Biology Methods and Protocols

BackgroundPostoperative delirium is a common complication in surgical patients, and is associated with a multitude of negative outcomes, including mortality, dementia, and increased healthcare costs. Therefore, a better understanding of what factors contribute to postoperative delirium, especially those that can be easily obtained, is important. MethodsWe conducted a retrospective cohort study using patients from the Medical Information Mart for Intensive Care (MIMIC)-IV database. Adult patient...

Digital breast tomosynthesis (DBT) is a powerful imaging modality that allows for improved lesion visibility, characterization, and localization compared to conventional two-dimensional digital mammography. DBT has been increasingly adopted in screening and diagnostic settings globally, particularly for women with dense breast tissue where tissue overlap presents a significant diagnostic challenge. Here we describe DBT-2026, a real world imaging dataset with 558 DBT exams from 558 patients with ...

BackgroundPropofol dosing guidelines recommend age-based reductions because hypnotic sensitivity increases in older adults. Most real-world evaluations of induction practice, however, have relied on total weight-normalized dose (mg/kg) rather than estimating cerebral exposure using pharmacokinetic models. Because age-related pharmacokinetic changes alter the relationship between administered dose and peak effect-site concentration (Ce,max), mg/kg surrogates may misrepresent true age-dependent ex...

BackgroundDelivering timely, high-quality feedback on resident scholarly projects is labour-intensive, especially in large programmes. We developed an AI-assisted evaluation system, powered by the open-weight LLaMA-3.1 large-language model (LLM), to generate formative feedback on Family Medicine residents scholarly projects and compared its performance with expert human evaluators. MethodsWe evaluated whether the AI-generated feedback achieves comparable quality to expert feedback. The tool ing...

We propose a lesion-centric phenotype learning pipeline for interpretable breast ultrasound (BUS). Predicted lesion masks are used for mask-weighted pooling of segmentation-encoder latents, producing compact embeddings that suppress background influence; a lightweight calibration step improves cross-dataset consistency. We cluster embeddings to discover latent phenotypes and relate phenotype structure to morphology descriptors (compactness, boundary sharpness). On BUSI and BUS-UCLM with external...

BackgroundSystematic reviews (SRs) are essential for evidence-based medicine but require extensive time and resources for abstract screening. Large language models (LLMs) offer potential for automating this process, yet concerns about data privacy, intellectual property protection, and reproducibility limit the use of cloud-based solutions in research settings. ObjectiveTo evaluate the performance of a locally deployed 20-billion parameter LLM for automated abstract screening in systematic revi...

A critical challenge in endocrine neurosurgery is intraoperative discrimination between normal pituitary tissue and pituitary neuroendocrine tumors (PitNETs). Suggesting the universal persistence of near-infrared autofluorescence (NIRAF) in endocrine organs and inspired by routine clinical use of NIRAF for parathyroid gland identification, we discovered that pituitary NIRAF can be employed for label-free transsphenoidal surgery guidance. Ex vivo confocal spectral imaging of 33 specimens identifi...

Aim and ObjectivesThe study aimed to evaluate the effectiveness of titanium inserts for interdental papilla reconstruction, comparing it with the Han and Takei technique using subepithelial connective tissue grafts. The objectives included assessing the black triangle height, papilla height and papilla presence index (PPI) at baseline, 1 month and 3 months postoperatively along with the evaluation of Early Wound Healing Score (EHS) during the first week of post operative healing period. Patient...

IntroductionDigital technologies are reshaping how health professionals are trained, and extended reality (XR) has gained attention as a tool for skills development in dental education. Yet, successful integration depends largely on educators perceptions, readiness, and working conditions. This study aimed to explore dental educators views of the educational value of XR, what barriers they experience, and how familiarity with immersive technologies relates to their use in teaching. Materials an...

BackgroundCanine impaction represents one of the most challenging clinical scenarios in orthodontic practice, with maxillary canines being the second most commonly impacted teeth after third molars. The management of impacted canines through orthodontic traction requires an advanced understanding of biomechanical principles, surgical techniques, and patient-specific factors. The decision to attempt traction must be informed by accurate differentiation between mechanical impaction and primary fai...

Thyroid carcinoma is one of the most prevalent endocrine malignancies worldwide, and accurate preoperative differentiation between benign and malignant thyroid nodules remains clinically challenging. Diagnostic methods that medical practitioners use at present depend on their personal judgment to evaluate both imaging results and separate clinical tests, which creates inconsistency that leads to incorrect medical evaluations. The combination of radiological imaging with clinical information syst...

Background Older adults' walking has so far been evaluated using standardised assessments of walking capacity within a clinical setting. By taking the evaluation out of the laboratory into the real world, this study provides first evidence of the ability of Digital Mobility Outcomes (DMOs) to detect changes over time and the Minimal Important Difference (MID) in patients after proximal femoral fracture (PFF). This will guide the implementation of DMOs in research and clinical care. Methods For t...

Background The microbial aetiology of early childhood caries (ECC) in sub-Saharan African populations remains poorly characterised, with most studies focusing on conventional cariogenic pathogens like Streptococcus mutans. This study aimed to characterise the salivary microbial profile of children with ECC in urban Kano, northern Nigeria. Methods In this cross-sectional study of 162 children aged 3-5 years in urban Kano, unstimulated saliva samples were collected and analysed using standard bact...

Nocturnal glucose regulation is modulated by autonomic and circadian mechanisms, yet their dynamic interplay in apparently healthy, free-living populations remains poorly studied. Here, we assessed 227,860 nights of concurrent sleep data from Ultrahuman AIR ring and M1 continuous glucose monitoring (CGM) system across 5849 adults globally to examine nocturnal cardio-metabolic coupling. We found that higher sleep consistency was inversely associated with glucose variability, and vice versa. Unsup...

BackgroundLarge language models (LLMs) are increasingly deployed in medical contexts as patient-facing assistants, providing medication information, symptom triage, and health guidance. Understanding their robustness to adversarial inputs is critical for patient safety, as even a single safety failure can lead to adverse outcomes including severe harm or death. ObjectiveTo systematically evaluate the safety guardrails of state-of-the-art LLMs through adversarial red-teaming specifically designe...

RationaleAutonomic dysfunction is a hallmark of sepsis pathophysiology, yet its quantification remains challenging. Multiscale entropy (MSE) derived from heart rate variability (HRV) offers a dynamic measure of physiological complexity and may serve as a biomarker of early deterioration associated with subsequent organ failure, vasopressor escalation, or mortality. ObjectiveTo determine whether MSE computed across multiple temporal scales during the first 24 hours of Intensive Care Unit (ICU) a...

PurposeLarge language models (LLMs) are used for biomedical text processing, but individual decisions are often hard to audit. We evaluated whether enforcing a mechanically checkable "show your work" quote affects accuracy, stability, and verifiability for trial eligibility-scope classification from abstracts. MethodsWe used 200 oncology randomized controlled trials (2005 - 2023) and provided models with only the title and abstract. Trials were labeled with whether they allowed for the inclusio...

Wearable devices present transformative opportunities for personalized healthcare through continuous monitoring of digital biomarkers; however, individual variations in device wear time could mask or otherwise impact signal identification. Despite the widespread adoption of wearable devices in research, no comprehensive framework exists for understanding how wear time varies across populations or for addressing wear time-related biases in analysis. Using Fitbit data from 11,901 participants in t...

Objective: Evaluating and monitoring patients with cervical spondylotic myelopathy (CSM) remains a challenge due to limited tools for assessing objective neurological disability longitudinally and in the home environment. Given their prevalence and low cost, mobile health (mHealth), and specifically smartphone technologies offer a promising approach to fill this gap. This study explored stakeholder perspectives on the role of mHealth in CSM monitoring to inform development of a smartphone-based ...

Multi-cancer early detection (MCED) tests can detect several cancer types and stages. We previously developed a methylation and protein (MP V1) MCED classifier. In this study, we present a refined MP V2 classifier, developed by evaluating model architectures that improved performance in prospectively enrolled case-control cohorts under standard testing conditions. The newly developed MP V2 classifier was trained to be more generalizable and achieve increased early-stage sensitivity at a target s...