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Health care Experiences of Educated Young Adults With Blindness in the Digital Age: Qualitative Study

✇Journal of Medical Internet Research
By: Junling Zhao · Can Su · Xiji Zhu · Cong Cai · Wei Liu · Xiaochen Ma
Background: The rapid advancement of digital health technologies (DHTs) offers substantial potential for improving healthcare access, yet it simultaneously risks exacerbating existing inequities for marginalized populations. Previous research on the digital divide has often treated individuals with blindness as a homogenous group, primarily focusing on barriers related to digital access and skills. However, less is known about the nuanced experiences of specific subgroups, such as educated and digitally literate young adults. This study focuses on this demographic to understand how their advanced digital capabilities interact with systemic and infrastructural barriers in healthcare. Objective: This qualitative study aimed to explore the lived healthcare experiences of educated young adults with blindness in China, specifically identifying how DHTs simultaneously contribute to their empowerment and exclusion. Methods: Eligible participants were educated young adults with blindness in China (aged 18-30 years, Mandarin speakers, smartphone users, and holding or pursuing higher education). A total of 12 semi-structured interviews were conducted in Mandarin during September 2024. All interviews were audio-recorded and transcribed verbatim. An inductive thematic analysis was employed to interpret the data and identify key themes. Results: Participants’ experiences highlighted an “empowered but excluded” dynamic. Seven key themes emerged, categorized into empowerment and exclusion. Empowerment themes included: (1) digital platforms empowering self-management and healthcare access, where DHTs enabled independent appointment booking and access to comprehensive health information; and (2) digital platforms empowering for finding medical visit companions, facilitating the discovery of companions for physical and emotional support. Exclusion themes comprised: (3) inaccessible online appointment systems, due to non-inclusive designs; (4) inaccessible healthcare environments and information formats, stemming from non-accessible self-service machines and written materials; (5) lack of provider competencies in respecting patient autonomy, as providers often assumed digital incompetence; (6) data privacy and security concerns, heightened by increased digitalization and reliance on assistive tools; and (7) challenges related to the quality and consistency of online companion support, highlighting the limitations of platform-based assistance. Conclusions: Our findings reveal an “empowered but excluded” dynamic: the potential for digital empowerment and enhanced independence is often curtailed by systematic barriers. Addressing this necessitates a multifaceted approach: enhancing technological accessibility through robust standards adherence and inclusive co-design processes; improving healthcare provider competencies in patient-centered care via targeted training; and empowering educated young blind adults by building their capacity for self-determination to achieve equitable healthcare access.
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Benchmark on Drug Target Interaction Modeling from a Drug Structure Perspective

✇cs.AI, q-bio.NC updates on arXiv.org
By: Xinnan Zhang · Jialin Wu · Junyi Xie · Tianlong Chen · Kaixiong Zhou
arXiv:2407.04055v2 Announce Type: replace-cross Abstract: The prediction modeling of drug-target interactions is crucial to drug discovery and design, which has seen rapid advancements owing to deep learning technologies. Recently developed methods, such as those based on graph neural networks (GNNs) and Transformers, demonstrate exceptional performance across various datasets by effectively extracting structural information. However, the benchmarking of these novel methods often varies significantly in terms of hyperparameter settings and datasets, which limits algorithmic progress. In view of these, we conducted a comprehensive survey and benchmark for drug-target interaction modeling from a structural perspective via integrating tens of explicit (i.e., GNN-based) and implicit (i.e., Transformer-based) structure learning algorithms. We conducted a macroscopical comparison between these two classes of encoding strategies as well as the different featurization techniques that inform molecules' chemical and physical properties. We then carry out the microscopical comparison between all the integrated models across the six datasets via comprehensively benchmarking their effectiveness and efficiency. To ensure fairness, we investigate model performance under individually optimized configuration. Remarkably, the summarized insights from the benchmark studies lead to the design of model combos. We demonstrate that our combos can achieve new state-of-the-art performance on various datasets associated with cost-effective memory and computation.
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A Workflow for Full Traceability of AI Decisions

✇cs.AI, q-bio.NC updates on arXiv.org
By: Julius Wenzel · Syeda Umaima Alam · Andreas Schmidt · Hanwei Zhang · Holger Hermanns
arXiv:2511.11275v2 Announce Type: replace Abstract: An ever increasing number of high-stake decisions are made or assisted by automated systems employing brittle artificial intelligence technology. There is a substantial risk that some of these decision induce harm to people, by infringing their well-being or their fundamental human rights. The state-of-the-art in AI systems makes little effort with respect to appropriate documentation of the decision process. This obstructs the ability to trace what went into a decision, which in turn is a prerequisite to any attempt of reconstructing a responsibility chain. Specifically, such traceability is linked to a documentation that will stand up in court when determining the cause of some AI-based decision that inadvertently or intentionally violates the law. This paper takes a radical, yet practical, approach to this problem, by enforcing the documentation of each and every component that goes into the training or inference of an automated decision. As such, it presents the first running workflow supporting the generation of tamper-proof, verifiable and exhaustive traces of AI decisions. In doing so, we expand the DBOM concept into an effective running workflow leveraging confidential computing technology. We demonstrate the inner workings of the workflow in the development of an app to tell poisonous and edible mushrooms apart, meant as a playful example of high-stake decision support.
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The dual immunomodulatory role of B cells in tumorigenesis: mechanisms, microenvironment crosstalk, and therapeutic implications

✇(Multiomics OR Omics) AND (Pancreatic)
By: Zhuangwei Lv · Ruohao Yang · Kai Zhang · Ruihan Wang · Xiaoyu Shi · Jinhua Wu · LuLu Liu · Junna Jiao

Front Immunol. 2025 Oct 30;16:1649812. doi: 10.3389/fimmu.2025.1649812. eCollection 2025.

ABSTRACT

B lymphocytes exhibit a multifaceted and context-dependent role in tumor biology, acting as both promoters and suppressors of malignancy through dynamic interactions within the tumor microenvironment (TME). This review synthesizes current evidence on the dual functions of B cells in tumor immunity, highlighting their capacity to orchestrate antitumor responses via antigen presentation, antibody-dependent cytotoxicity, and tertiary lymphoid structure (TLS)-mediated T cell activation, while paradoxically driving immunosuppression through regulatory B cells (Bregs), pro-angiogenic signaling, and immune checkpoint modulation. Key mechanisms include TLS formation, which enhances cytotoxic T cell priming and correlates with improved immunotherapy outcomes, and Breg-mediated secretion of IL-10/TGF-β, which fosters T cell exhaustion and myeloid-derived suppressor cell recruitment. Tumor-type specificity is evident: TLS-rich malignancies like melanoma and Non-Small Cell Lung Cancer (NSCLC) show B cell-driven immune activation, whereas pancreatic and hepatocellular carcinomas demonstrate B cell functional plasticity influenced by metabolic and epigenetic reprogramming. Therapeutically, B cell-targeted strategies-including CD20 antibodies, CAR-T cells, and B cell epitope vaccines-demonstrate efficacy in hematologic and solid tumors, yet face challenges due to subset heterogeneity and sex-specific response disparities. Emerging approaches combine immune checkpoint inhibitors (ICBs) with TLS-inducing agents or exploit B cell-derived biomarkers for personalized therapy. Future directions emphasize deciphering B cell metabolic-niche crosstalk, optimizing combinatorial regimens, and leveraging spatial multiomics to resolve functional heterogeneity. By bridging mechanistic insights with clinical translation, this work underscores B cells as pivotal regulators of tumor immunity and advocates for precision strategies to harness their antitumor potential while mitigating pro-tumor plasticity.

PMID:41246318 | PMC:PMC12611826 | DOI:10.3389/fimmu.2025.1649812

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MedFuse: Multiplicative Embedding Fusion For Irregular Clinical Time Series

✇cs.AI, q-bio.NC updates on arXiv.org
By: Yi-Hsien Hsieh · Ta-Jung Chien · Chun-Kai Huang · Shao-Hua Sun · Che Lin
arXiv:2511.09247v1 Announce Type: new Abstract: Clinical time series derived from electronic health records (EHRs) are inherently irregular, with asynchronous sampling, missing values, and heterogeneous feature dynamics. While numerical laboratory measurements are highly informative, existing embedding strategies usually combine feature identity and value embeddings through additive operations, which constrains their ability to capture value-dependent feature interactions. We propose MedFuse, a framework for irregular clinical time series centered on the MuFuse (Multiplicative Embedding Fusion) module. MuFuse fuses value and feature embeddings through multiplicative modulation, preserving feature-specific information while modeling higher-order dependencies across features. Experiments on three real-world datasets covering both intensive and chronic care show that MedFuse consistently outperforms state-of-the-art baselines on key predictive tasks. Analysis of the learned representations further demonstrates that multiplicative fusion enhances expressiveness and supports cross-dataset pretraining. These results establish MedFuse as a generalizable approach for modeling irregular clinical time series.
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LLM4AD: Large Language Models for Autonomous Driving - Concept, Review, Benchmark, Experiments, and Future Trends

✇cs.AI, q-bio.NC updates on arXiv.org
By: Can Cui · Yunsheng Ma · Sung-Yeon Park · Zichong Yang · Yupeng Zhou · Juanwu Lu · Juntong Peng · Jiaru Zhang · Ruqi Zhang · Lingxi Li · Yaobin Chen · Jitesh H. Panchal · Amr Abdelraouf · Rohit Gupta · Kyungtae Han · Ziran Wang
arXiv:2410.15281v4 Announce Type: replace-cross Abstract: With the broader adoption and highly successful development of Large Language Models (LLMs), there has been growing interest and demand for applying LLMs to autonomous driving technology. Driven by their natural language understanding and reasoning capabilities, LLMs have the potential to enhance various aspects of autonomous driving systems, from perception and scene understanding to interactive decision-making. In this paper, we first introduce the novel concept of designing Large Language Models for Autonomous Driving (LLM4AD), followed by a review of existing LLM4AD studies. Then, we propose a comprehensive benchmark for evaluating the instruction-following and reasoning abilities of LLM4AD systems, which includes LaMPilot-Bench, CARLA Leaderboard 1.0 Benchmark in simulation and NuPlanQA for multi-view visual question answering. Furthermore, we conduct extensive real-world experiments on autonomous vehicle platforms, examining both on-cloud and on-edge LLM deployment for personalized decision-making and motion control. Next, we explore the future trends of integrating language diffusion models into autonomous driving, exemplified by the proposed ViLaD (Vision-Language Diffusion) framework. Finally, we discuss the main challenges of LLM4AD, including latency, deployment, security and privacy, safety, trust and transparency, and personalization.
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Large Language Model Benchmarks in Medical Tasks

✇cs.AI, q-bio.NC updates on arXiv.org
By: Lawrence K. Q. Yan · Qian Niu · Ming Li · Yichao Zhang · Caitlyn Heqi Yin · Cheng Fei · Benji Peng · Ziqian Bi · Pohsun Feng · Keyu Chen · Tianyang Wang · Yunze Wang · Silin Chen · Ming Liu · Junyu Liu · Xinyuan Song · Riyang Bao · Zekun Jiang · Ziyuan Qin
arXiv:2410.21348v3 Announce Type: replace-cross Abstract: With the increasing application of large language models (LLMs) in the medical domain, evaluating these models' performance using benchmark datasets has become crucial. This paper presents a comprehensive survey of various benchmark datasets employed in medical LLM tasks. These datasets span multiple modalities including text, image, and multimodal benchmarks, focusing on different aspects of medical knowledge such as electronic health records (EHRs), doctor-patient dialogues, medical question-answering, and medical image captioning. The survey categorizes the datasets by modality, discussing their significance, data structure, and impact on the development of LLMs for clinical tasks such as diagnosis, report generation, and predictive decision support. Key benchmarks include MIMIC-III, MIMIC-IV, BioASQ, PubMedQA, and CheXpert, which have facilitated advancements in tasks like medical report generation, clinical summarization, and synthetic data generation. The paper summarizes the challenges and opportunities in leveraging these benchmarks for advancing multimodal medical intelligence, emphasizing the need for datasets with a greater degree of language diversity, structured omics data, and innovative approaches to synthesis. This work also provides a foundation for future research in the application of LLMs in medicine, contributing to the evolving field of medical artificial intelligence.
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Stereo-seq V2: Spatial mapping of total RNA on FFPE sections with high resolution

✇Cell
By: Yu Zhao · Young Li · Ying He · Junqi Wu · Yi Liu · Xinxing Li · Zhaoxun Li · Qiaomei Yuan · Jialuo Li · Xinya Zhang · Xiaole Hu · Guifang Wu · Ying Qiu · Jie Yuan · Xin Huang · Mengru Xu · Mei Yang · Jing Guo · Tingting Cao · Qiuling Chen · Dandan Li · Jiajun Zhang · Xiaoxi Zhou · Xia Jiang · Fan Zhu · Xuan Dong · Rong Xiang · Hailin Pan · Lei Han · Ziqing Deng · Haohao Deng · Yan Zhang · Maoyuan Liu · Qin Wu · Gaoyang Wang · Jie Zhai · Weihong Tan · Xiawei Liu · Zehao Wang · Shanshan Li · Tianbi Duan · Longqi Liu · Ao Chen · Haiying Liu · Chang Chen · Sha Liao · Xun Xu
Stereo-seq V2 facilitates single-cell-resolution spatial RNA mapping in FFPE samples through random primer capture, uncovering ncRNAs, host-pathogen transcriptome profiling, and spatial immune repertoires in situ.
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Targeted inhibition of gastric adenocarcinoma by nano-curcumin liposomes: Insights from combined machine learning and experimental analyses into the mechanisms of cuproptosis and metabolic reprogramming

✇(Multiomics OR Omics) AND (Lung OR gastric OR Hepatocellular)
By: Jun-Feng Cao · Kuan Hang · Chunlu Tan · Zuowei Wu · Ziheng Guo · Qingjie Xia · Dunshui Liao · Zengliang Xia · Jie Men · Kezhou Li

Int J Pharm. 2025 Nov 9:126368. doi: 10.1016/j.ijpharm.2025.126368. Online ahead of print.

ABSTRACT

PURPOSE: Gastric adenocarcinoma is a highly aggressive malignancy characterized by a complex tumor microenvironment. Nano-curcumin liposomes hold great potential in inhibiting tumor growth and survival, as well as inducing cuproptosis and oxidative stress. Although the anticancer properties of curcumin have been demonstrated, the specific mechanisms by which curcumin inhibites gastric adenocarcinoma through cuproptosis remains unclear. This study investigated how nano-curcumin liposomes mediated the inhibition of gastric adenocarcinoma cell proliferation and survival via cuproptosis.

METHODS: This study utilized the gastric adenocarcinoma cell line AGS to establish 2D and 3D in vitro gastric adenocarcinoma models. Furthermore, we prepared nano-curcumin liposomes to investigate their effects and regulatory mechanisms on AGS gastric adenocarcinoma models. A series of in vitro assays, including flow cytometry, CCK-8, scratch assays and morphological assessments, were performed to evaluate the effects of nano-curcumin liposomes on cell apoptosis, proliferation and migration. Additionally, bioinformatics and machine learning methods were employed to identify key targets that inhibited gastric adenocarcinoma growth and survival associated with nano-curcumin liposomes, which were further validated through RT-qPCR and omics analysis. Computer simulations were also conducted to assess the stability of binding interactions between curcumin and key target proteins.

RESULTS: Cellular experiments demonstrated that nano-curcumin liposomes significantly inhibited proliferation and invasive capacity of gastric adenocarcinoma cells while promoting cellular oxidative stress. Bioinformatics and machine learning analyses identified FDX1, GPX4, SERPINE1 and SLC27A5 as key targets. RT-qPCR results confirmed that nano-curcumin liposomes significantly downregulated the expression of these targets. Molecular dynamics simulations indicated that curcumin could form stable binding interactions with key protein targets.

CONCLUSION: This study revealed that nano-curcumin liposomes inhibited growth and survival of gastric adenocarcinoma cells by interfering with the expression of FDX1, GPX4, SERPINE1 and SLC27A5, which were closely linked to copper-induced oxidative stress. Nano-curcumin liposomes downregulated the expression of FDX1 and GPX4, disrupted mitochondrial energy metabolism, and induced oxidative stress, thereby promoting tumor-associated programmed cell death linked to cuproptosis. Furthermore, by downregulating SERPINE1, nano-curcumin liposomes modulated cell adhesion and migration, inhibiting the invasive and metastatic potential of tumor cells. Finally, downregulation of SLC27A5 altered tumor metabolism and cellular homeostasis, induced oxidative stress, and disrupted intracellular environmental stability, thereby suppressing the growth of gastric adenocarcinoma.

PMID:41218732 | DOI:10.1016/j.ijpharm.2025.126368

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Self-Correction Distillation for Structured Data Question Answering

✇cs.AI, q-bio.NC updates on arXiv.org
By: Yushan Zhu · Wen Zhang · Long Jin · Mengshu Sun · Ling Zhong · Zhiqiang Liu · Juan Li · Lei Liang · Chong Long · Chao Deng · Junlan Feng
arXiv:2511.07998v1 Announce Type: cross Abstract: Structured data question answering (QA), including table QA, Knowledge Graph (KG) QA, and temporal KG QA, is a pivotal research area. Advances in large language models (LLMs) have driven significant progress in unified structural QA frameworks like TrustUQA. However, these frameworks face challenges when applied to small-scale LLMs since small-scale LLMs are prone to errors in generating structured queries. To improve the structured data QA ability of small-scale LLMs, we propose a self-correction distillation (SCD) method. In SCD, an error prompt mechanism (EPM) is designed to detect errors and provide customized error messages during inference, and a two-stage distillation strategy is designed to transfer large-scale LLMs' query-generation and error-correction capabilities to small-scale LLM. Experiments across 5 benchmarks with 3 structured data types demonstrate that our SCD achieves the best performance and superior generalization on small-scale LLM (8B) compared to other distillation methods, and closely approaches the performance of GPT4 on some datasets. Furthermore, large-scale LLMs equipped with EPM surpass the state-of-the-art results on most datasets.
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SCoTT: Strategic Chain-of-Thought Tasking for Wireless-Aware Robot Navigation in Digital Twins

✇cs.AI, q-bio.NC updates on arXiv.org
By: Aladin Djuhera · Amin Seffo · Vlad C. Andrei · Holger Boche · Walid Saad
arXiv:2411.18212v3 Announce Type: replace-cross Abstract: Path planning under wireless performance constraints is a complex challenge in robot navigation. However, naively incorporating such constraints into classical planning algorithms often incurs prohibitive search costs. In this paper, we propose SCoTT, a wireless-aware path planning framework that leverages vision-language models (VLMs) to co-optimize average path gains and trajectory length using wireless heatmap images and ray-tracing data from a digital twin (DT). At the core of our framework is Strategic Chain-of-Thought Tasking (SCoTT), a novel prompting paradigm that decomposes the exhaustive search problem into structured subtasks, each solved via chain-of-thought prompting. To establish strong baselines, we compare classical A* and wireless-aware extensions of it, and derive DP-WA*, an optimal, iterative dynamic programming algorithm that incorporates all path gains and distance metrics from the DT, but at significant computational cost. In extensive experiments, we show that SCoTT achieves path gains within 2% of DP-WA* while consistently generating shorter trajectories. Moreover, SCoTT's intermediate outputs can be used to accelerate DP-WA* by reducing its search space, saving up to 62% in execution time. We validate our framework using four VLMs, demonstrating effectiveness across both large and small models, thus making it applicable to a wide range of compact models at low inference cost. We also show the practical viability of our approach by deploying SCoTT as a ROS node within Gazebo simulations. Finally, we discuss data acquisition pipelines, compute requirements, and deployment considerations for VLMs in 6G-enabled DTs, underscoring the potential of natural language interfaces for wireless-aware navigation in real-world applications.
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multiMentalRoBERTa: A Fine-tuned Multiclass Classifier for Mental Health Disorder

✇cs.AI, q-bio.NC updates on arXiv.org
By: K M Sajjadul Islam · John Fields · Praveen Madiraju
arXiv:2511.04698v1 Announce Type: cross Abstract: The early detection of mental health disorders from social media text is critical for enabling timely support, risk assessment, and referral to appropriate resources. This work introduces multiMentalRoBERTa, a fine-tuned RoBERTa model designed for multiclass classification of common mental health conditions, including stress, anxiety, depression, post-traumatic stress disorder (PTSD), suicidal ideation, and neutral discourse. Drawing on multiple curated datasets, data exploration is conducted to analyze class overlaps, revealing strong correlations between depression and suicidal ideation as well as anxiety and PTSD, while stress emerges as a broad, overlapping category. Comparative experiments with traditional machine learning methods, domain-specific transformers, and prompting-based large language models demonstrate that multiMentalRoBERTa achieves superior performance, with macro F1-scores of 0.839 in the six-class setup and 0.870 in the five-class setup (excluding stress), outperforming both fine-tuned MentalBERT and baseline classifiers. Beyond predictive accuracy, explainability methods, including Layer Integrated Gradients and KeyBERT, are applied to identify lexical cues that drive classification, with a particular focus on distinguishing depression from suicidal ideation. The findings emphasize the effectiveness of fine-tuned transformers for reliable and interpretable detection in sensitive contexts, while also underscoring the importance of fairness, bias mitigation, and human-in-the-loop safety protocols. Overall, multiMentalRoBERTa is presented as a lightweight, robust, and deployable solution for enhancing support in mental health platforms.
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Nurses’ Perspectives on Evidence Dissemination Barriers and Large Language Model–Based Support: Qualitative Study Using Focus Groups and Nominal Group Technique

✇Journal of Medical Internet Research
By: Junyi Ruan · Yimin Tang · Zhongyu Wei · Weijie Xing · Yan Hu
Background: Current evidence dissemination methods fall short of meeting clinical nurses’ needs, hindering the implementation of evidence-based nursing practice. Large language models (LLMs), with their advanced natural language processing capabilities, offer potential as innovative tools to facilitate evidence dissemination. However, general-purpose LLMs typically lack domain-specific knowledge, are insufficient to support effective evidence dissemination in clinical contexts. It is essential to develop artificial intelligence tools tailored to nurses’ needs and preferences to enhance evidence dissemination. Objective: The aim of this study is to identify the challenges and barriers clinical nurses face in disseminating evidence, examine their perspectives on the use of existing LLMs to support evidence dissemination, and explore their needs and preferences regarding an LLM-based nursing evidence question-answering system. Methods: This qualitative study used a combined method of focus group discussions and the nominal group technique (NGT). Using purposive sampling, nurses with diverse specialties, professional titles, and years of experience were recruited, resulting in a total of 22 clinical nurses who completed the entire study. A total of 2 focus group discussions were conducted online via Tencent Meeting between November and December 2024 to explore the challenges and barriers nurses face in disseminating evidence, as well as their perspectives on using existing LLMs to support evidence dissemination. The data were analyzed using qualitative content analysis following the approach of Graneheim and Lundman. Subsequently, the NGT was used between March and April 2025 to identify nurses’ needs and preferences for the system to be developed. To overcome geographical constraints and participants’ busy schedules, the NGT was conducted entirely online, using online questionnaires and WeChat groups. Overall, 2 rounds of voting were conducted to determine the priority ranking of the functionalities. Results: The focus group yielded 3 main themes and 7 subthemes. Three main themes were identified as (1) pathways for evidence dissemination among nurses, (2) barriers that hinder the effective dissemination of evidence, and (3) advantages and limitations of using LLMs to support evidence dissemination. The limitations of current LLMs served as the foundation for nurses’ subsequent reflections in the nominal group discussions on the desired functions of a newly developed LLM. The NGT sessions ultimately identified 9 desired functions. After prioritization, the top 3 ranked functions were evidence-based, high-quality question-answering, evidence source provision, and personalized evidence recommendation. Conclusions: The current evidence dissemination process faces multiple barriers. LLMs hold promise as innovative tools to support evidence dissemination, but require further refinement. Clinical nurses have identified key functional needs, guiding the development of LLMs specifically tailored to clinical nursing practice.
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CoTox: Chain-of-Thought-Based Molecular Toxicity Reasoning and Prediction

✇cs.AI, q-bio.NC updates on arXiv.org
By: Jueon Park · Yein Park · Minju Song · Soyon Park · Donghyeon Lee · Seungheun Baek · Jaewoo Kang
arXiv:2508.03159v2 Announce Type: replace-cross Abstract: Drug toxicity remains a major challenge in pharmaceutical development. Recent machine learning models have improved in silico toxicity prediction, but their reliance on annotated data and lack of interpretability limit their applicability. This limits their ability to capture organ-specific toxicities driven by complex biological mechanisms. Large language models (LLMs) offer a promising alternative through step-by-step reasoning and integration of textual data, yet prior approaches lack biological context and transparent rationale. To address this issue, we propose CoTox, a novel framework that integrates LLM with chain-of-thought (CoT) reasoning for multi-toxicity prediction. CoTox combines chemical structure data, biological pathways, and gene ontology (GO) terms to generate interpretable toxicity predictions through step-by-step reasoning. Using GPT-4o, we show that CoTox outperforms both traditional machine learning and deep learning model. We further examine its performance across various LLMs to identify where CoTox is most effective. Additionally, we find that representing chemical structures with IUPAC names, which are easier for LLMs to understand than SMILES, enhances the model's reasoning ability and improves predictive performance. To demonstrate its practical utility in drug development, we simulate the treatment of relevant cell types with drug and incorporated the resulting biological context into the CoTox framework. This approach allow CoTox to generate toxicity predictions aligned with physiological responses, as shown in case study. This result highlights the potential of LLM-based frameworks to improve interpretability and support early-stage drug safety assessment. The code and prompt used in this work are available at https://github.com/dmis-lab/CoTox.
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Site-specific DNA insertion into the human genome with engineered recombinases

✇Nature Biotechnology - Issue - nature.com science feeds
By: Alison Fanton · Liam J. Bartie · Juliana Q. Martins · Vincent Q. Tran · Laine Goudy · Courtney Kernick · Matthew G. Durrant · Jingyi Wei · Zev Armour-Garb · April Pawluk · Silvana Konermann · Alexander Marson · Luke A. Gilbert · Theodore L. Roth · Patrick D. Hsu

Nature Biotechnology, Published online: 06 November 2025; doi:10.1038/s41587-025-02895-3

Engineered DNA recombinases efficiently and specifically insert genetic cargos without the use of landing pads.
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Evaluating clinical AI summaries with large language models as judges

✇npj Digital Medicine
By: Emma Croxford · Yanjun Gao · Elliot First · Nicholas Pellegrino · Miranda Schnier · John Caskey · Madeline Oguss · Graham Wills · Guanhua Chen · Dmitriy Dligach · Matthew M. Churpek · Anoop Mayampurath · Frank Liao · Cherodeep Goswami · Karen K. Wong · Brian W. Patterson · Majid Afshar

npj Digital Medicine, Published online: 05 November 2025; doi:10.1038/s41746-025-02005-2

Evaluating clinical AI summaries with large language models as judges
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Key Features of Digital Phenotyping for Monitoring Mental Disorders: Systematic Review

✇Journal of Medical Internet Research
By: Hyun Woo Jung · Do Yeon Kim · Ilju Lee · Ok Kim · Seungjin Lee · Sujin Lee · Un Sun Chung · Jae-Hyun Kim · Sehwan Kim · Jung Won Kim · Ah Lahm Shin · Jung Jae Lee
Background: The COVID-19 pandemic has intensified mental health issues globally, highlighting the urgent need for remote mental health monitoring. Digital phenotyping using smart devices has emerged as a promising approach, but it remains unclear which features are essential for predicting depression and anxiety. Objective: This systematic review aimed to identify the types of features collected through smart packages—integrated systems combining smartphones with wearable devices such as Actiwatches, smartbands, and smartwatches—and to determine which features should be considered essential for mental health monitoring based on the type of device used. Methods: A systematic review was conducted. Searches were performed across Web of Science, PubMed, and Scopus on February 5, 2025. Inclusion criteria comprised quantitative studies involving adults (≥19 years) using smart devices to predict depression or anxiety based on passive data collection. Studies focusing solely on smartphones or qualitative designs were excluded. Risk of bias was assessed using the Mixed Methods Appraisal Tool and Quality Criteria Checklist. Data were synthesized descriptively, and the relative contribution of each feature was further assessed by calculating coverage (proportion of studies using a feature) and importance among used (proportion identifying it as important when used). These metrics were visualized in quadrant-based scatter plots to identify consistently important features across devices. Results: From 1,382 records, 22 studies across 11 countries were included. The overall synthesis identified a core feature package—accelerometer (ACC), steps, Heart Rate (HR), and sleep. Device-specific analyses revealed further nuances: In Actiwatch studies, ACC and activity were consistently important, but sleep features were rarely examined. In smartbands, HR, steps, sleep, and phone usage were essential, while Global Positioning System (GPS), Electrodermal Activity (EDA), and skin temperature (TEMP) showed high importance when used, suggesting opportunities for broader adoption. In smartwatch studies, sleep and HR emerged as core features, whereas steps and ACC were widely used but often not identified as important. Conclusions: This systematic review identified a core feature package comprising ACC, steps, HR, and sleep that consistently contributes to mood disorder prediction across devices. At the same time, device-specific differences were observed: Actiwatch studies mainly emphasized ACC and activity but underutilized sleep features; smartbands highlighted HR, steps, sleep, and phone usage, with EDA, TEMP, and GPS showing additional promise; and smartwatches most reliably leveraged sleep and HR, while steps and ACC were widely used yet less effective. These findings suggest that while a shared core set of features exists, optimizing digital phenotyping requires tailoring feature selection to the characteristics of each device type. To advance this field, improving data accessibility, particularly in smartwatch ecosystems, and adopting standardized reporting frameworks will be essential to enhance comparability, reproducibility, and future meta-analytic integration. Clinical Trial: Open Science Framework https://osf.io/nz7k8
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Fair human-centric image dataset for ethical AI benchmarking

✇Nature - Issue - nature.com science feeds
By: Alice Xiang · Jerone T. A. Andrews · Rebecca L. Bourke · William Thong · Julienne M. LaChance · Tiffany Georgievski · Apostolos Modas · Aida Rahmattalabbi · Yunhao Ba · Shruti Nagpal · Orestis Papakyriakopoulos · Dora Zhao · Jinru Xue · Victoria Matthews · Linxia Gong · Austin T. Hoag · Mircea Cimpoi · Swami Sankaranarayanan · Wiebke Hutiri · Morgan K. Scheuerman · Albert S. Abedi · Peter Stone · Peter R. Wurman · Hiroaki Kitano · Michael Spranger

Nature, Published online: 05 November 2025; doi:10.1038/s41586-025-09716-2

The Fair Human-Centric Image Benchmark (FHIBE, pronounced ‘Feebee’)—an image dataset that implements best practices for consent, privacy, compensation, safety, diversity and utility—can be used responsibly as a fairness evaluation dataset for many human-centric computer vision applications.
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