Perspectives from Qualitative Focus Groups

  • Shae Maple,
  • Rachel E. Hosking,
  • Yuan Zhang,
  • Alison Deslandes and ,
  • M. Louise Hull and
  • Jodie C. Avery
  • + 1 author+ 0 author

Background: Artificial intelligence (AI)-assisted imaging may support recognition of endometriosis, but perspectives on its use in adolescent care remain unclear. This study explored young people, parents, and health professionals’ views on its...

(This article belongs to the Special Issue Integrating Health Informatics and Artificial Intelligence for Advanced Medicine)
  • Article
  • Open Access
63 Views
16 Pages

Background: Multivariable early-warning models can integrate physiological signals and missingness patterns, but added complexity may not provide meaningful value over simple predictors. We evaluated whether a single prespecified L2-regularized logis...

(This article belongs to the Special Issue Integrating Health Informatics and Artificial Intelligence for Advanced Medicine)
  • Review
  • Open Access
75 Views
24 Pages

Deep Learning in Fungal Diagnostics: From Microscopy to Antifungal Resistance Prediction

  • Madalina (Preda) Solomon,
  • Stefan Paraschivescu,
  • Angela Stefania Marghescu,
  • Oana Popescu and ,
  • Beatrice Mahler,
  • Ioan-Traian Soare and
  • Loredana Sabina Cornelia Manolescu
  • + 2 authors+ 0 author

Invasive fungal infections cause approximately 1.5 billion cases each year, with an estimated 1.6 million deaths. Classic diagnostic methods, such as culture, direct microscopy, and antigen testing, largely rely on professional experience and are oft...

  • Article
  • Open Access
100 Views
18 Pages

Modeling Multiple Interconnected TLR Signaling Cascades Is Needed to Recapitulate the Effector Function of Bone Marrow-Derived Macrophages

  • Robert A. Kurt,
  • Melissa Lass,
  • Amanda Pratt,
  • Molly Dormer and ,
  • Bridget Shaver,
  • Diego Zelaya and
  • Chun Wai Liew
  • + 2 authors+ 0 author

(1) Background: Modeling signaling cascades is helpful in deciphering the structure and interactions within and between cascades, and testing our understanding of the cascades by using the models to make predictions and suggesting experiments to eval...

(This article belongs to the Section Computational Biology and Medicine)
  • Review
  • Open Access
160 Views
35 Pages

Review: Artificial Intelligence Applied to Physiological Signals to Support Clinical Diagnosis

  • Camila Andrea Clavijo-Montes,
  • Paola Andrea Niño-Suárez and
  • Luis Armando Flores-Herrera

Analyzing physiological signals with artificial intelligence (AI) has become a strategic tool for clinical diagnosis, event prediction, risk stratification, monitoring, and functional analysis, among other tasks. However, the growing use of AI in hea...

(This article belongs to the Special Issue Integrating Health Informatics and Artificial Intelligence for Advanced Medicine)
  • Systematic Review
  • Open Access
233 Views
28 Pages

Automated breast ultrasound (ABUS) acquires whole-breast volumes that can be reviewed independently of acquisition, but tumor segmentation in these volumes remains difficult. This scoping review maps deep learning methods for tumor segmentation in AB...

(This article belongs to the Topic Artificial Intelligence and Big Data in Biomedical Engineering)
  • Article
  • Open Access
128 Views
24 Pages

Background: Preprocessing pipelines developed for retinal fundus photography are routinely transferred to other vascular imaging modalities without validation. Methods: Seven preprocessing stages from the retinal literature were assembled into a rule...

(This article belongs to the Section Imaging Informatics)
  • Article
  • Open Access
203 Views
13 Pages

Background: Surgical instrument segmentation is a relevant computer vision task in minimally invasive surgery, where binary masks can be used to separate surgical instruments from the background. This study compares selected U-Net architectural confi...

(This article belongs to the Section Imaging Informatics)
  • Article
  • Open Access
164 Views
33 Pages

Brain tumor classification from magnetic resonance imaging (MRI) can support computer-aided diagnosis by enabling automated differentiation of tumor and non-tumor categories. This study presents DualXBrNet, a hybrid dual-level fusion framework for mu...

(This article belongs to the Topic Machine Learning, Optimization, and Computational Methods in Biomedical Informatics)
  • Article
  • Open Access
245 Views
33 Pages

Background: Recent research has highlighted the role of gut microbiota dysfunctions in Parkinson’s disease (PD), which may occur decades before the onset of motor symptoms. However, methodological variability across studies and complex host&nda...

(This article belongs to the Section Applied Biomedical Data Science)
  • Article
  • Open Access
364 Views
43 Pages

Cardiac-Net: A Wearable ECG Prototype and Hybrid CNN–Transformer Model for Atrial Fibrillation Detection in Long-Term ECG Recordings

  • Aymane Edder,
  • Fatima-Ezzahraa Ben-Bouazza,
  • Youssef Ait Bigane,
  • Djeneba Sangare and ,
  • Idriss Tafala,
  • Oumaima Manchadi and
  • Bassma Jioudi
  • + 2 authors+ 0 author

Postoperative atrial fibrillation (POAF) is a leading cause of stroke and mortality after cardiac surgery, motivating continuous long-term ECG monitoring.This paper presents Cardiac-Net, a wearable ECG system (ESP32-S3/AD8232 BLE device with a Flutte...

  • Article
  • Open Access
242 Views
22 Pages

Background: Diagnosing suspected abusive head trauma (AHT) requires the integration of clinical, imaging, ophthalmologic, and contextual information. The interpretation of these findings is often challenging because they differ in diagnostic relevanc...

  • Article
  • Open Access
212 Views
18 Pages

Background: Alzheimer’s disease (AD) and frontotemporal dementia (FTD) are progressive neurodegenerative disorders affecting over 100 million people worldwide. Effective connectivity (EC), which quantifies directional influence between brain re...

(This article belongs to the Topic Artificial Intelligence and Big Data in Biomedical Engineering)
  • Article
  • Open Access
233 Views
20 Pages

Glioma is the most common primary malignant brain tumor, with glioblastoma (GBM) carrying a 5-year survival rate below 10%. We analyzed 693 CGGA expression profiles, including 692 samples with available WHO grade (249 GBM and 443 lower-grade glioma [...

(This article belongs to the Topic Machine Learning, Optimization, and Computational Methods in Biomedical Informatics)
  • Article
  • Open Access
378 Views
41 Pages

Breast cancer is a heterogeneous disease whose molecular complexity complicates therapeutic stratification. Although PAM50 is a widely used molecular subtyping framework, discrete subtype assignments may underrepresent transitional molecular states a...

(This article belongs to the Special Issue Integrating Health Informatics and Artificial Intelligence for Advanced Medicine)
  • Article
  • Open Access
441 Views
24 Pages

Background/Objectives: Rabies remains a fatal viral disease, and current conventional vaccine strategies face significant challenges regarding structural stability and large-scale manufacturing. This study aimed to design a novel messenger ribonuclei...

  • Article
  • Open Access
262 Views
16 Pages

A Deep Learning-Based Tool for Segmentation and Quantification of i-IFTA, Focal Infiltrates, and Tubular Dilation in Haematoxylin–Eosin-Stained Renal Whole-Slide Images

  • Joana Mercado-Hernández,
  • David Martín-Calvo,
  • Giada Carniglia,
  • Noelia Díaz-Morales and ,
  • Annette Düwell,
  • Isabel Fuentes-Calvo,
  • Lucía García Collado,
  • Andriy Kovalchuk,
  • Francisco J. López-Hernández and
  • Carlos Martínez-Salgado
  • + 7 authors+ 2 authors

(1) Background: Simultaneous evaluation of acute and chronic lesions is critical for staging renal disease, yet manual assessment suffers from high inter-observer variability and heavy workloads. While deep learning models excel at structural segment...

  • Review
  • Open Access
405 Views
45 Pages

Advances in the Use of Artificial Intelligence in the Pharmaceutical Industry

  • Andersson F. Montaña,
  • Jorge A. Mora,
  • José J. Martínez,
  • Daniel F. Pulido and
  • Maria H. Brijaldo

Artificial intelligence (AI) is changing the pharmaceutical industry at every stage of drug development. This review examines how AI is currently used and the recent progress in areas such as manufacturing, drug discovery, formulation, clinical trial...

(This article belongs to the Topic Generative AI and Interdisciplinary Applications)
  • Perspective
  • Open Access
247 Views
22 Pages

Background: Healthcare information systems are effective at documenting encounters but remain less capable of representing evolving patient states, coordinating cross-disciplinary decisions, and reconnecting decisions with longitudinal outcomes and v...

(This article belongs to the Section Methods in Biomedical Informatics)
  • Article
  • Open Access
774 Views
23 Pages

Expert Curation of Human Microarray Probe Annotations in the Biological Interpretation of Integrated Transcriptome Analyses

  • Beatrice Vione,
  • Francesca Antonaros,
  • Andrea Barbarossa,
  • Giulia Salatino and ,
  • Lorenza Vitale,
  • Pierluigi Strippoli,
  • Maria Chiara Pelleri,
  • Maria Caracausi and
  • Allison Piovesan
  • + 4 authors+ 0 author

Background: Accurate mapping of microarray probes to gene loci is essential for a reliable interpretation of gene expression data, yet available probe annotations are often incomplete or outdated. In this study, we aimed to develop and apply an exper...

  • Article
  • Open Access
555 Views
34 Pages

Real-Time EEG-Based Anaesthesia Monitoring Using Neural Networks on Edge-AI Hardware

  • Brendan Mullane,
  • Dominik Przychodni and
  • Chris Crispin-Bailey

Background: Monitoring unconsciousness under general anaesthesia typically relies on indirect physiological indicators rather than direct measures of brain activity. This study investigates a compact, real-time electroencephalography (EEG)-based moni...

  • Article
  • Open Access
296 Views
23 Pages

Background: Rigid alignment of multimodal MRI is a prerequisite for neurological post-processing, yet classical iterative optimisers are accurate only when allowed to converge, at tens of seconds per volume, while learning-based predictors are fast b...

(This article belongs to the Topic Machine Learning, Optimization, and Computational Methods in Biomedical Informatics)
  • Article
  • Open Access
351 Views
16 Pages

Lightweight Deep Learning for Atrial Fibrillation Detection from Single-Lead Wearable ECG: A Benchmark of Convolutional, Temporal, and Mamba-Inspired Architectures

  • Hamim Islam Hellol,
  • Md Al Ridwan,
  • Md Shahnawaj,
  • Mohammad Hasibul Hasan and ,
  • Md Nafis Azad Nobel,
  • Md Ranu Hossen and
  • Roise Uddin
  • + 2 authors+ 0 author

Atrial fibrillation (AF) detection from short single-lead electrocardiogram (ECG) recordings requires a balance between rhythm discrimination and computational efficiency. This study compares a one-dimensional ResNet-34 (1D-ResNet34), a Temporal Conv...

(This article belongs to the Topic Artificial Intelligence and Big Data in Biomedical Engineering)
  • Article
  • Open Access
295 Views
20 Pages

Background: U-Net-style encoder–decoder architectures are widely used for 3D medical image segmentation, but their conventional skip connections usually transfer encoder features to the decoder through static concatenation. Such direct skip fus...

(This article belongs to the Topic Artificial Intelligence and Big Data in Biomedical Engineering)
  • Article
  • Open Access
848 Views
30 Pages

Explainable Multi-Label Machine Learning Framework for Patient-Specific Antibiotic Recommendation

  • Saman I. Othman,
  • Rebaz Hamza Salih,
  • Kamal Al-Barznji,
  • Karzan M. Abdullah and ,
  • Muhamed Aydin Abbas,
  • Shayma Ali Hussein,
  • Blnd Azad Ismail,
  • Mohammed Awat Ali,
  • Ahmed Abdulrazzaq Bapir and
  • Shukur Wasman Smail
  • + 8 authors+ 3 authors

Rapid selection of appropriate antimicrobial therapy is important for improving patient outcomes and supporting antimicrobial stewardship, particularly in the context of increasing antimicrobial resistance (AMR). Conventional antimicrobial susceptibi...

(This article belongs to the Section Computational Biology and Medicine)
  • Article
  • Open Access
478 Views
27 Pages

Artificial intelligence in cervical cytology requires controlled comparisons to distinguish the contribution of visual representations within the classification pipeline. This study evaluated six deep feature representation architectures for Bethesda...

  • Article
  • Open Access
679 Views
31 Pages

Background: Breast imaging ends in a management decision, from routine return to biopsy, yet most models are evaluated by accuracy alone and say nothing about when they may be wrong. We present a trust-aware multimodal model that reads paired mammogr...

(This article belongs to the Special Issue Multimodal Biomedical Data & Interpretable AI: Synergies and Applications)
  • Article
  • Open Access
495 Views
61 Pages

Background: Understanding transcriptomic state-transition dynamics is important for elucidating cancer progression and therapeutic response, yet existing single-cell transcriptomic approaches primarily characterize gene-expression changes or pseudote...

(This article belongs to the Section Computational Biology and Medicine)
  • Article
  • Open Access
525 Views
23 Pages

Background/Objectives: ATAC-seq footprinting can infer transcription-factor (TF) occupancy across the genome at near-base-pair resolution. However, its broad adoption is limited by high computational demands, complex command-line workflows, and fragm...

(This article belongs to the Topic Machine Learning, Optimization, and Computational Methods in Biomedical Informatics)
  • Article
  • Open Access
443 Views
15 Pages

Background: The growing volume of DNA sequence data demands efficient metagenomic identification. It provides the possibility of constructing tools with sustainability performance to monitor environmental conditions, including risks related to organi...

(This article belongs to the Section Applied Biomedical Data Science)
  • Article
  • Open Access
527 Views
21 Pages

Background: Early and accurate detection of depression from multimodal data is a critical yet challenging task. Many existing models either rely on a single modality or exhibit limited robustness across datasets, while publicly available datasets are...

  • Article
  • Open Access
332 Views
18 Pages

Cardiovascular risk assessment remains a central challenge in both population-based prevention and high-risk clinical settings. We benchmarked a previously developed mechanistic model of cardiovascular ageing against machine-learning baselines across...

  • Article
  • Open Access
354 Views
39 Pages

Background: Biomedical spectroscopy offers a non-invasive way to characterise disease, but the large number of spectral variables, redundancy, and limited interpretability can hinder the creation of compact diagnostic models. This study presents the...

  • Article
  • Open Access
605 Views
18 Pages

Rapid and accurate diagnosis is crucial for the early detection of malaria caused by Plasmodium parasites. This study primarily focuses on identifying a suitable deep learning model for classifying malaria parasites. In an ablation process, we starte...

(This article belongs to the Special Issue Integrating Health Informatics and Artificial Intelligence for Advanced Medicine)
  • Article
  • Open Access
544 Views
25 Pages

Skin cancer is one of the most common diseases worldwide and, if left untreated, it can be life threatening. In this work, we propose a dual-branch deep learning framework that integrates a CNN–BiLSTM module for local spatial–sequential f...

  • Review
  • Open Access
1,194 Views
37 Pages

This review consists of three parts related to the AT(N) framework, providing a comprehensive overview of biomarker-based diagnosis of Alzheimer’s disease (AD). In recent years, management of AD has shifted from a symptom-based approach toward...

(This article belongs to the Special Issue Integrating Health Informatics and Artificial Intelligence for Advanced Medicine)
  • Article
  • Open Access
447 Views
14 Pages

Background: One-lung ventilation (OLV) is routinely used during thoracic surgery. Static respiratory risk scores may not capture the physiological changes that occur after lung isolation. This study evaluated whether an early intraoperative risk asse...

(This article belongs to the Special Issue Integrating Health Informatics and Artificial Intelligence for Advanced Medicine)
  • Article
  • Open Access
712 Views
29 Pages

Machine Learning-Based Classification of Glycemic Status Using Routine Laboratory Data: A Comparative Study of Statistical and Ensemble Models

  • Argyrios Ginoudis,
  • Dimitra Pardali,
  • Eleni Vagdatli,
  • Evgenia Lymperaki and
  • Dimitrios Galiatsatos

Early identification of individuals with abnormal glucose metabolism is essential for timely intervention and prevention of diabetes-related complications. Routine laboratory testing generates large amounts of clinical data that may support automated...

(This article belongs to the Section Applied Biomedical Data Science)
  • Article
  • Open Access
1 Citations
348 Views
21 Pages

Background: Accurate prognosis in diffuse large B-cell lymphoma (DLBCL) is limited by biological heterogeneity and the absence of formal per-patient uncertainty quantification for treatment-response prediction. This study introduces a multi-layer evi...

(This article belongs to the Section Computational Biology and Medicine)
  • Article
  • Open Access
624 Views
13 Pages

KazRNA-Pipe-GPU-Accelerated, Reproducible Nextflow Workflow for Integrated Bulk and Single-Cell Transcriptomic Profiling

  • Medet Ashimgaliyev,
  • Beimbet Daribayev,
  • Ainur Zhumadillayeva,
  • Miras Mussabek and ,
  • Danil Lebedev,
  • Bakhyt Matkarimov and
  • Nurislam Kassymbek
  • + 2 authors+ 0 author

Reproducible high-performance computing pipelines for transcriptomic analysis are essential for population-scale precision oncology, yet most published workflows address only a single sequencing modality or lack benchmarking on underrepresented popul...

(This article belongs to the Section Applied Biomedical Data Science)
  • Article
  • Open Access
1,134 Views
22 Pages

Auditing Data Leakage and Temporal Misalignment in Machine-Learning Prognosis of Breast Cancer: A Reproducible Censoring-Aware Reanalysis

  • Lotfi Tadj,
  • Md Abu Sufian,
  • Wahiba Hamzi,
  • Mai Ali and ,
  • Amira Ali and
  • Boumediene Hamzi
  • + 1 author+ 0 author

Background: Near-perfect machine-learning performance on public clinical datasets can arise from data leakage or predictors unavailable at the intended prediction time. We audited a breast cancer vital-status workflow and established a censoring-awar...

  • Article
  • Open Access
1 Citations
710 Views
18 Pages

Background: Deep learning models, particularly convolutional neural networks (CNNs), have shown promising performance for pneumonia detection using chest X-ray images. However, the impact of preprocessing, architecture selection, data augmentation, a...

  • Article
  • Open Access
889 Views
16 Pages

Digital health observatories require predictive frameworks that transform administrative health data into reliable territorial risk indicators. We developed a biomedical informatics framework for machine-learning-based epidemiological risk stratifica...

(This article belongs to the Topic Machine Learning, Optimization, and Computational Methods in Biomedical Informatics)
  • Article
  • Open Access
511 Views
18 Pages

DFU-MambaKAN: A Lightweight Hybrid Mamba-KAN Architecture for Diabetic Foot Ulcer Screening and Severity Grading

  • Md Nafis Azad Nobel,
  • Sazid Rahman Kazi,
  • Tajul Islam Rafi,
  • Mainuddin Adel Rafi and ,
  • Umer Aqeel,
  • Md Ranu Hossen,
  • Md Al Ridwan and
  • Roise Uddin
  • + 3 authors+ 0 author

Diabetic foot ulcers (DFUs) are a major cause of lower-extremity amputation, and image-based decision support may assist screening and preliminary triage where specialist access is limited. We propose DFU-MambaKAN, a hybrid architecture combining a p...

(This article belongs to the Topic Artificial Intelligence and Big Data in Biomedical Engineering)
  • Article
  • Open Access
1 Citations
816 Views
16 Pages

DrugLM: A Unified Framework to Enhance Drug–Target Interaction Prediction by Incorporating Textual Embeddings via Language Models

  • Tianyi Li,
  • Zhengyu Fang,
  • Xiaoge Zhang,
  • Kaiyu Tang and ,
  • Huiyuan Chen,
  • Zhimeng Jiang,
  • Tianxiang Zhao,
  • Rong Xu,
  • Feixiong Cheng and
  • Jing Li
  • + 6 authors+ 1 author

Accurate prediction of drug–target interactions (DTIs) is a cornerstone of computational drug discovery, with the potential to reduce experimental costs and accelerate therapeutic development. Although deep learning methods such as graph neural...

(This article belongs to the Topic Machine Learning, Optimization, and Computational Methods in Biomedical Informatics)
  • Systematic Review
  • Open Access
1,063 Views
32 Pages

Cardiovascular diseases (CVDs) remain the leading cause of mortality worldwide, driving the need for reliable tools for early risk prediction. Artificial intelligence (AI) applied to electrocardiograms (ECGs) has shown strong predictive performance f...

(This article belongs to the Topic Artificial Intelligence and Big Data in Biomedical Engineering)
  • Article
  • Open Access
1 Citations
582 Views
14 Pages

In Silico Characterization of the Venom-Derived LW-9 Peptide Using PreADMET-Based Predictions

  • Ingrid Mayara Cavalcante Trevisan,
  • Clailson da Silva Pinheiro,
  • Juliana Mozer Sciani and
  • Catarina Rapôso

The LW-9 peptide was previously identified through screening of purified molecules from the venom of the spider Phoneutria nigriventer and has been described as an immunomodulatory compound with potential application in cancer therapy. The molecule w...

XFacebookLinkedIn
BioMedInformatics - ISSN 2673-7426