FDA
GATher: Graph Attention Based Predictions of Gene-Disease Links
Narganes-Carlon, David, Myatt, Anniek, Mudaliar, Mani, Crowther, Daniel J.
Target selection is crucial in pharmaceutical drug discovery, directly influencing clinical trial success. Despite its importance, drug development remains resource-intensive, often taking over a decade with significant financial costs. High failure rates highlight the need for better early-stage target selection. We present GATher, a graph attention network designed to predict therapeutic gene-disease links by integrating data from diverse biomedical sources into a graph with over 4.4 million edges. GATher incorporates GATv3, a novel graph attention convolution layer, and GATv3HeteroConv, which aggregates transformations for each edge type, enhancing its ability to manage complex interactions within this extensive dataset. Utilizing hard negative sampling and multi-task pre-training, GATher addresses topological imbalances and improves specificity. Trained on data up to 2018 and evaluated through 2024, our results show GATher predicts clinical trial outcomes with a ROC AUC of 0.69 for unmet efficacy failures and 0.79 for positive efficacy. Feature attribution methods, using Captum, highlight key nodes and relationships, enhancing model interpretability. By 2024, GATher improved precision in prioritizing the top 200 clinical trial targets to 14.1%, an absolute increase of over 3.5% compared to other methods. GATher outperforms existing models like GAT, GATv2, and HGT in predicting clinical trial outcomes, demonstrating its potential in enhancing target validation and predicting clinical efficacy and safety.
Democratising Artificial Intelligence for Pandemic Preparedness and Global Governance in Latin American and Caribbean Countries
de Carvalho, Andre, Bonidia, Robson, Kong, Jude Dzevela, Dauhajre, Mariana, Struchiner, Claudio, Goedert, Guilherme, Stadler, Peter F., Walter, Maria Emilia, Sanches, Danilo, Day, Troy, Castro, Marcia, Edmunds, John, Colome-Hidalgo, Manuel, Morban, Demian Arturo Herrera, Franco, Edian F., Ugarte-Gil, Cesar, Espinoza-Lopez, Patricia, Carrasco-Escobar, Gabriel, Rocha, Ulisses
Infectious diseases, transmitted directly or indirectly, are among the leading causes of epidemics and pandemics. Consequently, several open challenges exist in predicting epidemic outbreaks, detecting variants, tracing contacts, discovering new drugs, and fighting misinformation. Artificial Intelligence (AI) can provide tools to deal with these scenarios, demonstrating promising results in the fight against the COVID-19 pandemic. AI is becoming increasingly integrated into various aspects of society. However, ensuring that AI benefits are distributed equitably and that they are used responsibly is crucial. Multiple countries are creating regulations to address these concerns, but the borderless nature of AI requires global cooperation to define regulatory and guideline consensus. Considering this, The Global South AI for Pandemic & Epidemic Preparedness & Response Network (AI4PEP) has developed an initiative comprising 16 projects across 16 countries in the Global South, seeking to strengthen equitable and responsive public health systems that leverage Southern-led responsible AI solutions to improve prevention, preparedness, and response to emerging and re-emerging infectious disease outbreaks. This opinion introduces our branches in Latin American and Caribbean (LAC) countries and discusses AI governance in LAC in the light of biotechnology. Our network in LAC has high potential to help fight infectious diseases, particularly in low- and middle-income countries, generating opportunities for the widespread use of AI techniques to improve the health and well-being of their communities.
Neuralink says the FDA designated its Blindsight implant as a 'breakthrough device'
Neuralink says the Food and Drug Administration has designated its experimental Blindsight implant as a "breakthrough device." The company is developing the technology in an attempt to restore blind people's sight. Manufacturers who apply to the FDA's voluntary breakthrough devices program and receive the designation from the agency are granted "an opportunity to interact with FDA experts through several different program options to efficiently address topics as they arise during the premarket review phase." Ultimately, a breakthrough device designation can accelerate development of a technology. Last year, the FDA gave the designation to 145 medical devices.
Neuralink gets FDA's 'breakthrough device' tag for Blindsight implant
Elon Musk's brain-chip startup Neuralink said on Tuesday its experimental implant aimed at restoring vision received the U.S. Food and Drug Administration's "breakthrough device" designation. The FDA's breakthrough tag is given to certain medical devices that provide treatment or diagnosis of life-threatening conditions. It is aimed at speeding up the development and review of devices currently under development. The experimental device, known as Blindsight, "will enable even those who have lost both eyes and their optic nerve to see," Musk said in a post on X. Neuralink did not immediately respond to a request seeking details about when it expects the Blindsight device to move into human trials. The FDA also did not immediately respond to a request for comment.
Apple brings sleep apnea detection to the Watch Series 10
Apple is bringing sleep apnea detection to the most recent generations of its Watch, the company announced today. At the iPhones 16 launch event, Apple revealed the feature would come to the new Series 10, as well as the Series 9 and Ultra 2. If you wear your watch while you sleep, you'll get an alert in the morning if symptoms are detected through the night, urging you to visit your clinician. The data for this will be collated in the Health app on the iPhone. Rather than using oxygen saturation, which would be the logical approach, Apple says it's using motion tracking. This is likely related to the messy patent battle surrounding the blood oxygen sensor in the Watch that has stymied the company's work in this area.
ExDDI: Explaining Drug-Drug Interaction Predictions with Natural Language
Sun, Zhaoyue, Li, Jiazheng, Pergola, Gabriele, He, Yulan
Predicting unknown drug-drug interactions (DDIs) is crucial for improving medication safety. Previous efforts in DDI prediction have typically focused on binary classification or predicting DDI categories, with the absence of explanatory insights that could enhance trust in these predictions. In this work, we propose to generate natural language explanations for DDI predictions, enabling the model to reveal the underlying pharmacodynamics and pharmacokinetics mechanisms simultaneously as making the prediction. To do this, we have collected DDI explanations from DDInter and DrugBank and developed various models for extensive experiments and analysis. Our models can provide accurate explanations for unknown DDIs between known drugs. This paper contributes new tools to the field of DDI prediction and lays a solid foundation for further research on generating explanations for DDI predictions.
Beyond One-Time Validation: A Framework for Adaptive Validation of Prognostic and Diagnostic AI-based Medical Devices
Hellmeier, Florian, Brosien, Kay, Eickhoff, Carsten, Meyer, Alexander
Prognostic and diagnostic AI-based medical devices hold immense promise for advancing healthcare, yet their rapid development has outpaced the establishment of appropriate validation methods. Existing approaches often fall short in addressing the complexity of practically deploying these devices and ensuring their effective, continued operation in real-world settings. Building on recent discussions around the validation of AI models in medicine and drawing from validation practices in other fields, a framework to address this gap is presented. It offers a structured, robust approach to validation that helps ensure device reliability across differing clinical environments. The primary challenges to device performance upon deployment are discussed while highlighting the impact of changes related to individual healthcare institutions and operational processes. The presented framework emphasizes the importance of repeating validation and fine-tuning during deployment, aiming to mitigate these issues while being adaptable to challenges unforeseen during device development. The framework is also positioned within the current US and EU regulatory landscapes, underscoring its practical viability and relevance considering regulatory requirements. Additionally, a practical example demonstrating potential benefits of the framework is presented. Lastly, guidance on assessing model performance is offered and the importance of involving clinical stakeholders in the validation and fine-tuning process is discussed.
Desperate parents turn to magnetic therapy to help kids with autism. They have little evidence to go on
Thomas VanCott compares his son Jake's experience with autism to life on a tightrope. Upset the delicate balance and Jake, 18, plunges into frustration, slapping himself and twisting his neck in seemingly painful ways. Like many families with children on the autism spectrum, Jake's parents sought treatments beyond traditional speech and behavioral therapies. One that seemed promising was magnetic e-resonance therapy, or MERT, a magnetic brain stimulation therapy trademarked in 2016 by a Newport Beach-based company called Wave Neuroscience. The company licensed MERT to private clinics across the country that offered it as a therapy for conditions including depression, PTSD and autism. Those clinics described MERT as a noninvasive innovation that could improve an autistic child's sleep, social skills and -- most attractive to the VanCott family -- speech. It was expensive -- 9,000 -- and not covered by insurance.
Personalised Medicine: Establishing predictive machine learning models for drug responses in patient derived cell culture
Abdel-Rehim, Abbi, Orhobor, Oghenejokpeme, Griffiths, Gareth, Soldatova, Larisa, King, Ross D.
The concept of personalised medicine in cancer therapy is becoming increasingly important. There already exist drugs administered specifically for patients with tumours presenting well-defined mutations. However, the field is still in its infancy, and personalised treatments are far from being standard of care. Personalised medicine is often associated with the utilisation of omics data. Yet, implementation of multi-omics data has proven difficult, due to the variety and scale of the information within the data, as well as the complexity behind the myriad of interactions taking place within the cell. An alternative approach to precision medicine is to employ a function-based profile of the cell. This involves screening a range of drugs against patient derived cells. Here we demonstrate a proof-of-concept, where a collection of drug screens against a highly diverse set of patient-derived cell lines, are leveraged to identify putative treatment options for a 'new patient'. We show that this methodology is highly efficient in ranking the drugs according to their activity towards the target cells. We argue that this approach offers great potential, as activities can be efficiently imputed from various subsets of the drug treated cell lines that do not necessarily originate from the same tissue type.
One-step Structure Prediction and Screening for Protein-Ligand Complexes using Multi-Task Geometric Deep Learning
He, Kelei, Dong, Tiejun, Wu, Jinhui, Zhang, Junfeng
Understanding the structure of the protein-ligand complex is crucial to drug development. Existing virtual structure measurement and screening methods are dominated by docking and its derived methods combined with deep learning. However, the sampling and scoring methodology have largely restricted the accuracy and efficiency. Here, we show that these two fundamental tasks can be accurately tackled with a single model, namely LigPose, based on multi-task geometric deep learning. By representing the ligand and the protein pair as a graph, LigPose directly optimizes the three-dimensional structure of the complex, with the learning of binding strength and atomic interactions as auxiliary tasks, enabling its one-step prediction ability without docking tools. Extensive experiments show LigPose achieved state-of-the-art performance on major tasks in drug research. Its considerable improvements indicate a promising paradigm of AI-based pipeline for drug development.