Normal view
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cs.AI, q-bio.NC updates on arXiv.org
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ValuePilot: A Two-Phase Framework for Value-Driven Decision-Making
arXiv:2512.13716v1 Announce Type: new Abstract: Personalized decision-making is essential for human-AI interaction, enabling AI agents to act in alignment with individual users' value preferences. As AI systems expand into real-world applications, adapting to personalized values beyond task completion or collective alignment has become a critical challenge. We address this by proposing a value-driven approach to personalized decision-making. Human values serve as stable, transferable signals th
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cs.AI, q-bio.NC updates on arXiv.org
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A data-physics hybrid generative model for patient-specific post-stroke motor rehabilitation using wearable sensor data
arXiv:2512.14329v1 Announce Type: cross Abstract: Dynamic prediction of locomotor capacity after stroke is crucial for tailoring rehabilitation, yet current assessments provide only static impairment scores and do not indicate whether patients can safely perform specific tasks such as slope walking or stair climbing. Here, we develop a data-physics hybrid generative framework that reconstructs an individual stroke survivor's neuromuscular control from a single 20 m level-ground walking trial an
A data-physics hybrid generative model for patient-specific post-stroke motor rehabilitation using wearable sensor data
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cs.AI, q-bio.NC updates on arXiv.org
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COMMA: A Communicative Multimodal Multi-Agent Benchmark
arXiv:2410.07553v5 Announce Type: replace Abstract: The rapid advances of multimodal agents built on large foundation models have largely overlooked their potential for language-based communication between agents in collaborative tasks. This oversight presents a critical gap in understanding their effectiveness in real-world deployments, particularly when communicating with humans. Existing agentic benchmarks fail to address key aspects of inter-agent communication and collaboration, particular
COMMA: A Communicative Multimodal Multi-Agent Benchmark
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cs.AI, q-bio.NC updates on arXiv.org
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From Clicks to Preference: A Multi-stage Alignment Framework for Generative Query Suggestion in Conversational System
arXiv:2508.15811v2 Announce Type: replace-cross Abstract: Generative query suggestion using large language models offers a powerful way to enhance conversational systems, but aligning outputs with nuanced user preferences remains a critical challenge. To address this, we introduce a multi-stage framework designed for progressive alignment between the generation policy and user intent. Our pipeline begins with prompt engineering as a cold-start strategy, followed by the Supervised Fine-Tuning st
From Clicks to Preference: A Multi-stage Alignment Framework for Generative Query Suggestion in Conversational System
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cs.AI, q-bio.NC updates on arXiv.org
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Grounding Large Language Models in Clinical Evidence: A Retrieval-Augmented Generation System for Querying UK NICE Clinical Guidelines
arXiv:2510.02967v3 Announce Type: replace-cross Abstract: This paper presents the development and evaluation of a Retrieval-Augmented Generation (RAG) system for querying the United Kingdom's National Institute for Health and Care Excellence (NICE) clinical guidelines using Large Language Models (LLMs). The extensive length and volume of these guidelines can impede their utilisation within a time-constrained healthcare system, a challenge this project addresses through the creation of a system
Grounding Large Language Models in Clinical Evidence: A Retrieval-Augmented Generation System for Querying UK NICE Clinical Guidelines
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npj Digital Medicine
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H&E-based MSI/MMR testing with AI in colorectal cancer: a multi-centred blinded evaluation
npj Digital Medicine, Published online: 15 December 2025; doi:10.1038/s41746-025-02218-5H&E-based MSI/MMR testing with AI in colorectal cancer: a multi-centred blinded evaluation
H&E-based MSI/MMR testing with AI in colorectal cancer: a multi-centred blinded evaluation
npj Digital Medicine, Published online: 15 December 2025; doi:10.1038/s41746-025-02218-5
H&E-based MSI/MMR testing with AI in colorectal cancer: a multi-centred blinded evaluation-
cs.AI, q-bio.NC updates on arXiv.org
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From Verification Burden to Trusted Collaboration: Design Goals for LLM-Assisted Literature Reviews
arXiv:2512.11661v1 Announce Type: cross Abstract: Large Language Models (LLMs) are increasingly embedded in academic writing practices. Although numerous studies have explored how researchers employ these tools for scientific writing, their concrete implementation, limitations, and design challenges within the literature review process remain underexplored. In this paper, we report a user study with researchers across multiple disciplines to characterize current practices, benefits, and \textit
From Verification Burden to Trusted Collaboration: Design Goals for LLM-Assisted Literature Reviews
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Journal of Medical Internet Research
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Stakeholder Criteria for Trust in Artificial Intelligence–Based Computer Perception Tools in Health Care: Qualitative Interview Study
Background: Computer perception (CP) technologies hold significant promise for advancing precision mental health care systems, given their ability to leverage algorithmic analysis of continuous, passive sensing data from wearables and smartphones (eg, behavioral activity, geolocation, vocal features, and ambient environmental data) to infer clinically meaningful behavioral and physiological states. However, successful implementation critically depends on cultivating well-founded stakeholder trus
Stakeholder Criteria for Trust in Artificial Intelligence–Based Computer Perception Tools in Health Care: Qualitative Interview Study
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(Multiomics OR Omics) AND (Pancreatic)
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Pancreatic Cancer Organoids: Modeling Disease and Guiding Therapy
Cancers (Basel). 2025 Nov 30;17(23):3850. doi: 10.3390/cancers17233850.ABSTRACTPancreatic ductal adenocarcinoma (PDAC) is one of the most lethal malignancies. An unmet need exists for reliable biomarkers and in vitro models capable of predicting patient drug response to advance personalized medicine. Traditional models fail to represent the tumor's complexity and the role of the stromal environment in chemoresistance. Patient-derived organoids (PDOs) overcome these limitations, enabling multi-om
Pancreatic Cancer Organoids: Modeling Disease and Guiding Therapy
Cancers (Basel). 2025 Nov 30;17(23):3850. doi: 10.3390/cancers17233850.
ABSTRACT
Pancreatic ductal adenocarcinoma (PDAC) is one of the most lethal malignancies. An unmet need exists for reliable biomarkers and in vitro models capable of predicting patient drug response to advance personalized medicine. Traditional models fail to represent the tumor's complexity and the role of the stromal environment in chemoresistance. Patient-derived organoids (PDOs) overcome these limitations, enabling multi-omics profiling and reliable drug testing for functional precision medicine. This review provides a comprehensive overview of PDAC PDO research, emphasizing the following major areas: (i) the genetic and phenotypic fidelity of PDOs, (ii) their predictive value for drug response and chemoresistance, (iii) the integration of the extracellular matrix and tumor microenvironment (TME) components, and (iv) emerging technologies. Studies confirm that PDOs faithfully represent the primary tumor's specific genetic features and retain intratumoral heterogeneity. PDO-based platforms have demonstrated a strong correlation between in vitro drug sensitivity and in vivo efficacy in xenograft models, validating their utility for identifying drug candidates, repurposing existing drugs, and determining effective combinations. Efforts are ongoing to integrate crucial TME components, like cancer-associated fibroblasts, using innovative co-culture platforms such as fused PDOs and InterOMaX, to better model desmoplasia and chemoresistance mechanisms. Furthermore, PDO technology is converging with microphysiological systems and artificial intelligence tools to facilitate high-throughput drug screening and dynamic, real-time monitoring of therapeutic effects. The integration of PDOs into biobanks and advanced screening platforms holds the potential to accelerate drug discovery and improve therapeutic outcomes for PDAC patients, if challenges related to protocol standardization and regulatory acceptance are addressed.
PMID:41375051 | PMC:PMC12690986 | DOI:10.3390/cancers17233850
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cs.AI, q-bio.NC updates on arXiv.org
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Toward an AI Reasoning-Enabled System for Patient-Clinical Trial Matching
arXiv:2512.08026v1 Announce Type: new Abstract: Screening patients for clinical trial eligibility remains a manual, time-consuming, and resource-intensive process. We present a secure, scalable proof-of-concept system for Artificial Intelligence (AI)-augmented patient-trial matching that addresses key implementation challenges: integrating heterogeneous electronic health record (EHR) data, facilitating expert review, and maintaining rigorous security standards. Leveraging open-source, reasoning
Toward an AI Reasoning-Enabled System for Patient-Clinical Trial Matching
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cs.AI, q-bio.NC updates on arXiv.org
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Multi-Agent Intelligence for Multidisciplinary Decision-Making in Gastrointestinal Oncology
arXiv:2512.08674v1 Announce Type: new Abstract: Multimodal clinical reasoning in the field of gastrointestinal (GI) oncology necessitates the integrated interpretation of endoscopic imagery, radiological data, and biochemical markers. Despite the evident potential exhibited by Multimodal Large Language Models (MLLMs), they frequently encounter challenges such as context dilution and hallucination when confronted with intricate, heterogeneous medical histories. In order to address these limitati
Multi-Agent Intelligence for Multidisciplinary Decision-Making in Gastrointestinal Oncology
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Nature - Issue - nature.com science feeds
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Somatic evolution following cancer treatment in normal tissue
Nature, Published online: 10 December 2025; doi:10.1038/s41586-025-09792-4High-depth sequencing of non-cancerous tissue from patients with metastatic cancer reveals single-base mutational signatures of alcohol, smoking and cancer treatments, and reveals how exogenous factors, including cancer therapies, affect somatic cell evolution.
Somatic evolution following cancer treatment in normal tissue
Nature, Published online: 10 December 2025; doi:10.1038/s41586-025-09792-4
High-depth sequencing of non-cancerous tissue from patients with metastatic cancer reveals single-base mutational signatures of alcohol, smoking and cancer treatments, and reveals how exogenous factors, including cancer therapies, affect somatic cell evolution.-
cs.AI, q-bio.NC updates on arXiv.org
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KidSpeak: A General Multi-purpose LLM for Kids' Speech Recognition and Screening
arXiv:2512.05994v1 Announce Type: cross Abstract: With the rapid advancement of conversational and diffusion-based AI, there is a growing adoption of AI in educational services, ranging from grading and assessment tools to personalized learning systems that provide targeted support for students. However, this adaptability has yet to fully extend to the domain of children's speech, where existing models often fail due to their reliance on datasets designed for clear, articulate adult speech. Chi
KidSpeak: A General Multi-purpose LLM for Kids' Speech Recognition and Screening
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cs.AI, q-bio.NC updates on arXiv.org
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WisPaper: Your AI Scholar Search Engine
arXiv:2512.06879v1 Announce Type: cross Abstract: Researchers struggle to efficiently locate and manage relevant literature within the exponentially growing body of scientific publications. We present \textsc{WisPaper}, an intelligent academic retrieval and literature management platform that addresses this challenge through three integrated capabilities: (1) \textit{Scholar Search}, featuring both quick keyword-based and deep agentic search modes for efficient paper discovery; (2) \textit{Libr
WisPaper: Your AI Scholar Search Engine
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cs.AI, q-bio.NC updates on arXiv.org
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XR-DT: Extended Reality-Enhanced Digital Twin for Agentic Mobile Robots
arXiv:2512.05270v1 Announce Type: cross Abstract: As mobile robots increasingly operate alongside humans in shared workspaces, ensuring safe, efficient, and interpretable Human-Robot Interaction (HRI) has become a pressing challenge. While substantial progress has been devoted to human behavior prediction, limited attention has been paid to how humans perceive, interpret, and trust robots' inferences, impeding deployment in safety-critical and socially embedded environments. This paper presents
XR-DT: Extended Reality-Enhanced Digital Twin for Agentic Mobile Robots
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cs.AI, q-bio.NC updates on arXiv.org
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The AI Productivity Index (APEX)
arXiv:2509.25721v4 Announce Type: replace-cross Abstract: We present an extended version of the AI Productivity Index (APEX-v1-extended), a benchmark for assessing whether frontier models are capable of performing economically valuable tasks in four jobs: investment banking associate, management consultant, big law associate, and primary care physician (MD). This technical report details the extensions to APEX-v1, including an increase in the held-out evaluation set from n = 50 to n = 100 cases
The AI Productivity Index (APEX)
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cs.AI, q-bio.NC updates on arXiv.org
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Chinese Discharge Drug Recommendation in Metabolic Diseases with Large Language Models
arXiv:2510.21084v2 Announce Type: replace-cross Abstract: Intelligent drug recommendation based on Electronic Health Records (EHRs) is critical for improving the quality and efficiency of clinical decision-making. By leveraging large-scale patient data, drug recommendation systems can assist physicians in selecting the most appropriate medications according to a patient's medical history, diagnoses, laboratory results, and comorbidities. Recent advances in large language models (LLMs) have show
Chinese Discharge Drug Recommendation in Metabolic Diseases with Large Language Models
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Journal of Medical Internet Research
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Critical Appraisal Tools for Evaluating Artificial Intelligence in Clinical Studies: Scoping Review
Background: Health research that uses predictive and/or generative AI is rapidly growing. Just as in traditional clinical studies, the way in which AI studies are conducted can introduce systematic errors. Transmission of this AI evidence into clinical practice and research needs critical appraisal tools for clinical decision makers and researchers. Objective: To identify existing tools for critical appraisal of clinical studies that use artificial intelligence (AI) and examine the concepts and
Critical Appraisal Tools for Evaluating Artificial Intelligence in Clinical Studies: Scoping Review
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Oncogene - Issue - nature.com science feeds
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Molecular stratification of esophageal adenocarcinoma: implications for prognosis and treatment strategy
Oncogene, Published online: 08 December 2025; doi:10.1038/s41388-025-03650-3Molecular stratification of esophageal adenocarcinoma: implications for prognosis and treatment strategy
Molecular stratification of esophageal adenocarcinoma: implications for prognosis and treatment strategy
Oncogene, Published online: 08 December 2025; doi:10.1038/s41388-025-03650-3
Molecular stratification of esophageal adenocarcinoma: implications for prognosis and treatment strategy-
(Multiomics OR Omics) AND (Lung OR gastric OR Hepatocellular)
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AI-driven transfer learning and classical molecular dynamics for strategic therapeutic repurposing and rational design of antiviral peptides targeting monkeypox virus DNA polymerase
Comput Biol Med. 2025 Dec 7;200:111372. doi: 10.1016/j.compbiomed.2025.111372. Online ahead of print.ABSTRACTThe emergence of monkeypox virus (MPXV) as a global health threat has necessitated the rapid identification of novel antiviral therapeutics. Currently, no FDA-approved drugs are specifically designed against the disease. We used an in-house deep learning pharmacophore model for screening a library of 1974 FDA-approved drugs targeting the active site of MPXV DNA polymerase. Three drugs exh
AI-driven transfer learning and classical molecular dynamics for strategic therapeutic repurposing and rational design of antiviral peptides targeting monkeypox virus DNA polymerase
Comput Biol Med. 2025 Dec 7;200:111372. doi: 10.1016/j.compbiomed.2025.111372. Online ahead of print.
ABSTRACT
The emergence of monkeypox virus (MPXV) as a global health threat has necessitated the rapid identification of novel antiviral therapeutics. Currently, no FDA-approved drugs are specifically designed against the disease. We used an in-house deep learning pharmacophore model for screening a library of 1974 FDA-approved drugs targeting the active site of MPXV DNA polymerase. Three drugs exhibited the strongest binding affinities, outperforming the control drug, Cidofovir diphosphate, and forming stable interactions with key active site residues. Among them, Paromomycin emerged as the most favourable drug, demonstrating stable, persistent, and adaptable interactions in molecular dynamics simulation. In parallel, we developed a novel automated peptide-generating AI pipeline that integrates active-site residues with knowledge-guided amino acid selection to generate and evaluate synthetic peptides. Cysteine-Phenylalanine-Cysteine (CFC), together with a panel of candidates, emerged through rational balancing of physicochemical properties and drug-likeness for accelerated therapeutic discovery. Synthetic peptides were evaluated to further understand the binding efficacies with DNA polymerase. CFC peptide demonstrated strong binding affinity (-8.08 kcal/mol) through stable interactions with key catalytic residues ASP549, ARG634 and LYS661, while MMGBSA analysis confirmed favourable binding energy (-33.02 kcal/mol). Consistent results in MD simulations indicate functional binding without destabilisation. Although ADMET predictions for CFC revealed limitations in permeability and oral bioavailability, its favourable binding profile and reduced predicted toxicity support its potential as a novel antiviral lead.
PMID:41360016 | DOI:10.1016/j.compbiomed.2025.111372