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cs.AI, q-bio.NC updates on arXiv.org
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JarvisGUI: Towards Cross-Device GUI Agents with Dynamic Task Composition
arXiv:2609.10451v1 Announce Type: new Abstract: Real-world GUI usage frequently involves workflows that span multiple devices and platforms, requiring the transfer of intermediate results, maintenance of shared state, and coordination across heterogeneous environments. However, existing GUI benchmarks overwhelmingly evaluate agents on single-device, statically defined tasks, thus leaving such cross-device capabilities largely unexamined, resulting in an overly optimistic assessment of agents' r
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Omics In Lung
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Advances in Radiomics for Immune Checkpoint Inhibitor-related Pneumonitis of Lung Cancer
Zhongguo Fei Ai Za Zhi. 2026 Jul 20;29(7):540-547. doi: 10.3779/j.issn.1009-3419.2026.101.17.ABSTRACTImmune checkpoint inhibitors (ICIs) have significantly improved the prognosis of patients with lung cancer. However, checkpoint inhibitor-related pneumonitis (CIP), as one of the most severe immune-related adverse events, lacks well-defined diagnostic criteria and reliable risk stratification tools. Radiomics enables high-throughput feature extraction from computed tomography images and provides
Advances in Radiomics for Immune Checkpoint Inhibitor-related Pneumonitis of Lung Cancer
Zhongguo Fei Ai Za Zhi. 2026 Jul 20;29(7):540-547. doi: 10.3779/j.issn.1009-3419.2026.101.17.
ABSTRACT
Immune checkpoint inhibitors (ICIs) have significantly improved the prognosis of patients with lung cancer. However, checkpoint inhibitor-related pneumonitis (CIP), as one of the most severe immune-related adverse events, lacks well-defined diagnostic criteria and reliable risk stratification tools. Radiomics enables high-throughput feature extraction from computed tomography images and provides a non-invasive technical approach for the early identification and risk stratification of CIP. This article systematically reviews the recent advances in the application of radiomics to risk prediction, diagnosis and differential diagnosis, and prognostic evaluation of CIP in lung cancer immunotherapy. Furthermore, it explores the value of integrating radiomics with multi-omics data in elucidating the pathogenesis of CIP, as well as the role of explainable artificial intelligence (XAI) in enhancing the clinical trustworthiness of models. .
PMID:42705857 | DOI:10.3779/j.issn.1009-3419.2026.101.17
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Omics in Gastric
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Circadian-based individualised protection against inflammation-cancer transition in atrophic gastritis patients
EPMA J. 2026 Aug 21;17(3):665-700. doi: 10.1007/s13167-026-00465-4. eCollection 2026 Sep.ABSTRACTChronic atrophic gastritis (CAG) is a critical precancerous stage in the development of gastric cancer (GC). Circadian rhythm disruption perturbs the core clock gene network, including circadian locomotor output cycles kaput (CLOCK), brain and muscle ARNT-like 1 (BMAL1), period circadian protein homolog (PER), and cryptochrome (CRY). These alterations contribute to a multi-layered pathological cascad
Circadian-based individualised protection against inflammation-cancer transition in atrophic gastritis patients
EPMA J. 2026 Aug 21;17(3):665-700. doi: 10.1007/s13167-026-00465-4. eCollection 2026 Sep.
ABSTRACT
Chronic atrophic gastritis (CAG) is a critical precancerous stage in the development of gastric cancer (GC). Circadian rhythm disruption perturbs the core clock gene network, including circadian locomotor output cycles kaput (CLOCK), brain and muscle ARNT-like 1 (BMAL1), period circadian protein homolog (PER), and cryptochrome (CRY). These alterations contribute to a multi-layered pathological cascade involving DNA damage accumulation, epigenetic remodeling, altered epithelial cell plasticity, cellular senescence, microbiota dysbiosis, tumor microenvironment remodeling, metabolic reprogramming, aberrant angiogenesis, and dysregulated cell death, thereby accelerating CAG to GC progression. However, existing studies have predominantly treated the circadian rhythm as a passive risk factor for disease onset and have yet to elevate it to an actionable interventional target within the full-course management of gastric precancerous lesions. Building on a systematic synthesis of the mechanistic evidence outlined above, this review proposes a predictive, preventive and personalised medicine (PPPM/3PM) three-tier management framework grounded in circadian-based individualised protection. At the predictive level, digital biomarkers (sleep-wake rhythms, light exposure, physical activity, and dietary behavior), multi-omics profiles, and circadian-related molecular signatures are integrated to achieve dynamic risk stratification of CAG populations. At the targeted prevention level, pharmacological agents and natural compounds with circadian-regulating potential are deployed to develop proactive protective strategies tailored to distinct pathological stages and circadian phenotypes. At the personalised treatment level, lifestyle interventions, chronotherapy, nano-carrier-based circadian-synchronised delivery, and dynamic biomarker monitoring are combined to formulate precision intervention regimens informed by individual circadian phenotypes. This framework repositions the circadian rhythm from a latent risk factor to a protectable and therapeutically targetable axis, offering new insights into time-optimised intervention strategies for the inflammation to cancer transition in CAG.
PMID:42682657 | PMC:PMC13530114 | DOI:10.1007/s13167-026-00465-4
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cs.AI, q-bio.NC updates on arXiv.org
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Solving Combinatorial Counting Problems with Weighted First-Order Model Counting
arXiv:2605.24845v1 Announce Type: new Abstract: Combinatorial counting problems pervade artificial intelligence, statistics, and discrete mathematics. Whether the task is enumerating subsets, multisets, permutations, partitions, or compositions under structural and arithmetic constraints, solving it remains a stubbornly manual exercise. Closed-form derivations are powerful but brittle, while naive encodings to propositional model counting or constraint satisfaction destroy the exchangeability t
Solving Combinatorial Counting Problems with Weighted First-Order Model Counting
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Oncogene - Issue - nature.com science feeds
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Liver-specific <i>SIRT1</i> knockout-induced hyperglycemia promotes spontaneous lung adenocarcinomas through HSF1-MDM2
Oncogene, Published online: 24 May 2026; doi:10.1038/s41388-026-03826-5Liver-specific SIRT1 knockout-induced hyperglycemia promotes spontaneous lung adenocarcinomas through HSF1-MDM2
Liver-specific <i>SIRT1</i> knockout-induced hyperglycemia promotes spontaneous lung adenocarcinomas through HSF1-MDM2
Oncogene, Published online: 24 May 2026; doi:10.1038/s41388-026-03826-5
Liver-specific SIRT1 knockout-induced hyperglycemia promotes spontaneous lung adenocarcinomas through HSF1-MDM2-
Omics In Lung
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Multi-omics analysis of glutamine and fish collagen peptides in alleviating post-antibiotic Streptococcus pneumoniae injury in feline lung cells
Exp Ther Med. 2026 Mar 30;31(6):148. doi: 10.3892/etm.2026.13143. eCollection 2026 Jun.ABSTRACTStreptococcus pneumoniae (SP) infection often leads to persistent lung injury even after antibiotic treatment. Despite this phenomenon, the mechanisms underlying host cell recovery remain poorly understood. Upon breaching the epithelial barrier, SP primarily targets the pulmonary interstitial cells, which constitute the major mesenchymal component of the lung. These cells serve as essential effectors o
Multi-omics analysis of glutamine and fish collagen peptides in alleviating post-antibiotic Streptococcus pneumoniae injury in feline lung cells
Exp Ther Med. 2026 Mar 30;31(6):148. doi: 10.3892/etm.2026.13143. eCollection 2026 Jun.
ABSTRACT
Streptococcus pneumoniae (SP) infection often leads to persistent lung injury even after antibiotic treatment. Despite this phenomenon, the mechanisms underlying host cell recovery remain poorly understood. Upon breaching the epithelial barrier, SP primarily targets the pulmonary interstitial cells, which constitute the major mesenchymal component of the lung. These cells serve as essential effectors of tissue repair, extracellular matrix remodeling and epithelial restoration. Therefore, a feline pulmonary interstitial cell (FCA-L2) model of SP infection was established to investigate the protective effects of glutamine (GLU) and fish collagen peptides (FCP) through integrated transcriptomic and metabolomic analyses. Cells were infected with SP (0.05 McFarland units for 4 h) and then treated with doxycycline (7.5 µg/ml for 18 h) followed by GLU (40 mM) or FCP (500 µg/ml). Notably, SP infection increased lactate dehydrogenase (LDH) release by 3.5-fold, induced secretion of IL-1β, TNF-α and IL-8, disrupted tight-junction proteins (claudin, ZO-1 and occludin) and caused oxidative imbalance and apoptosis despite antibiotic (doxycycline) treatment. However, treatment with GLU or FCP significantly reduced LDH release by ~40%, restored junctional proteins, suppressed inflammatory cytokines and enhanced antioxidant enzyme activities. Multi-omics analysis revealed that GLU promoted amino acid biosynthesis and energy metabolism and suppressed aminoacyl-tRNA synthetases and cell-cycle regulators, thereby enhancing metabolic adaptability. By contrast, FCP activated amino and nucleotide sugar metabolism, increased polyunsaturated fatty-acid synthesis and supported glycocalyx repair and membrane reconstruction. GLU and FCP provided complementary metabolic and structural protection, which mitigated post-infectious stress and promoted cellular recovery. The findings of the present study underscore the potential of bioactive food-derived compounds as adjunctive therapies that may accelerate lung tissue repair and enhance the efficacy of conventional antibiotics.
PMID:41988354 | PMC:PMC13077270 | DOI:10.3892/etm.2026.13143
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Cell
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Pan-neurodegeneration proteomics reveals disease subtypes and molecular signatures
A pan-neurodegeneration atlas built from multilayer, deep proteomics of 2,279 brain samples across 6 major diseases integrates whole proteome, detergent-insoluble proteome, and posttranslational modifications to enable intra- and inter-disease comparisons to reveal disease-specific subtypes and dysregulated pathways, while identifying shared changes such as GPNMB upregulation and NPTX2 downregulation.
Pan-neurodegeneration proteomics reveals disease subtypes and molecular signatures
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cs.AI, q-bio.NC updates on arXiv.org
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Vero: An Open RL Recipe for General Visual Reasoning
arXiv:2604.04917v2 Announce Type: cross Abstract: What does it take to build a visual reasoner that works across charts, science, spatial understanding, and open-ended tasks? The strongest vision-language models (VLMs) show such broad visual reasoning is within reach, but the recipe behind them remains unclear, locked behind proprietary reinforcement learning (RL) pipelines with non-public data. We introduce Vero, a family of fully open VLMs that matches or exceeds existing open-weight models a
Vero: An Open RL Recipe for General Visual Reasoning
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cs.AI, q-bio.NC updates on arXiv.org
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UniMark: Artificial Intelligence Generated Content Identification Toolkit
arXiv:2512.12324v3 Announce Type: replace-cross Abstract: The rapid proliferation of Artificial Intelligence Generated Content has precipitated a crisis of trust and urgent regulatory demands. However, existing identification tools suffer from fragmentation and a lack of support for visible compliance marking. To address these gaps, we introduce the \textbf{UniMark}, an open-source, unified framework for multimodal content governance. Our system features a modular unified engine that abstracts
UniMark: Artificial Intelligence Generated Content Identification Toolkit
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cs.AI, q-bio.NC updates on arXiv.org
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Semantic Refinement with LLMs for Graph Representations
arXiv:2512.21106v2 Announce Type: replace-cross Abstract: Graph-structured data exhibit substantial heterogeneity in where their predictive signals originate: in some domains, node-level semantics dominate, while in others, structural patterns play a central role. This structure-semantics heterogeneity implies that no graph learning model with a fixed inductive bias can generalize optimally across diverse graph domains. However, most existing methods address this challenge from the model side b
Semantic Refinement with LLMs for Graph Representations
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cs.AI, q-bio.NC updates on arXiv.org
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Improving Ensemble Forecasts of Abnormally Deflecting Tropical Cyclones with Fused Atmosphere-Ocean-Terrain Data
arXiv:2603.29200v2 Announce Type: replace-cross Abstract: Deep learning-based tropical cyclone (TC) forecasting methods have demonstrated significant potential and application advantages, as they feature much lower computational cost and faster operation speed than numerical weather prediction models. However, existing deep learning methods still have key limitations: they can only process a single type of sequential trajectory data or homogeneous meteorological variables, and fail to achieve a
Improving Ensemble Forecasts of Abnormally Deflecting Tropical Cyclones with Fused Atmosphere-Ocean-Terrain Data
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cs.AI, q-bio.NC updates on arXiv.org
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Improving Ensemble Forecasts of Abnormally Deflecting Tropical Cyclones with Fused Atmosphere-Ocean-Terrain Data
arXiv:2603.29200v1 Announce Type: cross Abstract: Deep learning-based tropical cyclone (TC) forecasting methods have demonstrated significant potential and application advantages, as they feature much lower computational cost and faster operation speed than numerical weather prediction models. However, existing deep learning methods still have key limitations: they can only process a single type of sequential trajectory data or homogeneous meteorological variables, and fail to achieve accurate
Improving Ensemble Forecasts of Abnormally Deflecting Tropical Cyclones with Fused Atmosphere-Ocean-Terrain Data
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cs.AI, q-bio.NC updates on arXiv.org
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IMAGAgent: Orchestrating Multi-Turn Image Editing via Constraint-Aware Planning and Reflection
arXiv:2603.29602v1 Announce Type: cross Abstract: Existing multi-turn image editing paradigms are often confined to isolated single-step execution. Due to a lack of context-awareness and closed-loop feedback mechanisms, they are prone to error accumulation and semantic drift during multi-turn interactions, ultimately resulting in severe structural distortion of the generated images. For that, we propose \textbf{IMAGAgent}, a multi-turn image editing agent framework based on a "plan-execute-refl
IMAGAgent: Orchestrating Multi-Turn Image Editing via Constraint-Aware Planning and Reflection
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cs.AI, q-bio.NC updates on arXiv.org
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FERA: A Pose-Based Framework for Rule-Grounded Multimedia Decision Support with a Foil Fencing Case Study
arXiv:2509.18527v5 Announce Type: replace Abstract: Multimedia decision support requires more than recognition; it requires explicit state estimates that can be checked against rules, audited by humans, and consumed by downstream decision logic. We present the FEncing Referee Assistant (FERA), a pose-based framework for this setting, and study it through foil fencing, where decisions depend on fast bilateral motion and right-of-way rules. The framework separates canonical participant tracking,
FERA: A Pose-Based Framework for Rule-Grounded Multimedia Decision Support with a Foil Fencing Case Study
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Cell
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Extracellular matrix sensing regulates intratumoral heterogeneity of autophagic flux
Human pancreatic cancer cells sense specific components of the ECM to fine-tune their autophagy flux levels, conferring the ability to coordinate proliferation, survival, and responsiveness to chemotherapy. Targeting ECM sensing may turn this ability into a therapeutic opportunity.
Extracellular matrix sensing regulates intratumoral heterogeneity of autophagic flux
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cs.AI, q-bio.NC updates on arXiv.org
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LatentChem: From Textual CoT to Latent Thinking in Chemical Reasoning
arXiv:2602.07075v4 Announce Type: replace-cross Abstract: Chemical large language models (LLMs) predominantly rely on explicit Chain-of-Thought (CoT) in natural language to perform complex reasoning. However, chemical reasoning is inherently continuous and structural, and forcing it into discrete linguistic tokens introduces a fundamental representation mismatch that constrains both efficiency and performance. We introduce LatentChem, a latent reasoning interface that decouples chemical computa
LatentChem: From Textual CoT to Latent Thinking in Chemical Reasoning
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cs.AI, q-bio.NC updates on arXiv.org
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Towards Personalized Deep Research: Benchmarks and Evaluations
arXiv:2509.25106v3 Announce Type: replace-cross Abstract: Deep Research Agents (DRAs) can autonomously conduct complex investigations and generate comprehensive reports, demonstrating strong real-world potential. However, existing evaluations mostly rely on close-ended benchmarks, while open-ended deep research benchmarks remain scarce and typically neglect personalized scenarios. To bridge this gap, we introduce Personalized Deep Research Bench (PDR-Bench), the first benchmark for evaluating p
Towards Personalized Deep Research: Benchmarks and Evaluations
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cs.AI, q-bio.NC updates on arXiv.org
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Dynamic Adversarial Reinforcement Learning for Robust Multimodal Large Language Models
arXiv:2602.22227v3 Announce Type: replace-cross Abstract: Despite their impressive capabilities, Multimodal Large Language Models (MLLMs) exhibit perceptual fragility when confronted with visually complex scenes. This weakness stems from a reliance on finite training datasets, which are prohibitively expensive to scale and impose a ceiling on model robustness. We introduce \textbf{AOT-SFT}, a large-scale adversarial dataset for bootstrapping MLLM robustness. Building on this, we propose \textbf
Dynamic Adversarial Reinforcement Learning for Robust Multimodal Large Language Models
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cs.AI, q-bio.NC updates on arXiv.org
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Rubrics as an Attack Surface: Stealthy Preference Drift in LLM Judges
arXiv:2602.13576v1 Announce Type: cross Abstract: Evaluation and alignment pipelines for large language models increasingly rely on LLM-based judges, whose behavior is guided by natural-language rubrics and validated on benchmarks. We identify a previously under-recognized vulnerability in this workflow, which we term Rubric-Induced Preference Drift (RIPD). Even when rubric edits pass benchmark validation, they can still produce systematic and directional shifts in a judge's preferences on targ
Rubrics as an Attack Surface: Stealthy Preference Drift in LLM Judges
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cs.AI, q-bio.NC updates on arXiv.org
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OPBench: A Graph Benchmark to Combat the Opioid Crisis
arXiv:2602.14602v1 Announce Type: cross Abstract: The opioid epidemic continues to ravage communities worldwide, straining healthcare systems, disrupting families, and demanding urgent computational solutions. To combat this lethal opioid crisis, graph learning methods have emerged as a promising paradigm for modeling complex drug-related phenomena. However, a significant gap remains: there is no comprehensive benchmark for systematically evaluating these methods across real-world opioid crisis