Normal view
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Cell
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Boron-bridged GIPCs stabilize cell wall anchoring and PIN polar domains
Boron cross-links glycosylinositol phosphorylceramides (GIPCs) to physically tether the plasma membrane to the cell wall in plant cells, stabilizing PIN polar domains via direct lipid-protein interaction and enabling polar auxin transport.
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cs.AI, q-bio.NC updates on arXiv.org
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PRISMA-LLM: An Empirical Reporting Framework for AI-Assisted Systematic Reviews
arXiv:2609.11559v1 Announce Type: cross Abstract: Large language models (LLMs) and AI-enabled software increasingly participate in systematic-review decisions, yet the information needed to audit these workflows is reported inconsistently. We analyze SciLitBench, a corpus of 888 review-automation papers with 14,726 annotations, to characterize changes in methods, review-stage use, evaluation and reported limitations. Automation has shifted toward LLM- and software-facing workflows, including st
PRISMA-LLM: An Empirical Reporting Framework for AI-Assisted Systematic Reviews
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cs.AI, q-bio.NC updates on arXiv.org
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Neural Multichannel Distant Speaker Diarization with Heavy-tailed Source Separation Model
arXiv:2609.12154v1 Announce Type: cross Abstract: Distant speaker diarization remains challenging due to difficult acoustic environments, varying numbers of speakers and overlapping speech. Model-driven methods are proposed to exploit the speech source features in multi-channel recordings that help diarization. This paper generalizes a neural model that jointly learns to perform blind source separation and diarization over speech mixtures (neural FCASA) with heavy-tailed models. The popular Gau
Neural Multichannel Distant Speaker Diarization with Heavy-tailed Source Separation Model
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cs.AI, q-bio.NC updates on arXiv.org
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SCOPE-OPSD: Fisher-Conditioned Privileged Subspaces for On-Policy Self-Distillation
arXiv:2609.12579v1 Announce Type: cross Abstract: On-policy self-distillation (OPSD) scores student-generated prefixes with a solution-conditioned self-teacher, yet transfers supervision only through next-token probabilities. We ask whether the aligned final-layer discrepancy offers a useful second channel, and how to test that channel without confusing its geometry with auxiliary strength. SCOPE-OPSD projects the privileged teacher-student residual onto a frozen rank-64 factor estimated from r
SCOPE-OPSD: Fisher-Conditioned Privileged Subspaces for On-Policy Self-Distillation
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Cell Death Discovery nature.com science feeds
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Hepatic Usp2 orchestrates de novo lipogenesis through G3bp2 stabilization and β-catenin activation
Cell Death Discovery, Published online: 14 September 2026; doi:10.1038/s41420-026-03333-2Hepatic Usp2 orchestrates de novo lipogenesis through G3bp2 stabilization and β-catenin activation
Hepatic Usp2 orchestrates de novo lipogenesis through G3bp2 stabilization and β-catenin activation
Cell Death Discovery, Published online: 14 September 2026; doi:10.1038/s41420-026-03333-2
Hepatic Usp2 orchestrates de novo lipogenesis through G3bp2 stabilization and β-catenin activation-
Omics in Gastric
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Multi-Omics-Enabled Precision Strategies for Overcoming CAR-T Therapy Limitations in Gastrointestinal Malignancies
Biofactors. 2026 Sep-Oct;52(5):e70150. doi: 10.1002/biof.70150.ABSTRACTGastrointestinal malignancies, including gastric cancer, colorectal cancer, hepatocellular carcinoma, and pancreatic ductal adenocarcinoma, remain major causes of cancer-related morbidity and mortality worldwide. Although chimeric antigen receptor T-cell (CAR-T) therapy has revolutionized the treatment of hematologic malignancies, its efficacy in gastrointestinal solid tumors remains limited by antigen heterogeneity, insuffic
Multi-Omics-Enabled Precision Strategies for Overcoming CAR-T Therapy Limitations in Gastrointestinal Malignancies
Biofactors. 2026 Sep-Oct;52(5):e70150. doi: 10.1002/biof.70150.
ABSTRACT
Gastrointestinal malignancies, including gastric cancer, colorectal cancer, hepatocellular carcinoma, and pancreatic ductal adenocarcinoma, remain major causes of cancer-related morbidity and mortality worldwide. Although chimeric antigen receptor T-cell (CAR-T) therapy has revolutionized the treatment of hematologic malignancies, its efficacy in gastrointestinal solid tumors remains limited by antigen heterogeneity, insufficient trafficking and infiltration, immunosuppressive tumor microenvironments, on-target off-tumor toxicity, and adaptive resistance. In this review, we summarize the current landscape of CAR-T therapy in gastric cancer, colorectal cancer, hepatocellular carcinoma, and pancreatic cancer, with a focus on representative target antigens and emerging biomarker strategies. We further discuss two major categories of biomarkers: target antigen-related biomarkers and conventional dynamic biomarkers, including serum tumor markers, cytokine changes, CAR-T expansion kinetics, and antigen-loss monitoring. In addition, we highlight how single-cell ribonucleic acid sequencing and spatial transcriptomics provide complementary insights into cellular states, immune exhaustion, stromal barriers, and spatially restricted immune exclusion. By integrating these multi-omics approaches with biomarker-guided patient stratification and next-generation CAR-T engineering, gastrointestinal solid tumor CAR-T therapy may evolve from empirical optimization toward mechanism-driven and precision-guided clinical translation.
PMID:42717494 | PMC:PMC13558850 | DOI:10.1002/biof.70150
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Omics in Hepatocellular
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Multi-Omics-Enabled Precision Strategies for Overcoming CAR-T Therapy Limitations in Gastrointestinal Malignancies
Biofactors. 2026 Sep-Oct;52(5):e70150. doi: 10.1002/biof.70150.ABSTRACTGastrointestinal malignancies, including gastric cancer, colorectal cancer, hepatocellular carcinoma, and pancreatic ductal adenocarcinoma, remain major causes of cancer-related morbidity and mortality worldwide. Although chimeric antigen receptor T-cell (CAR-T) therapy has revolutionized the treatment of hematologic malignancies, its efficacy in gastrointestinal solid tumors remains limited by antigen heterogeneity, insuffic
Multi-Omics-Enabled Precision Strategies for Overcoming CAR-T Therapy Limitations in Gastrointestinal Malignancies
Biofactors. 2026 Sep-Oct;52(5):e70150. doi: 10.1002/biof.70150.
ABSTRACT
Gastrointestinal malignancies, including gastric cancer, colorectal cancer, hepatocellular carcinoma, and pancreatic ductal adenocarcinoma, remain major causes of cancer-related morbidity and mortality worldwide. Although chimeric antigen receptor T-cell (CAR-T) therapy has revolutionized the treatment of hematologic malignancies, its efficacy in gastrointestinal solid tumors remains limited by antigen heterogeneity, insufficient trafficking and infiltration, immunosuppressive tumor microenvironments, on-target off-tumor toxicity, and adaptive resistance. In this review, we summarize the current landscape of CAR-T therapy in gastric cancer, colorectal cancer, hepatocellular carcinoma, and pancreatic cancer, with a focus on representative target antigens and emerging biomarker strategies. We further discuss two major categories of biomarkers: target antigen-related biomarkers and conventional dynamic biomarkers, including serum tumor markers, cytokine changes, CAR-T expansion kinetics, and antigen-loss monitoring. In addition, we highlight how single-cell ribonucleic acid sequencing and spatial transcriptomics provide complementary insights into cellular states, immune exhaustion, stromal barriers, and spatially restricted immune exclusion. By integrating these multi-omics approaches with biomarker-guided patient stratification and next-generation CAR-T engineering, gastrointestinal solid tumor CAR-T therapy may evolve from empirical optimization toward mechanism-driven and precision-guided clinical translation.
PMID:42717494 | PMC:PMC13558850 | DOI:10.1002/biof.70150
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Cell Death Discovery nature.com science feeds
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Fibronectin 1 mediated histone lactylation promotes malignant progression of GIST regulated by m<sup>6</sup>A modification
Cell Death Discovery, Published online: 11 September 2026; doi:10.1038/s41420-026-03338-xFibronectin 1 mediated histone lactylation promotes malignant progression of GIST regulated by m6A modification
Fibronectin 1 mediated histone lactylation promotes malignant progression of GIST regulated by m<sup>6</sup>A modification
Cell Death Discovery, Published online: 11 September 2026; doi:10.1038/s41420-026-03338-x
Fibronectin 1 mediated histone lactylation promotes malignant progression of GIST regulated by m6A modification-
(Multiomics OR Omics) AND (Pancreatic)
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Multi-Omics-Enabled Precision Strategies for Overcoming CAR-T Therapy Limitations in Gastrointestinal Malignancies
Biofactors. 2026 Sep-Oct;52(5):e70150. doi: 10.1002/biof.70150.ABSTRACTGastrointestinal malignancies, including gastric cancer, colorectal cancer, hepatocellular carcinoma, and pancreatic ductal adenocarcinoma, remain major causes of cancer-related morbidity and mortality worldwide. Although chimeric antigen receptor T-cell (CAR-T) therapy has revolutionized the treatment of hematologic malignancies, its efficacy in gastrointestinal solid tumors remains limited by antigen heterogeneity, insuffic
Multi-Omics-Enabled Precision Strategies for Overcoming CAR-T Therapy Limitations in Gastrointestinal Malignancies
Biofactors. 2026 Sep-Oct;52(5):e70150. doi: 10.1002/biof.70150.
ABSTRACT
Gastrointestinal malignancies, including gastric cancer, colorectal cancer, hepatocellular carcinoma, and pancreatic ductal adenocarcinoma, remain major causes of cancer-related morbidity and mortality worldwide. Although chimeric antigen receptor T-cell (CAR-T) therapy has revolutionized the treatment of hematologic malignancies, its efficacy in gastrointestinal solid tumors remains limited by antigen heterogeneity, insufficient trafficking and infiltration, immunosuppressive tumor microenvironments, on-target off-tumor toxicity, and adaptive resistance. In this review, we summarize the current landscape of CAR-T therapy in gastric cancer, colorectal cancer, hepatocellular carcinoma, and pancreatic cancer, with a focus on representative target antigens and emerging biomarker strategies. We further discuss two major categories of biomarkers: target antigen-related biomarkers and conventional dynamic biomarkers, including serum tumor markers, cytokine changes, CAR-T expansion kinetics, and antigen-loss monitoring. In addition, we highlight how single-cell ribonucleic acid sequencing and spatial transcriptomics provide complementary insights into cellular states, immune exhaustion, stromal barriers, and spatially restricted immune exclusion. By integrating these multi-omics approaches with biomarker-guided patient stratification and next-generation CAR-T engineering, gastrointestinal solid tumor CAR-T therapy may evolve from empirical optimization toward mechanism-driven and precision-guided clinical translation.
PMID:42717494 | PMC:PMC13558850 | DOI:10.1002/biof.70150
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Molecular Therapy
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BRD4 Inhibition Mitigates Acute and Chronic Corneal Injury Following Topical Nitrogen Mustard Exposure
Lu and colleagues identify BRD4 as a central epigenetic driver of vesicant-induced corneal injury. Using reproducible mouse and rabbit models, they show that short-term topical BRD4 inhibition suppresses acute inflammation and provides durable protection of corneal clarity, stromal organization, endothelial integrity, and neovascularization, supporting translational therapy for chemical eye injuries.
BRD4 Inhibition Mitigates Acute and Chronic Corneal Injury Following Topical Nitrogen Mustard Exposure
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Molecular Therapy
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MITF-SCD1 Lipid Metabolic Axis Prevents Ouabain-Induced Spiral Ganglion Neuron Ferroptosis and Hearing Loss
Ouabain triggers cochlear spiral ganglion neuron (SGN) ferroptosis and hearing loss via SCD1 downregulation. MITF directly activates Scd1 transcription, and the MITF–SCD1 axis mitigates SGN ferroptosis and hearing impairment in ototoxic ouabain and cisplatin models, revealing a lipid metabolic vulnerability and therapeutic target for sensorineural hearing loss.
MITF-SCD1 Lipid Metabolic Axis Prevents Ouabain-Induced Spiral Ganglion Neuron Ferroptosis and Hearing Loss
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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
JarvisGUI: Towards Cross-Device GUI Agents with Dynamic Task Composition
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cs.AI, q-bio.NC updates on arXiv.org
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FrogNano: Training a 4B Coding Agent via Online Task Synthesis
arXiv:2609.07925v2 Announce Type: replace Abstract: We present FrogNano, a 4B coding agent designed to tackle software engineering (SWE) tasks efficiently and effectively, even under resource-constrained environments. It is post-trained exclusively via RL on around 1,500 SWE environments with synthetic tasks. A key ingredient for improving performance is an online task synthesis pipeline that creates tasks calibrated to the frontier of learnability for the current checkpoint. This report provid
FrogNano: Training a 4B Coding Agent via Online Task Synthesis
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cs.AI, q-bio.NC updates on arXiv.org
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The Biggest Risk of Embodied AI is Governance Lag
arXiv:2604.21938v2 Announce Type: replace-cross Abstract: Embodied AI is widely discussed as a job-displacement problem. The deeper risk, however, is governance lag: the time and capability gap between a measurable change in technology deployment and an institutional response able to address its consequences. Building on the established pacing problem and the Collingridge dilemma, this article argues that embodied AI intensifies that gap through scalable models and platforms, task-level reorgan
The Biggest Risk of Embodied AI is Governance Lag
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Omics in Hepatocellular
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Integrated single-cell multi-omics characterization reveals lipid-associated macrophage-mediated immunosuppression in neoadjuvant immunotherapy of hepatocellular carcinoma
Nat Commun. 2026 Jul 31;17(1):9381. doi: 10.1038/s41467-026-75949-y.ABSTRACTHepatocellular carcinoma (HCC) is a cancer with high incidence and mortality rate. Although immune checkpoint inhibitors (ICIs) improved survival outcomes for HCC patients, limited objective response rate highlights the urgency of investigating determinants of immunotherapy. Here, we explore HCC resistance mechanisms following neoadjuvant αPD-1 immunotherapy by constructing a comprehensive multi-modal single-cell transcr
Integrated single-cell multi-omics characterization reveals lipid-associated macrophage-mediated immunosuppression in neoadjuvant immunotherapy of hepatocellular carcinoma
Nat Commun. 2026 Jul 31;17(1):9381. doi: 10.1038/s41467-026-75949-y.
ABSTRACT
Hepatocellular carcinoma (HCC) is a cancer with high incidence and mortality rate. Although immune checkpoint inhibitors (ICIs) improved survival outcomes for HCC patients, limited objective response rate highlights the urgency of investigating determinants of immunotherapy. Here, we explore HCC resistance mechanisms following neoadjuvant αPD-1 immunotherapy by constructing a comprehensive multi-modal single-cell transcriptomic atlas consisting of 14 HCC patients treated with αPD-1 from our cohort (ClinicalTrials.gov ID: NCT06571396) and 60 external HCC cases with heterogeneous treatment backgrounds. Supervised by clinical outcomes of our cohort, we identify positive and negative regulators of immunotherapy within the tumor immune microenvironment (TIME), especially lipid-associated macrophages (LAM) with increased lipid metabolic state in non-responders and characterized by C1QA, FABP1, and APOA1 expression. We further show the presence, exogenous inducements and immunosuppressive functions of LAM, along with regulation strategies of its lipid-associated condition, including lycopene and chiglitazar. Furthermore, we construct interaction networks of immune regulators across responders and non-responders, showing distinct ligand-receptor landscapes with intervention targets. We reveal the TIME components including immunosuppressive LAMs that influence immunotherapy outcomes, thus providing evidence and insights for exploring immune landscape and therapeutic strategies for HCC immunotherapy. ClinicalTrials.gov ID: NCT06571396.
PMID:42680737 | PMC:PMC13534469 | DOI:10.1038/s41467-026-75949-y
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cs.AI, q-bio.NC updates on arXiv.org
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TIGER: Text-Informed Generalized Enzyme-Reaction Retrieval
arXiv:2605.24489v1 Announce Type: new Abstract: Enzyme-reaction retrieval is a fundamental problem in computational biology, underpinning enzyme characterization, reaction mechanism elucidation, and the rational design of metabolic pathways and biocatalysts. As a bidirectional task, it entails both enzyme-to-reaction and reaction-to-enzyme mapping. However, existing approaches suffer from poor generalization across tasks and distributions, with performance highly sensitive to dataset splits and
TIGER: Text-Informed Generalized Enzyme-Reaction Retrieval
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cs.AI, q-bio.NC updates on arXiv.org
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Security of OpenClaw Agents: Fundamentals, Attacks, and Countermeasures
arXiv:2605.25435v1 Announce Type: new Abstract: The rapid evolution of large language model (LLM)-driven autonomous agents has given rise to OpenClaw, a new class of open-source agent frameworks that operate as continuously running, skill-augmented systems with persistent memory, multi-channel interaction, and high degrees of autonomy. Such capabilities enable OpenClaw agents to autonomously execute complex, multi-step tasks and interact seamlessly with external applications, but simultaneously
Security of OpenClaw Agents: Fundamentals, Attacks, and Countermeasures
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cs.AI, q-bio.NC updates on arXiv.org
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Harnessing AtomisticSkills for Agentic Atomistic Research
arXiv:2605.24002v1 Announce Type: cross Abstract: Computational materials science and chemistry span vast knowledge domains and fractured software ecosystems. Although large language models (LLMs) have demonstrated research capabilities, scaling monolithic agents to manage the rigor and complexity of atomistic research remains a challenge. Here, we introduce AtomisticSkills, an open-source harness framework that empowers general-purpose AI coding agents to conduct atomistic research across mate
Harnessing AtomisticSkills for Agentic Atomistic Research
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cs.AI, q-bio.NC updates on arXiv.org
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SEP-Attack: A Simple and Effective Paradigm for Transfer-Based Textual Adversarial Attack
arXiv:2605.24958v1 Announce Type: cross Abstract: Despite the strong performance of deep neural networks in modern Web and language applications, they remain vulnerable to adversarial attacks, especially transferable attacks that generate adversarial examples using surrogate models without accessing the victim model. Transferable attacks in the text domain are still under-explored, with only a few studies addressing this challenging issue, often with suboptimal results due to equal treatment of
SEP-Attack: A Simple and Effective Paradigm for Transfer-Based Textual Adversarial Attack
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cs.AI, q-bio.NC updates on arXiv.org
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MuNet: A Mutualistic Network for Joint 3D Human Mesh Recovery and 3D Clothed Human Reconstruction from Single Images
arXiv:2605.25861v2 Announce Type: cross Abstract: 3D human mesh recovery and 3D clothed human reconstruction are inherently related, yet they have long been studied in isolation, thereby overlooking the potential gains of joint optimization. To overcome this limitation, we propose to address these two tasks within a unified framework, which allows their mutual dependencies to be effectively exploited. Building on this idea, we propose MuNet, a mutualistic network for joint 3D human mesh recover