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Problems and Barriers Regarding the Admission, Financing, and Service Provision of Digital Health Apps: Qualitative Stakeholder Survey

✇Journal of Medical Internet Research
By: Felix Plescher · Godwin Denk Giebel · Carina Abels · Silke Neusser · Bonnie Kampka · Kirstin Börchers · Jürgen Wasem · Nikola Blase
Background: Since their introduction with the Digital Care Act in 2019, DiGA are a part of the German statutory healthcare system. In order to become a DiGA, mHealth apps have to complete a certification process covering both technical and evidence related aspects. After completion, DiGA are added to the DiGA-directory, containing a list of all reimbursable DiGA within German statutory health insurance (SHI). The first apps were added at the end of 2020 with the number steadily increasing. The novelty of the introduction leads to problems and barriers to optimal use along the way, which is studied from different stakeholder perspectives in this research article. Objective: The aim of the survey was to identify problems and barriers in the context of certification, financing and use of DiGA in Germany. Methods: We used semi-structured expert interviews to evaluate the perspective of stakeholders of the German healthcare system on DiGA. The interview guide was developed according to Helfferich, the interviews were transcribed and analyzed using the qualitative content approach by Mayring and Kuckartz. Results: We identified problems from stakeholder perspectives regarding the certification/admission, financing and service distribution regarding DiGA. The interviewed stakeholders reported problems with authorization of DiGA and the corresponding process. DiGA prices and the different negotiation positions were criticized, as well as financial challenges for smaller DiGA-manufacturers. Within service provision, technical problems, e. g., with activation codes or software surrounding DiGA-prescription were mentioned. Problems were also seen in insufficient knowledge and skills on the side of the patients as well as the medical providers. Conclusions: mHealth applications provide potentially disruptive innovations within the healthcare sector. Nevertheless, since the evidence-based and regulated use of this technology is relatively new there are still problems and barriers limiting the optimized, patient-centered use. This study provides an overview of problems in the context of DiGA in Germany from the stakeholder perspective. Since other countries showed interest in potentially adopting the German system, valuable implications can be drawn from this survey.
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Quantifying Individual Health Status from Multi-omics Data by Health State Manifold

✇(Multiomics OR Omics) AND (Lung OR gastric OR Hepatocellular)
By: Xinyan Zhang · Chengming Zhang · Yanpu Wu · Xu Lin · Xiaoping Liu · Luonan Chen

Phenomics. 2025 Dec 15;5(5):469-486. doi: 10.1007/s43657-024-00188-4. eCollection 2025 Oct.

ABSTRACT

Quantifying individual health status from increasingly accumulated omics data is essential for both early prevention and intervention of diseases, which attracts great attention from communities of biology and medicine. Most of the existing approaches mainly classify individuals into different catalogues or classes based on phenotypes and biomarkers. However, an individual's health status from a dynamical systems viewpoint can be viewed as a non-equilibrium steady state, which can generally be characterized by two key features, i.e. (1) homeostatic potential that represents the ability of homeostatic resilience to withstand perturbations or maintain functions at the current state/phenotype of this individual and (2) phenotypic potential that represents the state/phenotype of the individual on the whole process from health to disease. Here, we proposed a health state manifold (HSM) method derived from dynamic network biomarker method and diffusion map theory to quantify individual health status with the characterization of such two features in a robust and accurate manner based on multi-omics data. To verify our method, HSM method was applied to the quantification of diabetes mellitus (rat subjects) and the Roux-en-Y Gastric Bypass (human subjects) for both disease progression process and recovery process, which demonstrated its effectiveness and potential for personalized medicine and preventive medicine.

SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1007/s43657-024-00188-4.

PMID:41659741 | PMC:PMC12881232 | DOI:10.1007/s43657-024-00188-4

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Spatial Multi-omics Analyses Reveal Diabetes Promotes Pancreatic Cancer Progression by Stimulating Cholesterol-Induced Neutrophil Extracellular Trap Formation

✇(Multiomics OR Omics) AND (Pancreatic)
By: Guanqun Li · Can Zhang · Tianqi Lu · Ziwei Zhang · Jiafu Wu · Rui Bai · Yan Luo · Fengyi Wang · Yiqin Song · Liwei Liu · Jisheng Hu · Yongwei Wang · Gang Wang · Hongtao Tan · Hua Chen · Rui Kong · Le Li · Bei Sun

Cancer Res. 2026 Feb 9. doi: 10.1158/0008-5472.CAN-25-2854. Online ahead of print.

ABSTRACT

Pancreatic ductal adenocarcinoma (PDAC) patients with diabetes mellitus (DM) exhibit poor clinical outcomes. Metabolic reprogramming of both cancer cells and immune compartments plays a crucial role in shaping the anti-tumor immune response in PDAC. DM-induced metabolic alteration may disrupt the intricate crosstalk between immune cells and tumor-associated immune factors, profoundly influencing PDAC progression. Here, we performed an integrated, spatially resolved multi-omics study to investigate DM-associated, cell-specific metabolic remodeling within the PDAC tumor microenvironment. DM influenced interactions between tumor cells and immune cells, which accelerated PDAC growth in both humans and mice. PDAC patients with DM exhibited higher tumor-stage, poorer differentiation, and worse outcomes. Spatial metabolic and transcriptional profiling revealed that SREBP2-dependent cholesterol biosynthesis exacerbated PDAC progression. Increased cholesterol biosynthesis promoted neutrophil recruitment and accelerated formation of neutrophil extracellular traps (NETs) by stimulating the CXCL1-CXCR1/CXCR2 signaling axis, ultimately promoting PDAC growth. Inhibition of SREBP2, pharmacological blockade of CXCL1, or perturbation of NETs markedly reduced PDAC growth in diabetic mouse models. Together, these multi-omics analyses and follow-up mechanistic studies constitute an integrated approach that elucidates a metabolic mechanism by which diabetes promotes PDAC development by remodeling the tumor immune microenvironment and highlights a potential therapeutic strategy for PDAC with DM.

PMID:41661642 | DOI:10.1158/0008-5472.CAN-25-2854

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Generating High-quality Privacy-preserving Synthetic Data

✇cs.AI, q-bio.NC updates on arXiv.org
By: David Yavo · Richard Khoury · Christophe Pere · Sadoune Ait Kaci Azzou
arXiv:2602.06390v1 Announce Type: cross Abstract: Synthetic tabular data enables sharing and analysis of sensitive records, but its practical deployment requires balancing distributional fidelity, downstream utility, and privacy protection. We study a simple, model agnostic post processing framework that can be applied on top of any synthetic data generator to improve this trade off. First, a mode patching step repairs categories that are missing or severely underrepresented in the synthetic data, while largely preserving learned dependencies. Second, a k nearest neighbor filter replaces synthetic records that lie too close to real data points, enforcing a minimum distance between real and synthetic samples. We instantiate this framework for two neural generative models for tabular data, a feed forward generator and a variational autoencoder, and evaluate it on three public datasets covering credit card transactions, cardiovascular health, and census based income. We assess marginal and joint distributional similarity, the performance of models trained on synthetic data and evaluated on real data, and several empirical privacy indicators, including nearest neighbor distances and attribute inference attacks. With moderate thresholds between 0.2 and 0.35, the post processing reduces divergence between real and synthetic categorical distributions by up to 36 percent and improves a combined measure of pairwise dependence preservation by 10 to 14 percent, while keeping downstream predictive performance within about 1 percent of the unprocessed baseline. At the same time, distance based privacy indicators improve and the success rate of attribute inference attacks remains largely unchanged. These results provide practical guidance for selecting thresholds and applying post hoc repairs to improve the quality and empirical privacy of synthetic tabular data, while complementing approaches that provide formal differential privacy guarantees.
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Yunjue Agent Tech Report: A Fully Reproducible, Zero-Start In-Situ Self-Evolving Agent System for Open-Ended Tasks

✇cs.AI, q-bio.NC updates on arXiv.org
By: Haotian Li · Shijun Yang · Weizhen Qi · Silei Zhao · Rui Hua · Mingzhu Song · Xiaojian Yang · Chao Peng
arXiv:2601.18226v2 Announce Type: replace Abstract: Conventional agent systems often struggle in open-ended environments where task distributions continuously drift and external supervision is scarce. Their reliance on static toolsets or offline training lags behind these dynamics, leaving the system's capability boundaries rigid and unknown. To address this, we propose the In-Situ Self-Evolving paradigm. This approach treats sequential task interactions as a continuous stream of experience, enabling the system to distill short-term execution feedback into long-term, reusable capabilities without access to ground-truth labels. Within this framework, we identify tool evolution as the critical pathway for capability expansion, which provides verifiable, binary feedback signals. Within this framework, we develop Yunjue Agent, a system that iteratively synthesizes, optimizes, and reuses tools to navigate emerging challenges. To optimize evolutionary efficiency, we further introduce a Parallel Batch Evolution strategy. Empirical evaluations across five diverse benchmarks under a zero-start setting demonstrate significant performance gains over proprietary baselines. Additionally, complementary warm-start evaluations confirm that the accumulated general knowledge can be seamlessly transferred to novel domains. Finally, we propose a novel metric to monitor evolution convergence, serving as a function analogous to training loss in conventional optimization. We open-source our codebase, system traces, and evolved tools to facilitate future research in resilient, self-evolving intelligence.
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Data-Centric Interpretability for LLM-based Multi-Agent Reinforcement Learning

✇cs.AI, q-bio.NC updates on arXiv.org
By: John Yan · Michael Yu · Yuqi Sun · Alexander Duffy · Tyler Marques · Matthew Lyle Olson
arXiv:2602.05183v2 Announce Type: replace-cross Abstract: Large language models (LLMs) are increasingly trained in complex Reinforcement Learning, multi-agent environments, making it difficult to understand how behavior changes over training. Sparse Autoencoders (SAEs) have recently shown to be useful for data-centric interpretability. In this work, we analyze large-scale reinforcement learning training runs from the sophisticated environment of Full-Press Diplomacy by applying pretrained SAEs, alongside LLM-summarizer methods. We introduce Meta-Autointerp, a method for grouping SAE features into interpretable hypotheses about training dynamics. We discover fine-grained behaviors including role-playing patterns, degenerate outputs, language switching, alongside high-level strategic behaviors and environment-specific bugs. Through automated evaluation, we validate that 90% of discovered SAE Meta-Features are significant, and find a surprising reward hacking behavior. However, through two user studies, we find that even subjectively interesting and seemingly helpful SAE features may be worse than useless to humans, along with most LLM generated hypotheses. However, a subset of SAE-derived hypotheses are predictively useful for downstream tasks. We further provide validation by augmenting an untrained agent's system prompt, improving the score by +14.2%. Overall, we show that SAEs and LLM-summarizer provide complementary views into agent behavior, and together our framework forms a practical starting point for future data-centric interpretability work on ensuring trustworthy LLM behavior throughout training.
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Exploring AI-Augmented Sensemaking of Patient-Generated Health Data: A Mixed-Method Study with Healthcare Professionals in Cardiac Risk Reduction

✇cs.AI, q-bio.NC updates on arXiv.org
By: Pavithren V S Pakianathan · Rania Islambouli · Diogo Branco · Albrecht Schmidt · Tiago Guerreiro · Jan David Smeddinck
arXiv:2602.05687v2 Announce Type: replace-cross Abstract: Individuals are increasingly generating substantial personal health and lifestyle data, e.g. through wearables and smartphones. While such data could transform preventative care, its integration into clinical practice is hindered by its scale, heterogeneity and the time pressure and data literacy of healthcare professionals (HCPs). We explore how large language models (LLMs) can support sensemaking of patient-generated health data (PGHD) with automated summaries and natural language data exploration. Using cardiovascular disease (CVD) risk reduction as a use case, 16 HCPs reviewed multimodal PGHD in a mixed-methods study with a prototype that integrated common charts, LLM-generated summaries, and a conversational interface. Findings show that AI summaries provided quick overviews that anchored exploration, while conversational interaction supported flexible analysis and bridged data-literacy gaps. However, HCPs raised concerns about transparency, privacy, and overreliance. We contribute empirical insights and sociotechnical design implications for integrating AI-driven summarization and conversation into clinical workflows to support PGHD sensemaking.
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Reliability of LLMs as medical assistants for the general public: a randomized preregistered study

✇Nature Medicine
By: Andrew M. Bean · Rebecca Elizabeth Payne · Guy Parsons · Hannah Rose Kirk · Juan Ciro · Rafael Mosquera-Gómez · Sara Hincapié M · Aruna S. Ekanayaka · Lionel Tarassenko · Luc Rocher · Adam Mahdi

Nature Medicine, Published online: 09 February 2026; doi:10.1038/s41591-025-04074-y

In a randomized controlled study involving 1,298 participants from a general sample, performance of humans when assisted by a large language model (LLM) was sensibly inferior to that of the LLM alone when assessing ten medical scenarios leading to disease identification and recommendations for treatment.
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The Feasibility of Smartwatch Micro–Ecological Momentary Assessment for Tracking Eating Patterns of Malaysian Children and Adolescents in the South-East Asian Community Observatory Child Health Update 2020: Cross-Sectional Study

✇Journal of Medical Internet Research
By: Richard Lane · Louise A C Millard · Ruth Salway · Chris J Stone · Andy L Skinner · Sophia M Brady · Jeevitha Mariapun · Sutha Rajakumar · Amutha Ramadas · Hussein Rizal · Laura Johnson · Tin Tin Su · Miranda Elaine Glynis Armstrong
Background: Mobile phone ecological momentary assessment (EMA) methods are a well-established measure of eating and drinking behaviors, but compliance can be poor. Micro-EMA (μEMA), which collects information with a single tap response to brief questions on smartwatches, offers a novel application that may improve response rates. To our knowledge, there is no data evaluating μEMA to measure eating habits in children or in low-to-middle-income countries. Objective: In this study, we investigated the feasibility of micro-EMA to measure eating patterns in Malaysian children and adolescents. Methods: We invited 100 children and adolescents aged 7-18 years in Segamat, Malaysia, to participate in 2021-2022. Smartwatches were distributed to 83 children and adolescents who agreed to participate. Participants were asked to wear the smartwatch for 8 days and respond to 12 prompts per day, hourly, from 9AM to 8PM, asking for information on their meals, snacks, and drinks consumed. A questionnaire captured their experiences using the smartwatch and μEMA interface. Response rate (proportion of prompts responded to) assessed participants’ adherence. We explored associations between response rate with time of day, across days, age, and sex using multilevel binomial logistic regression modeling. Results: Eighty-two participants provided usable smartwatch data. The median number (IQR) of meals, drinks, and snacks per day was 2 (2-4), 3 (1-5), and 1 (0-2), respectively, on the first day of the study. The median response rate across the study was 68% (IQR 50-83). The response rate decreased across study days from 74% (68-78) on Day 1 to 40% (30-50) on Day 7 (odds ratio [OR] per study day 0.73, 95% CI 0.64-0.83). Response rate was lowest at the start of the day and highest between the hours of 12 PM and 2 PM. Female participants responded to more prompts than male participants (OR 1.72, 95% CI 1.03-2.86). There was no evidence of differential response by age (OR 0.73, 95% CI 0.41-1.28). Most participants (65%) rated their experience using the smartwatch positively, with 33% saying they were happy to participate in future studies using the smartwatch. For children that did not wear the smartwatch for the full study duration (n=22), discomfort was the most common complaint (41%). Conclusions: In this study of the feasibility of μEMA on smartwatches to measure eating in Malaysian children, we found the method was acceptable. However, response rates declined across study days, resulting in substantial missingness. Future studies (eg, through focus groups) should explore approaches to improving response to event prompts, trial alternative devices to increase children’s comfort, and evaluate revised protocols for reporting of intake events.
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EcDNA-borne structural variants drive oncogenic fusion transcript amplification

✇Cell
By: Hyerim Yi · Shu Zhang · Jason Swinderman · Yanbo Wang · Vishnupriya Kanakaveti · King L. Hung · Ivy Tsz-Lo Wong · Suhas Srinivasan · Ellis J. Curtis · Aarohi Bhargava-Shah · Rui Li · Matthew G. Jones · Jens Luebeck · Chris Bailey · Yanding Zhao · Julia A. Belk · Katerina Kraft · Quanming Shi · Xiaowei Yan · Simon K. Pritchard · Kabir S. Mahajan · Frances Liang · Mariam Jamal-Hanjani · Dean W. Felsher · Luke A. Gilbert · Vineet Bafna · Paul S. Mischel · Howard Y. Chang
Extrachromosomal DNA (ecDNA) is a major source of oncogenic fusions across cancer types, generating tissue-specific fusion landscapes with diagnostic potential. EcDNA-borne PVT1 5′-end fusions stabilize partner RNAs and boost oncogene output.
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From Data to Behavior: Predicting Unintended Model Behaviors Before Training

✇cs.AI, q-bio.NC updates on arXiv.org
By: Mengru Wang · Zhenqian Xu · Junfeng Fang · Yunzhi Yao · Shumin Deng · Huajun Chen · Ningyu Zhang
arXiv:2602.04735v1 Announce Type: cross Abstract: Large Language Models (LLMs) can acquire unintended biases from seemingly benign training data even without explicit cues or malicious content. Existing methods struggle to detect such risks before fine-tuning, making post hoc evaluation costly and inefficient. To address this challenge, we introduce Data2Behavior, a new task for predicting unintended model behaviors prior to training. We also propose Manipulating Data Features (MDF), a lightweight approach that summarizes candidate data through their mean representations and injects them into the forward pass of a base model, allowing latent statistical signals in the data to shape model activations and reveal potential biases and safety risks without updating any parameters. MDF achieves reliable prediction while consuming only about 20% of the GPU resources required for fine-tuning. Experiments on Qwen3-14B, Qwen2.5-32B-Instruct, and Gemma-3-12b-it confirm that MDF can anticipate unintended behaviors and provide insight into pre-training vulnerabilities.
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Contrastive Continual Learning for Model Adaptability in Internet of Things

✇cs.AI, q-bio.NC updates on arXiv.org
By: Ajesh Koyatan Chathoth
arXiv:2602.04881v1 Announce Type: cross Abstract: Internet of Things (IoT) deployments operate in nonstationary, dynamic environments where factors such as sensor drift, evolving user behavior, and heterogeneous user privacy requirements can affect application utility. Continual learning (CL) addresses this by adapting models over time without catastrophic forgetting. Meanwhile, contrastive learning has emerged as a powerful representation-learning paradigm that improves robustness and sample efficiency in a self-supervised manner. This paper reviews the usage of \emph{contrastive continual learning} (CCL) for IoT, connecting algorithmic design (replay, regularization, distillation, prompts) with IoT system realities (TinyML constraints, intermittent connectivity, privacy). We present a unifying problem formulation, derive common objectives that blend contrastive and distillation losses, propose an IoT-oriented reference architecture for on-device, edge, and cloud-based CCL, and provide guidance on evaluation protocols and metrics. Finally, we highlight open unique challenges with respect to the IoT domain, such as spanning tabular and streaming IoT data, concept drift, federated settings, and energy-aware training.
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DISCOVER: Identifying Patterns of Daily Living in Human Activities from Smart Home Data

✇cs.AI, q-bio.NC updates on arXiv.org
By: Alexander Karpekov, Archith Iyer, Sourish Gunesh Dhekane, Sonia Chernova, Thomas Pl\"otz
arXiv:2503.01733v3 Announce Type: replace-cross Abstract: Smart homes equipped with ambient sensors offer a transformative approach to continuous health monitoring and assisted living. Traditional research in this domain primarily focuses on Human Activity Recognition (HAR), which relies on mapping sensor data to a closed set of predefined activity labels. However, the fixed granularity of these labels often constrains their practical utility, failing to capture the subtle, household-specific nuances essential, for example, for tracking individual health over time. To address this, we propose DISCOVER, a framework for discovering and annotating Patterns of Daily Living (PDL) - fine-grained, recurring sequences of sensor events that emerge directly from a resident's unique routines. DISCOVER utilizes a self-supervised feature extraction and representation-aware clustering pipeline, supported by a custom visualization interface that enables experts to interpret and label discovered patterns with minimal effort. Our evaluation across multiple smart-home environments demonstrates that DISCOVER identifies cohesive behavioral clusters with high inter-rater agreement while achieving classification performance comparable to fully-supervised baselines using only 0.01% of the labels. Beyond reducing annotation overhead, DISCOVER establishes a foundation for longitudinal analysis. By grounding behavior in a resident's specific environment rather than rigid semantic categories, our framework facilitates the observation of within-person habitual drift. This capability positions the system as a potential tool for identifying subtle behavioral indicators associated with early-stage cognitive decline in future longitudinal studies.
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Phenome-wide analysis of copy number variants in 470,727 UK Biobank genomes

✇Nature - Issue - nature.com science feeds
By: Xueqing Zoe Zou · Fengyuan Hu · Haiyi Lou · Oliver S. Burren · Xiaoyin Li · Karyn Megy · Eleanor Wheeler · Qiang Wu · Santosh S. Atanur · Marcin Karpinski · Douglas Loesch · Zammy Fairhurst-Hunter · Sri V. V. Deevi · Erin Oerton · Sean Wen · Xiao Jiang · Cecilia Salvoro · Jonathan Mitchell · Abhishek Nag · Ben Hollis · Amanda O’Neill · Lauren Anderson-Dring · Mohammad Bohlooly-Y · Lisa Buvall · Sophia Cameron-Christie · Bram Prins · Suzanne Cohen · Regina F. Danielson · Andrew Davis · Wei Ding · Brian Dougherty · Manik Garg · Benjamin Georgi · Andrew Harper · Carolina Haefliger · Mårten Hammar · Richard N. Hanna · Ian Henry · Kousik Kundu · Zhongwu Lai · Mark Lal · Glenda Lassi · Yupu Liang · Margarida Lopes · Kieren Lythgow · Meeta Maisuria-Armer · Ruth March · Dorota Matelska · Rob Menzies · Erik Michaëlsson · Bill Mowrey · Daniel Muthas · Yoichiro Ohne · Benjamin Pullman · Sonja Hess · Arwa Raies · Anna Reznichenko · Xavier Romero Ros · Helen Stevens · Ioanna Tachmazidou · Coralie Viollet · Anna Walentinsson · Lily Wang · Qing-Dong Wang · Anna Cuomo · Daniel Elias

Nature, Published online: 04 February 2026; doi:10.1038/s41586-025-10087-x

A multiancestry phenome-wide analysis of copy number variants in the UK Biobank genomes increases power to detect genetic associations with complex traits across human populations.
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Digital intervention <i>mylovia</i> improves sexual functioning in women with sexual dysfunction in randomized controlled trial

✇npj Digital Medicine
By: Wiebke Blaszcyk · Melanie Büttner · Linda T. Betz · Antje Riepenhausen · Gitta A. Jacob · Jan Philipp Klein · Johanna Schröder

npj Digital Medicine, Published online: 03 February 2026; doi:10.1038/s41746-026-02385-z

Digital intervention mylovia improves sexual functioning in women with sexual dysfunction in randomized controlled trial
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Integrative proteogenomics maps multifactorial aetiology, progression and therapeutic vulnerabilities in gastric cancer

✇Omics in Gastric
By: Ya-Hsuan Chang · Tzu-Chan Hong · Kuen-Tyng Lin · Yi-Jing Hsiao · Hsiang-En Hsu · Juanilita T Waniwan · Rodrigo Espinoza Silva · I-Rue Lai · Po-Chu Lee · Ming-Tsan Lin · Chia-Tung Shun · Min-Shu Hsieh · Yi-Ju Chen · Song-Wei Wang · Wen-Hung Hsu · I-Chen Wu · Yao-Kuang Wang · Ching-Chun Li · Jaw-Yuan Wang · Yin-Chen Hsu · Hao Fang · Ze-Shiang Lin · Wen-Hsin Chang · Jyun-Hong Lin · Yan-Si Chen · Ying-Chieh Ko · Chi-Ya Shen · Yan-Ming Chen · Chia-Yu Wang · Yu-Teng Jheng · Wen-Yi Liu · Yu-Tai Wang · Chang-Wei Yeh · Pei-Rong Huang · Jyh-Ming Liou · Li-Tzong Chen · Chia-Li Han · Deng-Chyang Wu · Hsuan-Yu Chen · Sung-Liang Yu · Ming-Shiang Wu · Yu-Ju Chen · Taiwan Cancer Moonshot Program

Gut. 2026 Jan 30:gutjnl-2025-337247. doi: 10.1136/gutjnl-2025-337247. Online ahead of print.

ABSTRACT

BACKGROUND: Gastric cancer, with disproportionately higher incidence in East Asia, arises from complex host-microbiome-environment interactions beyond Helicobacter pylori (HP) infection. However, the molecular architecture linking environmental carcinogens, microbial succession and host response remains unclear.

OBJECTIVE: To delineate multifactorial aetiologies and clinically actionable subtypes/biomarkers of gastric cancer through integrative proteogenomic, microbial and environmental exposure profiling.

DESIGN: We established a multiomics atlas of paired tumour, adjacent mucosa tissues and blood from 154 treatment-naïve Taiwanese patients, integrating whole-exome sequencing, RNA-seq, proteome and phosphoproteome profiling with carcinogen signatures, HP status, microbiome composition and refined anatomical mapping. Cell-based functional assays tested carcinogen effects. Microbial subtype was assessed in an independent cohort.

RESULTS: A polycyclic-aromatic-hydrocarbon signature, dibenz[a,h]acridine, emerged as a high-risk exposure promoting invasion, immune suppression and poor survival, significantly exceeding nitrosamine-linked risk in this cohort. Multilayer integration defined three initiation ecologies: HP-driven inflammatory, non-HP microbiome-enriched immune-silent and HP-free microbially depleted states. Among HP-negative tumours, a Streptococcus-enriched subtype associated with tight-junction (CLDN18.2/ZO-1/OCLN) disruption and epithelial-mesenchymal transition, whereas a subset of clinically aggressive cases retained CLDN18.2-high epithelial-stable subtype for therapeutic accessibility. An independent cohort revealed gastric juice-derived Streptococcus anginosus abundance inversely correlated with tight-junction proteins. Anatomical mapping reveals location-specific, sex-specific, subtype-specific oncogenic networks and kinase activity, including CDK4 activation in clinical biomarker-negative tumours. Decision-tree models combining exposure and proteome-immune states refined recurrence and survival prediction beyond stage.

CONCLUSION: This proteogenomic framework defines exposure-informed and microbiome-informed gastric cancer subtypes, providing a molecular schema for patient stratification, prevention and actionable therapeutic vulnerabilities.

PMID:41617485 | DOI:10.1136/gutjnl-2025-337247

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Liquid biopsy biomarkers for accurate detection of malignant pulmonary nodules: a meta-analytic approach

✇Pulmonary nodule
By: Alberto Caballero-Vazquez · Marta Garcia-Cerezo · Laura R Fernandez-Castro · Concepcion Morales-Garcia · Antonio Jesus Lainez Ramos-Bossini · Fabian Vergara-Rubio · Francisco Gabriel Ortega-Sanchez · Jose Manuel Sanchez-Maldonado

Discov Oncol. 2026 Jan 29;17(1):178. doi: 10.1007/s12672-025-03646-1.

ABSTRACT

Pulmonary nodules are a common radiological finding that can be classified as either benign or Malignant, with significant clinical implications. The early detection of malignant nodules is critically important for improving the prognosis of lung cancer, which remains the leading cause of cancer-related mortality worldwide. Traditional imaging techniques have Limitations in accurately classifying pulmonary nodules. Liquid biopsy, a minimally invasive method that evaluates circulating components in the Blood, presents promising diagnostic potential in this context. This study aims to evaluate the diagnostic capacity of multiple liquid biopsy biomarkers for early and accurate differentiation between benign and Malignant pulmonary nodules. Accordingly, we conducted a comprehensive study involving a meta-analysis, selecting 16 eligible studies that utilised liquid biopsy to assess various circulating biomarkers in the diagnostic yield. The most significant results were linked to circulating free DNA (cfDNA). However, other components, including circulating tumour cells (CTCs), microRNAs/pfeRNAs, extracellular vesicles (EVs), serological markers, and imaging techniques, also provided valuable information. Similarly, integrating multi-omics data with machine learning models has been shown to enhance the ability to differentiate between benign and malignant pulmonary nodules, thereby supporting early diagnosis and improved management for patients with lung cancer.

PMID:41612093 | PMC:PMC12855667 | DOI:10.1007/s12672-025-03646-1

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