FDA
The FDA has reportedly approved an AI product that predicts cognitive decline
The US government has reportedly approved AI-based memory loss prediction software for the first time. Darmiyan, a San Francisco-based brain imaging analytics company, says the FDA has granted De Novo approval for its product BrainSee. The software platform assigns "an objective score that predicts the likelihood of progression from aMCI to Alzheimer's dementia within 5 years," according to the medical company. Fierce Biotech first reported the announcement. Darmiyan says BrainSee can predict memory loss progression using clinical brain MRIs and cognitive tests, which are already standard for patients worried about early signs of decline.
Molecule Generation for Drug Design: a Graph Learning Perspective
Yang, Nianzu, Wu, Huaijin, Zeng, Kaipeng, Li, Yang, Yan, Junchi
Machine learning, particularly graph learning, is gaining increasing recognition for its transformative impact across various fields. One such promising application is in the realm of molecule design and discovery, notably within the pharmaceutical industry. Our survey offers a comprehensive overview of state-of-the-art methods in molecule design, particularly focusing on \emph{de novo} drug design, which incorporates (deep) graph learning techniques. We categorize these methods into three distinct groups: \emph{i)} \emph{all-at-once}, \emph{ii)} \emph{fragment-based}, and \emph{iii)} \emph{node-by-node}. Additionally, we introduce some key public datasets and outline the commonly used evaluation metrics for both the generation and optimization of molecules. In the end, we discuss the existing challenges in this field and suggest potential directions for future research.
Uncovering Regulatory Affairs Complexity in Medical Products: A Qualitative Assessment Utilizing Open Coding and Natural Language Processing (NLP)
Han, Yu, Ceross, Aaron, Bergmann, Jeroen H. M.
This study investigates the complexity of regulatory affairs in the medical device industry, a critical factor influencing market access and patient care. Through qualitative research, we sought expert insights to understand the factors contributing to this complexity. The study involved semi-structured interviews with 28 professionals from medical device companies, specializing in various aspects of regulatory affairs. These interviews were analyzed using open coding and Natural Language Processing (NLP) techniques. The findings reveal key sources of complexity within the regulatory landscape, divided into five domains: (A) Regulatory language complexity, (B) Intricacies within the regulatory process, (C) Global-level complexities, (D) Database-related considerations, and (E) Product-level issues. The participants highlighted the need for strategies to streamline regulatory compliance, enhance interactions between regulatory bodies and industry players, and develop adaptable frameworks for rapid technological advancements. Emphasizing interdisciplinary collaboration and increased transparency, the study concludes that these elements are vital for establishing coherent and effective regulatory procedures in the medical device sector.
Adjustable Molecular Representation for Unified Pre-training Strategy
Ding, Yan, Cheng, Hao, Ye, Zeliang, Feng, Ruyi, Gu, Zhongze
We propose a new large-scale molecular model, named AdaMR, which stands for Adjustable Molecular Representation for Unified Pre-training Strategy. Unlike recent large-scale molecular models that use a single molecular encoding, AdaMR employs a granularity-adjustable molecular encoder, learning molecular representations at both the atomic and substructure levels. For the pretraining process, we designed a task for molecular canonicalization, which involves transforming multiple generic molecular representations into canonical representations. By adjusting the granularity of molecular encoding, the trained model can improve the effects on multiple downstream tasks, such as model attribute prediction and molecule generation. Substructure-level molecular representation retains information of specific atom groups or arrangements that determine chemical properties and have similar functions, which is beneficial for tasks like property prediction. Meanwhile, atomic-level representation, combined with generative molecular canonicalization pre-training tasks, enhances the validity, novelty, and uniqueness in generative tasks. These features of AdaMR demonstrate its strong performance in numerous downstream tasks. We use different molecular properties prediction tasks on six different datasets on MoleculeNet and two generative tasks on ZINC250K dataset to evaluate our proposed molecular encoding and pre-training methods, and obtain state-of-the-art (SOTA) results on five of these tasks.
Artificial intelligence experts share 6 of the biggest AI innovations of 2023: 'A landmark year'
Fox News contributor Dr. Marc Siegel weighs in on how artificial intelligence can change the patient-doctor relationship on'America's Newsroom.' If you received medical care any time this year, there's a good chance you had a close encounter with artificial intelligence. Widely regarded as the breakout year for AI, 2023 ushered in a whole crop of new and improved tech tools, many of which have impacted the health and wellness space. "2023 has been a landmark year for AI in health care, witnessing groundbreaking advancements that have reshaped medical practices and paved the way for a future where health care is more personalized, efficient and accessible," Dr. Harvey Castro, a Dallas, Texas-based board-certified emergency medicine physician and national speaker on AI in health care, told Fox News Digital. WHAT IS ARTIFICIAL INTELLIGENCE (AI)?
FedECA: A Federated External Control Arm Method for Causal Inference with Time-To-Event Data in Distributed Settings
Terrail, Jean Ogier du, Klopfenstein, Quentin, Li, Honghao, Mayer, Imke, Loiseau, Nicolas, Hallal, Mohammad, Balazard, Félix, Andreux, Mathieu
External control arms (ECA) can inform the early clinical development of experimental drugs and provide efficacy evidence for regulatory approval in non-randomized settings. However, the main challenge of implementing ECA lies in accessing real-world data or historical clinical trials. Indeed, data sharing is often not feasible due to privacy considerations related to data leaving the original collection centers, along with pharmaceutical companies' competitive motives. In this paper, we leverage a privacy-enhancing technology called federated learning (FL) to remove some of the barriers to data sharing. We introduce a federated learning inverse probability of treatment weighted (IPTW) method for time-to-event outcomes called FedECA which eases the implementation of ECA by limiting patients' data exposure. We show with extensive experiments that FedECA outperforms its closest competitor, matching-adjusted indirect comparison (MAIC), in terms of statistical power and ability to balance the treatment and control groups. To encourage the use of such methods, we publicly release our code which relies on Substra, an open-source FL software with proven experience in privacy-sensitive contexts.
Analyzing Public Reactions, Perceptions, and Attitudes during the MPox Outbreak: Findings from Topic Modeling of Tweets
Thakur, Nirmalya, Duggal, Yuvraj Nihal, Liu, Zihui
The recent outbreak of the MPox virus has resulted in a tremendous increase in the usage of Twitter. Prior works in this area of research have primarily focused on the sentiment analysis and content analysis of these Tweets, and the few works that have focused on topic modeling have multiple limitations. This paper aims to address this research gap and makes two scientific contributions to this field. First, it presents the results of performing Topic Modeling on 601,432 Tweets about the 2022 Mpox outbreak that were posted on Twitter between 7 May 2022 and 3 March 2023. The results indicate that the conversations on Twitter related to Mpox during this time range may be broadly categorized into four distinct themes - Views and Perspectives about Mpox, Updates on Cases and Investigations about Mpox, Mpox and the LGBTQIA+ Community, and Mpox and COVID-19. Second, the paper presents the findings from the analysis of these Tweets. The results show that the theme that was most popular on Twitter (in terms of the number of Tweets posted) during this time range was Views and Perspectives about Mpox. This was followed by the theme of Mpox and the LGBTQIA+ Community, which was followed by the themes of Mpox and COVID-19 and Updates on Cases and Investigations about Mpox, respectively. Finally, a comparison with related studies in this area of research is also presented to highlight the novelty and significance of this research work.
Mining Patents with Large Language Models Elucidates the Chemical Function Landscape
Kosonocky, Clayton W., Wilke, Claus O., Marcotte, Edward M., Ellington, Andrew D.
The fundamental goal of small molecule discovery is to generate chemicals with target functionality. While this often proceeds through structure-based methods, we set out to investigate the practicality of orthogonal methods that leverage the extensive corpus of chemical literature. We hypothesize that a sufficiently large text-derived chemical function dataset would mirror the actual landscape of chemical functionality. Such a landscape would implicitly capture complex physical and biological interactions given that chemical function arises from both a molecule's structure and its interacting partners. To evaluate this hypothesis, we built a Chemical Function (CheF) dataset of patent-derived functional labels. This dataset, comprising 631K molecule-function pairs, was created using an LLM- and embedding-based method to obtain functional labels for approximately 100K molecules from their corresponding 188K unique patents. We carry out a series of analyses demonstrating that the CheF dataset contains a semantically coherent textual representation of the functional landscape congruent with chemical structural relationships, thus approximating the actual chemical function landscape. We then demonstrate that this text-based functional landscape can be leveraged to identify drugs with target functionality using a model able to predict functional profiles from structure alone. We believe that functional label-guided molecular discovery may serve as an orthogonal approach to traditional structure-based methods in the pursuit of designing novel functional molecules.
CDRH Seeks Public Comment: Digital Health Technologies for Detecting Prediabetes and Undiagnosed Type 2 Diabetes
This document provides responses to the FDA's request for public comments (Docket No FDA 2023 N 4853) on the role of digital health technologies (DHTs) in detecting prediabetes and undiagnosed type 2 diabetes. It explores current DHT applications in prevention, detection, treatment and reversal of prediabetes, highlighting AI chatbots, online forums, wearables and mobile apps. The methods employed by DHTs to capture health signals like glucose, diet, symptoms and community insights are outlined. Key subpopulations that could benefit most from remote screening tools include rural residents, minority groups, high-risk individuals and those with limited healthcare access. Capturable high-impact risk factors encompass glycemic variability, cardiovascular parameters, respiratory health, blood biomarkers and patient reported symptoms. An array of non-invasive monitoring tools are discussed, although further research into their accuracy for diverse groups is warranted. Extensive health datasets providing immense opportunities for AI and ML based risk modeling are presented. Promising techniques leveraging EHRs, imaging, wearables and surveys to enhance screening through AI and ML algorithms are showcased. Analysis of social media and streaming data further allows disease prediction across populations. Ongoing innovation focused on inclusivity and accessibility is highlighted as pivotal in unlocking DHTs potential for transforming prediabetes and diabetes prevention and care.
SE(3)-Invariant Multiparameter Persistent Homology for Chiral-Sensitive Molecular Property Prediction
Demir, Andac, Prael, Francis III, Kiziltan, Bulent
In this study, we present a novel computational method for generating molecular fingerprints using multiparameter persistent homology (MPPH). This technique holds considerable significance for drug discovery and materials science, where precise molecular property prediction is vital. By integrating SE(3)-invariance with Vietoris-Rips persistent homology, we effectively capture the three-dimensional representations of molecular chirality. This non-superimposable mirror image property directly influences the molecular interactions, serving as an essential factor in molecular property prediction. We explore the underlying topologies and patterns in molecular structures by applying Vietoris-Rips persistent homology across varying scales and parameters such as atomic weight, partial charge, bond type, and chirality. Our method's efficacy can be improved by incorporating additional parameters such as aromaticity, orbital hybridization, bond polarity, conjugated systems, as well as bond and torsion angles. Additionally, we leverage Stochastic Gradient Langevin Boosting in a Bayesian ensemble of GBDTs to obtain aleatoric and epistemic uncertainty estimates for gradient boosting models. With these uncertainty estimates, we prioritize high-uncertainty samples for active learning and model fine-tuning, benefiting scenarios where data labeling is costly or time consuming. Compared to conventional GNNs which usually suffer from oversmoothing and oversquashing, MPPH provides a more comprehensive and interpretable characterization of molecular data topology. We substantiate our approach with theoretical stability guarantees and demonstrate its superior performance over existing state-of-the-art methods in predicting molecular properties through extensive evaluations on the MoleculeNet benchmark datasets.