Normal view
-
cs.AI, q-bio.NC updates on arXiv.org
-
MIRAGE: The Illusion of Visual Understanding
arXiv:2603.21687v3 Announce Type: replace Abstract: Multimodal AI systems have achieved remarkable performance across a broad range of real-world tasks, yet the mechanisms underlying visual-language reasoning remain surprisingly poorly understood. We report three findings that challenge prevailing assumptions about how these systems process and integrate visual information. First, Frontier models readily generate detailed image descriptions and elaborate reasoning traces, including pathology-bi
-
(Multiomics OR Omics) AND (Lung OR gastric OR Hepatocellular)
-
A distinct plasma lipidomic signature and multi-omics network in depression of polycystic ovary syndrome
J Pharm Biomed Anal. 2026 Mar 29;276:117486. doi: 10.1016/j.jpba.2026.117486. Online ahead of print.ABSTRACTPatients with polycystic ovary syndrome (PCOS) are at an elevated risk of depression, yet the underlying mechanisms remain elusive. Emerging evidence implicates the gut-brain axis and systemic lipid homeostasis alterations as potential key contributors. We profiled untargeted plasma lipidomes of PCOS patients with and without comorbid depression (PCOS-DP) and integrated these data with our
A distinct plasma lipidomic signature and multi-omics network in depression of polycystic ovary syndrome
J Pharm Biomed Anal. 2026 Mar 29;276:117486. doi: 10.1016/j.jpba.2026.117486. Online ahead of print.
ABSTRACT
Patients with polycystic ovary syndrome (PCOS) are at an elevated risk of depression, yet the underlying mechanisms remain elusive. Emerging evidence implicates the gut-brain axis and systemic lipid homeostasis alterations as potential key contributors. We profiled untargeted plasma lipidomes of PCOS patients with and without comorbid depression (PCOS-DP) and integrated these data with our prior gut microbial and host transcriptomic datasets to construct multi-omics interaction networks. The causal role of the candidate gut microbial was preliminary explored in a germ-free PCOS mouse model using fecal microbiota transplantation, followed by behavioral phenotyping and ELISA-based protein quantification. We identified a distinct plasma lipidomic signature differentiating PCOS-DP from PCOS alone, characterized primarily by the downregulation of 26 lipid species. Most of these altered lipids were triacylglycerols (TAGs) enriched with FA18:1 and FA18:2, whose levels correlated with coagulation dysfunction. Multi-omics network analysis revealed significant interconnections between depression-associated gut microbiota (including Bacteroides eggerthii), specific altered lipids such as TAG (60:12/FA22:6), and host genes involved in inflammation (e.g., IL22, NLRP7), metabolism, and neural processes. Animal validation demonstrated that B. eggerthii colonization in PCOS mice specifically exacerbated anhedonia and hyperlocomotion, alongside modulating plasma IL-22 expression, suggesting its context-dependent neurobehavioral effect role. This study delineates a TAG-downregulated lipid signature with diagnostic potential and reveals a novel "gut microbiota-lipid-host gene" interaction network underpinning PCOS-DP, with B. eggerthii as a key microbial modulator of neurobehavioral phenotypes in the context of PCOS. These findings provide new pathophysiological insights and highlights potential diagnostic biomarkers for PCOS-DP.
PMID:41924769 | DOI:10.1016/j.jpba.2026.117486
-
cs.AI, q-bio.NC updates on arXiv.org
-
GISTBench: Evaluating LLM User Understanding via Evidence-Based Interest Verification
arXiv:2603.29112v1 Announce Type: new Abstract: We introduce GISTBench, a benchmark for evaluating Large Language Models' (LLMs) ability to understand users from their interaction histories in recommendation systems. Unlike traditional RecSys benchmarks that focus on item prediction accuracy, our benchmark evaluates how well LLMs can extract and verify user interests from engagement data. We propose two novel metric families: Interest Groundedness (IG), decomposed into precision and recall comp
GISTBench: Evaluating LLM User Understanding via Evidence-Based Interest Verification
-
cs.AI, q-bio.NC updates on arXiv.org
-
ASI-Evolve: AI Accelerates AI
arXiv:2603.29640v1 Announce Type: new Abstract: Can AI accelerate the development of AI itself? While recent agentic systems have shown strong performance on well-scoped tasks with rapid feedback, it remains unclear whether they can tackle the costly, long-horizon, and weakly supervised research loops that drive real AI progress. We present ASI-Evolve, an agentic framework for AI-for-AI research that closes this loop through a learn-design-experiment-analyze cycle. ASI-Evolve augments standard
ASI-Evolve: AI Accelerates AI
-
Oncogene - Issue - nature.com science feeds
-
Correction: The multifunctional RNA helicase DDX39A drives glioblastoma progression by modulating WISP1 alternative splicing that induces an immunosuppressive macrophage polarization
Oncogene, Published online: 01 April 2026; doi:10.1038/s41388-026-03756-2Correction: The multifunctional RNA helicase DDX39A drives glioblastoma progression by modulating WISP1 alternative splicing that induces an immunosuppressive macrophage polarization
Correction: The multifunctional RNA helicase DDX39A drives glioblastoma progression by modulating WISP1 alternative splicing that induces an immunosuppressive macrophage polarization
Oncogene, Published online: 01 April 2026; doi:10.1038/s41388-026-03756-2
Correction: The multifunctional RNA helicase DDX39A drives glioblastoma progression by modulating WISP1 alternative splicing that induces an immunosuppressive macrophage polarization-
Nature - Issue - nature.com science feeds
-
Electric dipole moment drives the dynamics of the TNFR1 complex I signalosome
Nature, Published online: 01 April 2026; doi:10.1038/s41586-026-10304-1Long-range interactions mediated by protein electric dipole moments have a role in driving the assembly and disassembly of super-signalling complex I for promoting NF-κB signalling.
Electric dipole moment drives the dynamics of the TNFR1 complex I signalosome
Nature, Published online: 01 April 2026; doi:10.1038/s41586-026-10304-1
Long-range interactions mediated by protein electric dipole moments have a role in driving the assembly and disassembly of super-signalling complex I for promoting NF-κB signalling.-
cs.AI, q-bio.NC updates on arXiv.org
-
WIST: Web-Grounded Iterative Self-Play Tree for Domain-Targeted Reasoning Improvement
arXiv:2603.22352v1 Announce Type: cross Abstract: Recent progress in reinforcement learning with verifiable rewards (RLVR) offers a practical path to self-improvement of language models, but existing methods face a key trade-off: endogenous self-play can drift over iterations, while corpus-grounded approaches rely on curated data environments. We present \textbf{WIST}, a \textbf{W}eb-grounded \textbf{I}terative \textbf{S}elf-play \textbf{T}ree framework for domain-targeted reasoning improvement
WIST: Web-Grounded Iterative Self-Play Tree for Domain-Targeted Reasoning Improvement
-
cs.AI, q-bio.NC updates on arXiv.org
-
CaP-X: A Framework for Benchmarking and Improving Coding Agents for Robot Manipulation
arXiv:2603.22435v1 Announce Type: cross Abstract: "Code-as-Policy" considers how executable code can complement data-intensive Vision-Language-Action (VLA) methods, yet their effectiveness as autonomous controllers for embodied manipulation remains underexplored. We present CaP-X, an open-access framework for systematically studying Code-as-Policy agents in robot manipulation. At its core is CaP-Gym, an interactive environment in which agents control robots by synthesizing and executing program
CaP-X: A Framework for Benchmarking and Improving Coding Agents for Robot Manipulation
-
Nature - Issue - nature.com science feeds
-
Inactivating <i>SnRK1β1A</i> promotes broad-spectrum disease resistance in rice
Nature, Published online: 25 March 2026; doi:10.1038/s41586-026-10273-5SnRK1β1A in rice promotes susceptibility to multiple fungal diseases, and disrupting this infection-inducible gene confers broad-spectrum resistance without compromising growth or yield under normal field conditions.
Inactivating <i>SnRK1β1A</i> promotes broad-spectrum disease resistance in rice
Nature, Published online: 25 March 2026; doi:10.1038/s41586-026-10273-5
SnRK1β1A in rice promotes susceptibility to multiple fungal diseases, and disrupting this infection-inducible gene confers broad-spectrum resistance without compromising growth or yield under normal field conditions.-
cs.AI, q-bio.NC updates on arXiv.org
-
daVinci-Env: Open SWE Environment Synthesis at Scale
arXiv:2603.13023v1 Announce Type: cross Abstract: Training capable software engineering (SWE) agents demands large-scale, executable, and verifiable environments that provide dynamic feedback loops for iterative code editing, test execution, and solution refinement. However, existing open-source datasets remain limited in scale and repository diversity, while industrial solutions are opaque with unreleased infrastructure, creating a prohibitive barrier for most academic research groups. We pres
daVinci-Env: Open SWE Environment Synthesis at Scale
-
(Multiomics OR Omics) AND (Lung OR gastric OR Hepatocellular)
-
Autophagy-centered regulation of PI3K/Akt/mTOR and MAPK signaling by traditional Chinese medicine in gastric cancer
Tissue Cell. 2026 Mar 10;101:103409. doi: 10.1016/j.tice.2026.103409. Online ahead of print.ABSTRACTGastric cancer (GC) remains a major global health burden, with high incidence and mortality rates, particularly in East Asia, driven by factors such as Helicobacter pylori infection, dietary risks, and genetic predispositions. Conventional treatments like surgery and chemotherapy are limited by resistance, toxicity, and poor outcomes in advanced stages. The PI3K/Akt/mTOR and MAPK signaling pathway
Autophagy-centered regulation of PI3K/Akt/mTOR and MAPK signaling by traditional Chinese medicine in gastric cancer
Tissue Cell. 2026 Mar 10;101:103409. doi: 10.1016/j.tice.2026.103409. Online ahead of print.
ABSTRACT
Gastric cancer (GC) remains a major global health burden, with high incidence and mortality rates, particularly in East Asia, driven by factors such as Helicobacter pylori infection, dietary risks, and genetic predispositions. Conventional treatments like surgery and chemotherapy are limited by resistance, toxicity, and poor outcomes in advanced stages. The PI3K/Akt/mTOR and MAPK signaling pathways are central to GC pathogenesis, promoting proliferation, survival, metabolic reprogramming, epithelial-mesenchymal transition (EMT), and metastasis through aberrations like PIK3CA mutations, PTEN loss, and KRAS alterations. These pathways exhibit extensive crosstalk, contributing to therapeutic resistance. This review explores the regulatory effects of Traditional Chinese Medicine (TCM) on these pathways in GC, grounded in TCM principles such as Qi deficiency, Damp-Heat, and disharmony of the Spleen and Stomach. Single herbal monomers (e.g., curcumin, berberine, resveratrol) inhibit PI3K/Akt/mTOR by upregulating PTEN and suppressing mTOR, inducing autophagy and apoptosis. Classical herbs like Huangqin and Huanglian modulate Akt and ERK phosphorylation, while compound formulas (e.g., Banxia Xiexin Decoction, Sijunzi Decoction) synergistically target both pathways, reversing EMT and chemoresistance. TCM addresses crosstalk by disrupting feedback loops and reducing inflammation, enhancing efficacy in combination with Western therapies like chemotherapy and immunotherapy. Network pharmacology and multi-omics analyses reveal TCM's multitarget mechanisms, aligning with ZHENG-based personalization. Challenges include research variability, standardization issues, and incomplete mechanistic validation. Future directions emphasize high-quality trials, omics integration, and precision TCM for clinical translation. TCM offers low-toxicity, holistic options for integrative GC management, potentially improving survival and quality of life.
PMID:41825157 | DOI:10.1016/j.tice.2026.103409
-
Omics in Gastric
-
Autophagy-centered regulation of PI3K/Akt/mTOR and MAPK signaling by traditional Chinese medicine in gastric cancer
Tissue Cell. 2026 Mar 10;101:103409. doi: 10.1016/j.tice.2026.103409. Online ahead of print.ABSTRACTGastric cancer (GC) remains a major global health burden, with high incidence and mortality rates, particularly in East Asia, driven by factors such as Helicobacter pylori infection, dietary risks, and genetic predispositions. Conventional treatments like surgery and chemotherapy are limited by resistance, toxicity, and poor outcomes in advanced stages. The PI3K/Akt/mTOR and MAPK signaling pathway
Autophagy-centered regulation of PI3K/Akt/mTOR and MAPK signaling by traditional Chinese medicine in gastric cancer
Tissue Cell. 2026 Mar 10;101:103409. doi: 10.1016/j.tice.2026.103409. Online ahead of print.
ABSTRACT
Gastric cancer (GC) remains a major global health burden, with high incidence and mortality rates, particularly in East Asia, driven by factors such as Helicobacter pylori infection, dietary risks, and genetic predispositions. Conventional treatments like surgery and chemotherapy are limited by resistance, toxicity, and poor outcomes in advanced stages. The PI3K/Akt/mTOR and MAPK signaling pathways are central to GC pathogenesis, promoting proliferation, survival, metabolic reprogramming, epithelial-mesenchymal transition (EMT), and metastasis through aberrations like PIK3CA mutations, PTEN loss, and KRAS alterations. These pathways exhibit extensive crosstalk, contributing to therapeutic resistance. This review explores the regulatory effects of Traditional Chinese Medicine (TCM) on these pathways in GC, grounded in TCM principles such as Qi deficiency, Damp-Heat, and disharmony of the Spleen and Stomach. Single herbal monomers (e.g., curcumin, berberine, resveratrol) inhibit PI3K/Akt/mTOR by upregulating PTEN and suppressing mTOR, inducing autophagy and apoptosis. Classical herbs like Huangqin and Huanglian modulate Akt and ERK phosphorylation, while compound formulas (e.g., Banxia Xiexin Decoction, Sijunzi Decoction) synergistically target both pathways, reversing EMT and chemoresistance. TCM addresses crosstalk by disrupting feedback loops and reducing inflammation, enhancing efficacy in combination with Western therapies like chemotherapy and immunotherapy. Network pharmacology and multi-omics analyses reveal TCM's multitarget mechanisms, aligning with ZHENG-based personalization. Challenges include research variability, standardization issues, and incomplete mechanistic validation. Future directions emphasize high-quality trials, omics integration, and precision TCM for clinical translation. TCM offers low-toxicity, holistic options for integrative GC management, potentially improving survival and quality of life.
PMID:41825157 | DOI:10.1016/j.tice.2026.103409
-
Nature - Issue - nature.com science feeds
-
Risk-adaptive therapy guided by dynamic ctDNA in nasopharyngeal carcinoma
Nature, Published online: 11 March 2026; doi:10.1038/s41586-026-10244-wA clinical trial testing whether monitoring ctDNA clearance during treatment for nasopharyngeal cancer could be used to inform decisions about an individual’s subsequent therapeutic programme shows promising results.
Risk-adaptive therapy guided by dynamic ctDNA in nasopharyngeal carcinoma
Nature, Published online: 11 March 2026; doi:10.1038/s41586-026-10244-w
A clinical trial testing whether monitoring ctDNA clearance during treatment for nasopharyngeal cancer could be used to inform decisions about an individual’s subsequent therapeutic programme shows promising results.-
cs.AI, q-bio.NC updates on arXiv.org
-
RedSage: A Cybersecurity Generalist LLM
arXiv:2601.22159v2 Announce Type: replace-cross Abstract: Cybersecurity operations demand assistant LLMs that support diverse workflows without exposing sensitive data. Existing solutions either rely on proprietary APIs with privacy risks or on open models lacking domain adaptation. To bridge this gap, we curate 11.8B tokens of cybersecurity-focused continual pretraining data via large-scale web filtering and manual collection of high-quality resources, spanning 28.6K documents across framework
RedSage: A Cybersecurity Generalist LLM
-
cs.AI, q-bio.NC updates on arXiv.org
-
Efficient Agent Training for Computer Use
arXiv:2505.13909v2 Announce Type: replace Abstract: Scaling up high-quality trajectory data has long been a critical bottleneck for developing human-like computer use agents. We introduce PC Agent-E, an efficient agent training framework that significantly reduces reliance on large-scale human demonstrations. Starting with just 312 human-annotated computer use trajectories, we further augment them by synthesizing diverse alternative action decisions with Claude 3.7 Sonnet. Trained on these enri
Efficient Agent Training for Computer Use
-
cs.AI, q-bio.NC updates on arXiv.org
-
Reducing Belief Deviation in Reinforcement Learning for Active Reasoning
arXiv:2510.12264v2 Announce Type: replace Abstract: Active reasoning requires large language model (LLM) agents to interact with external sources and strategically gather information to solve problems in multiple turns. Central to this process is belief tracking: maintaining an accurate representation of the underlying state and uncertainty in understanding and solving the problem. However, due to limited reasoning capabilities, LLM-based agents often suffer belief deviation: their internal bel
Reducing Belief Deviation in Reinforcement Learning for Active Reasoning
-
cs.AI, q-bio.NC updates on arXiv.org
-
Mantis: A Versatile Vision-Language-Action Model with Disentangled Visual Foresight
arXiv:2511.16175v2 Announce Type: replace-cross Abstract: Recent advances in Vision-Language-Action (VLA) models demonstrate that visual signals can effectively complement sparse action supervisions. However, letting VLA directly predict high-dimensional visual states can distribute model capacity and incur prohibitive training cost, while compressing visual states into more compact supervisory signals inevitably incurs information bottlenecks. Moreover, existing methods often suffer from poor
Mantis: A Versatile Vision-Language-Action Model with Disentangled Visual Foresight
-
cs.AI, q-bio.NC updates on arXiv.org
-
Generative Reasoning Re-ranker
arXiv:2602.07774v4 Announce Type: replace-cross Abstract: Recent studies increasingly explore Large Language Models (LLMs) as a new paradigm for recommendation systems due to their scalability and world knowledge. However, existing work has three key limitations: (1) most efforts focus on retrieval and ranking, while the reranking phase, critical for refining final recommendations, is largely overlooked; (2) LLMs are typically used in zero-shot or supervised fine-tuning settings, leaving their
Generative Reasoning Re-ranker
-
cs.AI, q-bio.NC updates on arXiv.org
-
Measuring Physical-World Privacy Awareness of Large Language Models: An Evaluation Benchmark
arXiv:2510.02356v3 Announce Type: replace-cross Abstract: The deployment of Large Language Models (LLMs) in embodied agents creates an urgent need to measure their privacy awareness in the physical world. Existing evaluation methods, however, are confined to natural language based scenarios. To bridge this gap, we introduce EAPrivacy, a comprehensive evaluation benchmark designed to quantify the physical-world privacy awareness of LLM-powered agents. EAPrivacy utilizes procedurally generated sc