Normal view
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cs.AI, q-bio.NC updates on arXiv.org
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No Free Checker: A Survey of Verifiers for Robot Policies
arXiv:2609.09250v1 Announce Type: cross Abstract: A verifier for robot policies reads a candidate behavior and returns a score for how well it did, used both to evaluate vision-language-action policies and to train them. Verifiers range from success detectors and reward models to runtime monitors, safety filters, and temporal-logic specifications. We survey roughly 150 verifiers and compare them along two properties. Availability is how much a verdict costs, how early in a rollout the verdict a
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cs.AI, q-bio.NC updates on arXiv.org
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A Taxonomy of Architecture Options for Foundation Model-based Agents: Analysis and Decision Model
arXiv:2408.02920v2 Announce Type: replace-cross Abstract: The rapid advancement of AI technology has led to widespread applications of agent systems across various domains. However, the need for detailed architecture design poses significant challenges in designing and operating these systems. This paper introduces a taxonomy focused on the architectures of foundation-model-based agents, addressing critical aspects such as functional capabilities and non-functional qualities. We also discuss th
A Taxonomy of Architecture Options for Foundation Model-based Agents: Analysis and Decision Model
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cs.AI, q-bio.NC updates on arXiv.org
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Bit-Flip Attacks on Vision-Language-Action Models: Action-Decoding Architecture Shapes the Vulnerability
arXiv:2608.15475v3 Announce Type: replace-cross Abstract: Quantized Vision-Language-Action (VLA) models expose a weight-fault surface: Rowhammer-style faults can corrupt deployed INT8 bits. We present the first bit-flip attack on a VLA: a few gradient-selected flips reduce closed-loop success to $0\%$, while hundreds of random flips are harmless. Across four model variants spanning three action-head families, damaging bits concentrate in a few action-generating layers, but the empirical budget
Bit-Flip Attacks on Vision-Language-Action Models: Action-Decoding Architecture Shapes the Vulnerability
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(Multiomics OR Omics) AND (Lung OR gastric OR Hepatocellular)
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A programmed cell death learning signature predicts immunotherapy response and identifies AP1S1 as a regulator of immune exclusion in breast cancer
Chin J Cancer Res. 2026 Aug 30;38(4):480-500. doi: 10.21147/j.issn.1000-9604.2026.04.08.ABSTRACTOBJECTIVE: Breast cancer remains a leading cause of global cancer mortality, characterized by profound heterogeneity. While immune checkpoint blockade (ICB) has transformed oncology, its efficacy in breast cancer is often hindered by "immune-cold" microenvironments and immune exclusion. Programmed cell death (PCD) is a critical regulator of tumor immune microenvironment (TIME). However, its role in th
A programmed cell death learning signature predicts immunotherapy response and identifies AP1S1 as a regulator of immune exclusion in breast cancer
Chin J Cancer Res. 2026 Aug 30;38(4):480-500. doi: 10.21147/j.issn.1000-9604.2026.04.08.
ABSTRACT
OBJECTIVE: Breast cancer remains a leading cause of global cancer mortality, characterized by profound heterogeneity. While immune checkpoint blockade (ICB) has transformed oncology, its efficacy in breast cancer is often hindered by "immune-cold" microenvironments and immune exclusion. Programmed cell death (PCD) is a critical regulator of tumor immune microenvironment (TIME). However, its role in the breast cancer immune microenvironment remains poorly understood.
METHODS: We integrated multi-omics data from six breast cancer cohorts (N=3,764) to develop a programmed cell death learning signature (PCDsig) using over 100 machine learning combinations. The model was benchmarked against 29 published signatures. Single-cell transcriptomic analysis decoded the immune landscape and cellular crosstalk. The role of adaptor-related protein complex 1 subunit sigma 1 (AP1S1) was validated through a clinical cohort, in vitro functional assays, and in vivo syngeneic mouse models.
RESULTS: PCDsig significantly stratified patient prognosis across all cohorts, consistently outperforming 29 existing models. High PCDsig scores correlated with immune-excluded phenotypes, reduced CD8+ T cell infiltration, and lower immunophenoscores. Single-cell analysis revealed that high-PCDsig tumors utilize vascular endothelial growth factor A (VEGFA) signaling to foster an immunosuppressive microenvironment. AP1S1 was identified as the core driver of immune exclusion. And our clinical cohort supported the immune exclusion effect of AP1S1. AP1S1 knockdown impaired tumor progression in vitro and fundamentally remodeled the tumor immune ecosystem in vivo. Combining AP1S1 inhibition with anti-programmed cell death ligand 1 (anti-PD-L1) therapy exerted profound synergistic effects, driven by massive infiltration and functional activation of cytotoxic Granzyme B (GZMB)+CD8+ T cells.
CONCLUSIONS: Our study establishes the PCDsig we developed is a potential prognostic and predictive biomarker for breast cancer. We provide the first evidence of AP1S1 as a core immunomodulatory oncogene that mediates immune exclusion. Targeting AP1S1 represents a highly promising strategy to sensitize cold breast tumors to ICB, offering a new perspective for precision immunotherapy.
PMID:42712842 | PMC:PMC13551362 | DOI:10.21147/j.issn.1000-9604.2026.04.08
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(Multiomics OR Omics) AND (Pancreatic)
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A programmed cell death learning signature predicts immunotherapy response and identifies AP1S1 as a regulator of immune exclusion in breast cancer
Chin J Cancer Res. 2026 Aug 30;38(4):480-500. doi: 10.21147/j.issn.1000-9604.2026.04.08.ABSTRACTOBJECTIVE: Breast cancer remains a leading cause of global cancer mortality, characterized by profound heterogeneity. While immune checkpoint blockade (ICB) has transformed oncology, its efficacy in breast cancer is often hindered by "immune-cold" microenvironments and immune exclusion. Programmed cell death (PCD) is a critical regulator of tumor immune microenvironment (TIME). However, its role in th
A programmed cell death learning signature predicts immunotherapy response and identifies AP1S1 as a regulator of immune exclusion in breast cancer
Chin J Cancer Res. 2026 Aug 30;38(4):480-500. doi: 10.21147/j.issn.1000-9604.2026.04.08.
ABSTRACT
OBJECTIVE: Breast cancer remains a leading cause of global cancer mortality, characterized by profound heterogeneity. While immune checkpoint blockade (ICB) has transformed oncology, its efficacy in breast cancer is often hindered by "immune-cold" microenvironments and immune exclusion. Programmed cell death (PCD) is a critical regulator of tumor immune microenvironment (TIME). However, its role in the breast cancer immune microenvironment remains poorly understood.
METHODS: We integrated multi-omics data from six breast cancer cohorts (N=3,764) to develop a programmed cell death learning signature (PCDsig) using over 100 machine learning combinations. The model was benchmarked against 29 published signatures. Single-cell transcriptomic analysis decoded the immune landscape and cellular crosstalk. The role of adaptor-related protein complex 1 subunit sigma 1 (AP1S1) was validated through a clinical cohort, in vitro functional assays, and in vivo syngeneic mouse models.
RESULTS: PCDsig significantly stratified patient prognosis across all cohorts, consistently outperforming 29 existing models. High PCDsig scores correlated with immune-excluded phenotypes, reduced CD8+ T cell infiltration, and lower immunophenoscores. Single-cell analysis revealed that high-PCDsig tumors utilize vascular endothelial growth factor A (VEGFA) signaling to foster an immunosuppressive microenvironment. AP1S1 was identified as the core driver of immune exclusion. And our clinical cohort supported the immune exclusion effect of AP1S1. AP1S1 knockdown impaired tumor progression in vitro and fundamentally remodeled the tumor immune ecosystem in vivo. Combining AP1S1 inhibition with anti-programmed cell death ligand 1 (anti-PD-L1) therapy exerted profound synergistic effects, driven by massive infiltration and functional activation of cytotoxic Granzyme B (GZMB)+CD8+ T cells.
CONCLUSIONS: Our study establishes the PCDsig we developed is a potential prognostic and predictive biomarker for breast cancer. We provide the first evidence of AP1S1 as a core immunomodulatory oncogene that mediates immune exclusion. Targeting AP1S1 represents a highly promising strategy to sensitize cold breast tumors to ICB, offering a new perspective for precision immunotherapy.
PMID:42712842 | PMC:PMC13551362 | DOI:10.21147/j.issn.1000-9604.2026.04.08
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Nature - Issue - nature.com science feeds
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An operational perturbation proteomics-based virtual cell model
Nature, Published online: 09 September 2026; doi:10.1038/s41586-026-11001-9Temporal protein-abundance measurements from systematically perturbed breast cancer cell lines were generated to develop ProteinTalks, a virtual cell model that functions as an operational tool for diverse drug discovery tasks.
An operational perturbation proteomics-based virtual cell model
Nature, Published online: 09 September 2026; doi:10.1038/s41586-026-11001-9
Temporal protein-abundance measurements from systematically perturbed breast cancer cell lines were generated to develop ProteinTalks, a virtual cell model that functions as an operational tool for diverse drug discovery tasks.-
Nature Biotechnology - Issue - nature.com science feeds
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Integration of proteomic aging clocks in a phase 2a clinical trial supports simultaneous geroprotective assessment
Nature Biotechnology, Published online: 07 September 2026; doi:10.1038/s41587-026-03286-ySix proteomic clocks are applied in a clinical trial to assess anti-aging effects.
Integration of proteomic aging clocks in a phase 2a clinical trial supports simultaneous geroprotective assessment
Nature Biotechnology, Published online: 07 September 2026; doi:10.1038/s41587-026-03286-y
Six proteomic clocks are applied in a clinical trial to assess anti-aging effects.-
cs.AI, q-bio.NC updates on arXiv.org
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MemForest: An Efficient Agent Memory System with Hierarchical Temporal Indexing
arXiv:2605.23986v1 Announce Type: cross Abstract: Memory is a fundamental component for enabling long-context LLM agents, supporting persistent state across interactions through a continuous serve-and-update lifecycle. Despite substantial prior work, existing systems suffer from significant maintenance overhead due to two key limitations: coarse-grained state management and inherently sequential update pipelines. In particular, updates are often tightly coupled with LLM inference and require fu
MemForest: An Efficient Agent Memory System with Hierarchical Temporal Indexing
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cs.AI, q-bio.NC updates on arXiv.org
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HiGraph: A Large-Scale Hierarchical Graph Dataset for Malware Analysis
arXiv:2509.02113v2 Announce Type: replace-cross Abstract: The advancement of graph-based malware analysis is critically limited by the absence of large-scale datasets that capture the inherent hierarchical structure of software. Existing methods often oversimplify programs into single level graphs, failing to model the crucial semantic relationship between high-level functional interactions and low-level instruction logic. To bridge this gap, we introduce \dataset, the largest public hierarchic
HiGraph: A Large-Scale Hierarchical Graph Dataset for Malware Analysis
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cs.AI, q-bio.NC updates on arXiv.org
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$M^3-Verse$: A "Spot the Difference" Challenge for Large Multimodal Models
arXiv:2512.18735v2 Announce Type: replace-cross Abstract: Modern Large Multimodal Models (LMMs) have demonstrated extraordinary ability in static image and single-state spatial-temporal understanding. However, their capacity to comprehend the dynamic changes of objects within a shared spatial context between two distinct video observations, remains largely unexplored. This ability to reason about transformations within a consistent environment is particularly crucial for advancements in the fie
$M^3-Verse$: A "Spot the Difference" Challenge for Large Multimodal Models
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Nature - Issue - nature.com science feeds
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Can China’s Great Green Wall shape efforts to keep the world’s deserts at bay?
Nature, Published online: 15 April 2026; doi:10.1038/d41586-026-01102-wGrand anti-desertification schemes often fail when trees die and funding dries up — yet one project has broken the mould.
Can China’s Great Green Wall shape efforts to keep the world’s deserts at bay?
Nature, Published online: 15 April 2026; doi:10.1038/d41586-026-01102-w
Grand anti-desertification schemes often fail when trees die and funding dries up — yet one project has broken the mould.-
cs.AI, q-bio.NC updates on arXiv.org
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MAVEN: A Mesh-Aware Volumetric Encoding Network for Simulating 3D Flexible Deformation
arXiv:2604.04474v1 Announce Type: cross Abstract: Deep learning-based approaches, particularly graph neural networks (GNNs), have gained prominence in simulating flexible deformations and contacts of solids, due to their ability to handle unstructured physical fields and nonlinear regression on graph structures. However, existing GNNs commonly represent meshes with graphs built solely from vertices and edges. These approaches tend to overlook higher-dimensional spatial features, e.g., 2D facets
MAVEN: A Mesh-Aware Volumetric Encoding Network for Simulating 3D Flexible Deformation
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cs.AI, q-bio.NC updates on arXiv.org
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Cardinality Estimation for High Dimensional Similarity Queries with Adaptive Bucket Probing
arXiv:2604.04603v1 Announce Type: cross Abstract: In this work, we address the problem of cardinality estimation for similarity search in high-dimensional spaces. Our goal is to design a framework that is lightweight, easy to construct, and capable of providing accurate estimates with satisfying online efficiency. We leverage locality-sensitive hashing (LSH) to partition the vector space while preserving distance proximity. Building on this, we adopt the principles of classical multi-probe LSH
Cardinality Estimation for High Dimensional Similarity Queries with Adaptive Bucket Probing
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cs.AI, q-bio.NC updates on arXiv.org
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FAST-CAD: A Fairness-Aware Framework for Non-Contact Stroke Diagnosis
arXiv:2511.08887v4 Announce Type: replace-cross Abstract: Stroke is an acute cerebrovascular disease, and timely diagnosis significantly improves patient survival. However, existing automated diagnosis methods suffer from fairness issues across demographic groups, potentially exacerbating healthcare disparities. In this work we propose FAST-CAD, a theoretically grounded framework that combines domain-adversarial training (DAT) with group distributionally robust optimization (Group-DRO) for fair
FAST-CAD: A Fairness-Aware Framework for Non-Contact Stroke Diagnosis
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npj Digital Medicine
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HoloTrauma 3X Triadic AI Co reasoning for robot assisted emergency maxillofacial reconstruction
npj Digital Medicine, Published online: 04 April 2026; doi:10.1038/s41746-026-02573-xHoloTrauma 3X Triadic AI Co reasoning for robot assisted emergency maxillofacial reconstruction
HoloTrauma 3X Triadic AI Co reasoning for robot assisted emergency maxillofacial reconstruction
npj Digital Medicine, Published online: 04 April 2026; doi:10.1038/s41746-026-02573-x
HoloTrauma 3X Triadic AI Co reasoning for robot assisted emergency maxillofacial reconstruction-
cs.AI, q-bio.NC updates on arXiv.org
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Not All Tokens See Equally: Perception-Grounded Policy Optimization for Large Vision-Language Models
arXiv:2604.01840v1 Announce Type: new Abstract: While Reinforcement Learning from Verifiable Rewards (RLVR) has advanced reasoning in Large Vision-Language Models (LVLMs), prevailing frameworks suffer from a foundational methodological flaw: by distributing identical advantages across all generated tokens, these methods inherently dilute the learning signals essential for optimizing the critical, visually-grounded steps of multimodal reasoning. To bridge this gap, we formulate \textit{Token Vis
Not All Tokens See Equally: Perception-Grounded Policy Optimization for Large Vision-Language Models
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(Multiomics OR Omics) AND (Pancreatic)
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Robust transcriptomic hallmarks targeting intratumor heterogeneity in intrahepatic cholangiocarcinoma
Cell Rep Med. 2026 Mar 30:102708. doi: 10.1016/j.xcrm.2026.102708. Online ahead of print.ABSTRACTIntratumor heterogeneity (ITH) undermines transcriptome-based stratification in intrahepatic cholangiocarcinoma (iCCA). Here, we integrate multi-omics data from multi-region, single-region, and single-cell RNA sequencing cohorts to systematically characterize gene expression ITH. We uncover that immune and stromal heterogeneity are primary drivers of ITH, leading to misclassification of a median 27.8
Robust transcriptomic hallmarks targeting intratumor heterogeneity in intrahepatic cholangiocarcinoma
Cell Rep Med. 2026 Mar 30:102708. doi: 10.1016/j.xcrm.2026.102708. Online ahead of print.
ABSTRACT
Intratumor heterogeneity (ITH) undermines transcriptome-based stratification in intrahepatic cholangiocarcinoma (iCCA). Here, we integrate multi-omics data from multi-region, single-region, and single-cell RNA sequencing cohorts to systematically characterize gene expression ITH. We uncover that immune and stromal heterogeneity are primary drivers of ITH, leading to misclassification of a median 27.8% of tumors by existing subtyping systems. To overcome this, we identify a low-intratumor-heterogeneity/high-intertumor-variability (LIHV) gene set and develop an ITH-insensitive classification system defining five subgroups: inflammatory (SI), metabolic (SII), atypical (SIII-1), immune-silent (SIII-2), and neurodegenerative (SIII-3). These subgroups exhibit distinct clinical outcomes, molecular features, immune landscapes, and therapeutic vulnerabilities. GPRC5A and VTCN1 serve as robust immunohistochemical biomarkers for SI and SIII tumors, while serum CEA and CA19-9 identify inflammatory iCCA. Therapeutically, HSP90 inhibition synergizes with anti-PD1 in inflammatory iCCA, whereas combined anti-PD1 and anti-TIM3 suppresses neurodegenerative iCCA. Collectively, our study provides a robust molecular framework and actionable therapeutic strategies for iCCA.
PMID:41916296 | DOI:10.1016/j.xcrm.2026.102708
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cs.AI, q-bio.NC updates on arXiv.org
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1S-DAug: One-Shot Data Augmentation for Robust Few-Shot Generalization
arXiv:2602.00114v3 Announce Type: replace-cross Abstract: Few-shot learning (FSL) challenges model generalization to novel classes based on just a few shots of labeled examples, a testbed where traditional test-time augmentations fail to be effective. We introduce 1S-DAug, a one-shot generative augmentation operator that synthesizes diverse yet faithful variants from just one example image at test time. 1S-DAug couples traditional geometric perturbations with controlled noise injection and a de
1S-DAug: One-Shot Data Augmentation for Robust Few-Shot Generalization
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cs.AI, q-bio.NC updates on arXiv.org
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MovieTeller: Tool-augmented Movie Synopsis with ID Consistent Progressive Abstraction
arXiv:2602.23228v2 Announce Type: replace-cross Abstract: With the explosive growth of digital entertainment, automated video summarization has become indispensable for applications such as content indexing, personalized recommendation, and efficient media archiving. Automatic synopsis generation for long-form videos, such as movies and TV series, presents a significant challenge for existing Vision-Language Models (VLMs). While proficient at single-image captioning, these general-purpose model
MovieTeller: Tool-augmented Movie Synopsis with ID Consistent Progressive Abstraction
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cs.AI, q-bio.NC updates on arXiv.org
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Think with Grounding: Curriculum Reinforced Reasoning with Video Grounding for Long Video Understanding
arXiv:2602.18702v1 Announce Type: cross Abstract: Long video understanding is challenging due to rich and complicated multimodal clues in long temporal range.Current methods adopt reasoning to improve the model's ability to analyze complex video clues in long videos via text-form reasoning.However,the existing literature suffers from the fact that the text-only reasoning under fixed video context may exacerbate hallucinations since detailed crucial clues are often ignored under limited video co