Normal view
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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
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cs.AI, q-bio.NC updates on arXiv.org
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Xpertbench: Expert Level Tasks with Rubrics-Based Evaluation
arXiv:2604.02368v3 Announce Type: replace Abstract: As Large Language Models (LLMs) exhibit plateauing performance on conventional benchmarks, a pivotal challenge persists: evaluating their proficiency in complex, open-ended tasks characterizing genuine expert-level cognition. Existing frameworks suffer from narrow domain coverage, reliance on generalist tasks, or self-evaluation biases. To bridge this gap, we present XpertBench, a high-fidelity benchmark engineered to assess LLMs across authen
Xpertbench: Expert Level Tasks with Rubrics-Based Evaluation
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cs.AI, q-bio.NC updates on arXiv.org
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Document Parsing Unveiled: Techniques, Challenges, and Prospects for Structured Information Extraction
arXiv:2410.21169v5 Announce Type: replace-cross Abstract: Document parsing (DP) transforms unstructured or semi-structured documents into structured, machine-readable representations, enabling downstream applications such as knowledge base construction and retrieval-augmented generation (RAG). This survey provides a comprehensive and timely review of document parsing research. We propose a systematic taxonomy that organizes existing approaches into modular pipeline-based systems and unified mod
Document Parsing Unveiled: Techniques, Challenges, and Prospects for Structured Information Extraction
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cs.AI, q-bio.NC updates on arXiv.org
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Security Considerations for Artificial Intelligence Agents
arXiv:2603.12230v2 Announce Type: replace-cross Abstract: This article, a lightly adapted version of Perplexity's response to NIST/CAISI Request for Information 2025-0035, details our observations and recommendations concerning the security of frontier AI agents. These insights are informed by Perplexity's experience operating general-purpose agentic systems used by millions of users and thousands of enterprises in both controlled and open-world environments. Agent architectures change core ass
Security Considerations for Artificial Intelligence Agents
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(Multiomics OR Omics) AND (Lung OR gastric OR Hepatocellular)
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Decoding macrophage heterogeneity in the pulmonary fibrosis lung cancer transition
Front Immunol. 2026 Mar 20;17:1787094. doi: 10.3389/fimmu.2026.1787094. eCollection 2026.ABSTRACTPulmonary fibrosis (PF) significantly increases the risk of lung cancer (LC), but the mechanisms underlying this transition remain unclear. This overview positions macrophage heterogeneity as a central node within the PF-LC continuum. First, we describe important subpopulations of profibrotic and pro-tumor macrophages, including SPP1+, MERTK+, TREM2+, and MARCO+ cells, using high-resolution spatial a
Decoding macrophage heterogeneity in the pulmonary fibrosis lung cancer transition
Front Immunol. 2026 Mar 20;17:1787094. doi: 10.3389/fimmu.2026.1787094. eCollection 2026.
ABSTRACT
Pulmonary fibrosis (PF) significantly increases the risk of lung cancer (LC), but the mechanisms underlying this transition remain unclear. This overview positions macrophage heterogeneity as a central node within the PF-LC continuum. First, we describe important subpopulations of profibrotic and pro-tumor macrophages, including SPP1+, MERTK+, TREM2+, and MARCO+ cells, using high-resolution spatial and single-cell omics technologies. Next, we analyze the fundamental mechanisms that determine their function: the fibrotic microenvironment (e.g., extracellular matrix stiffness, hypoxia) induces profound metabolic reprogramming (e.g., Warburg effect, lipid peroxidation) and stabilizes epigenetic memory (e.g., DNA methylation, histone modifications), locking them into a pathogenic state. This reprogramming occurs through two main pathways: (1) metabolic reprogramming, characterized by aerobic glycolytic conversion and dysregulated lipid metabolism, which stimulates both pathogenic functions and suppression of T cell activity; (2) Epigenetic modifications, including stabilized alterations in DNA methylation, histone modifications, and superactivator patterns, which maintain cells in a tumor-promoting phenotype. As central nodes of communication, these macrophages interact pathologically with fibroblasts and epithelial cells through secreted factors and extracellular vesicles, forming self-reinforcing feedback loops that promote disease progression. We are studying the crucial role of new technologies, particularly multi-omic spatial models and high-precision organoids, in fostering mechanistic discoveries. These discoveries pave the way for new macrophage-focused therapeutic strategies, including the precise stratification of patients using biomarkers from liquid biopsies (such as soluble SPP1 and MARCO) and the development of targeted drug delivery systems for the selective modulation of macrophage function, thus establishing a new paradigm for therapeutic interventions in pulmonary fibrosis with concomitant lung cancer.
PMID:41939908 | PMC:PMC13046558 | DOI:10.3389/fimmu.2026.1787094
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Omics In Lung
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Decoding macrophage heterogeneity in the pulmonary fibrosis lung cancer transition
Front Immunol. 2026 Mar 20;17:1787094. doi: 10.3389/fimmu.2026.1787094. eCollection 2026.ABSTRACTPulmonary fibrosis (PF) significantly increases the risk of lung cancer (LC), but the mechanisms underlying this transition remain unclear. This overview positions macrophage heterogeneity as a central node within the PF-LC continuum. First, we describe important subpopulations of profibrotic and pro-tumor macrophages, including SPP1+, MERTK+, TREM2+, and MARCO+ cells, using high-resolution spatial a
Decoding macrophage heterogeneity in the pulmonary fibrosis lung cancer transition
Front Immunol. 2026 Mar 20;17:1787094. doi: 10.3389/fimmu.2026.1787094. eCollection 2026.
ABSTRACT
Pulmonary fibrosis (PF) significantly increases the risk of lung cancer (LC), but the mechanisms underlying this transition remain unclear. This overview positions macrophage heterogeneity as a central node within the PF-LC continuum. First, we describe important subpopulations of profibrotic and pro-tumor macrophages, including SPP1+, MERTK+, TREM2+, and MARCO+ cells, using high-resolution spatial and single-cell omics technologies. Next, we analyze the fundamental mechanisms that determine their function: the fibrotic microenvironment (e.g., extracellular matrix stiffness, hypoxia) induces profound metabolic reprogramming (e.g., Warburg effect, lipid peroxidation) and stabilizes epigenetic memory (e.g., DNA methylation, histone modifications), locking them into a pathogenic state. This reprogramming occurs through two main pathways: (1) metabolic reprogramming, characterized by aerobic glycolytic conversion and dysregulated lipid metabolism, which stimulates both pathogenic functions and suppression of T cell activity; (2) Epigenetic modifications, including stabilized alterations in DNA methylation, histone modifications, and superactivator patterns, which maintain cells in a tumor-promoting phenotype. As central nodes of communication, these macrophages interact pathologically with fibroblasts and epithelial cells through secreted factors and extracellular vesicles, forming self-reinforcing feedback loops that promote disease progression. We are studying the crucial role of new technologies, particularly multi-omic spatial models and high-precision organoids, in fostering mechanistic discoveries. These discoveries pave the way for new macrophage-focused therapeutic strategies, including the precise stratification of patients using biomarkers from liquid biopsies (such as soluble SPP1 and MARCO) and the development of targeted drug delivery systems for the selective modulation of macrophage function, thus establishing a new paradigm for therapeutic interventions in pulmonary fibrosis with concomitant lung cancer.
PMID:41939908 | PMC:PMC13046558 | DOI:10.3389/fimmu.2026.1787094
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cs.AI, q-bio.NC updates on arXiv.org
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Countering Catastrophic Forgetting of Large Language Models for Better Instruction Following via Weight-Space Model Merging
arXiv:2604.01538v1 Announce Type: cross Abstract: Large language models have been adopted in the medical domain for clinical documentation to reduce clinician burden. However, studies have reported that LLMs often "forget" a significant amount of instruction-following ability when fine-tuned using a task-specific medical dataset, a critical challenge in adopting general-purpose LLMs for clinical applications. This study presents a model merging framework to efficiently adapt general-purpose LLM
Countering Catastrophic Forgetting of Large Language Models for Better Instruction Following via Weight-Space Model Merging
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Omics In Lung
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Catgut implantation at acupoints improves anti-PD-1 inhibitor efficacy in lung cancer by inducing immune responses and remodeling the tumor microenvironment
Cancer Immunol Immunother. 2026 Mar 31;75(4):126. doi: 10.1007/s00262-026-04368-1.ABSTRACTWhile anti-programmed death-1 (anti-PD-1) therapy has revolutionized lung cancer treatment, its efficacy remains limited by an immunosuppressive tumor microenvironment (TME). We therefore investigated whether combining anti-PD-1 inhibitor with catgut embedding at the Zusanli acupoint (CIAA) could enhance anti-tumor immunity by reprogramming the TME in a lung cancer mouse model. Combining in vivo tumor monit
Catgut implantation at acupoints improves anti-PD-1 inhibitor efficacy in lung cancer by inducing immune responses and remodeling the tumor microenvironment
Cancer Immunol Immunother. 2026 Mar 31;75(4):126. doi: 10.1007/s00262-026-04368-1.
ABSTRACT
While anti-programmed death-1 (anti-PD-1) therapy has revolutionized lung cancer treatment, its efficacy remains limited by an immunosuppressive tumor microenvironment (TME). We therefore investigated whether combining anti-PD-1 inhibitor with catgut embedding at the Zusanli acupoint (CIAA) could enhance anti-tumor immunity by reprogramming the TME in a lung cancer mouse model. Combining in vivo tumor monitoring, multi-parametric immune profiling (flow cytometry, IHC, ELISA), and multi-omics analyses (transcriptomics and metabolomics), we found that the combination therapy was associated with enhanced tumor growth inhibition. This effect correlated with a comprehensive TME transformation: conversion to an immunologically active state with increased effector immune cell infiltration (CD8⁺ T, CD4⁺ T, B cells, macrophages) and decreased regulatory T cells, coupled with suppression of pro-tumorigenic factors (VEGF, IL-6). Integrated omics analysis suggests that the combined treatment may modulate tumor-stroma interaction pathways (e.g., PI3K-Akt, focal adhesion) and rewire immunometabolic networks (e.g., tryptophan metabolism). Our study provides hypothesis-generating correlative data positioning CIAA as a potential adjunct capable of remodeling the TME to potentiate anti-PD-1 therapy in lung cancer.
PMID:41915222 | PMC:PMC13038699 | DOI:10.1007/s00262-026-04368-1
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(Multiomics OR Omics) AND (Lung OR gastric OR Hepatocellular)
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Catgut implantation at acupoints improves anti-PD-1 inhibitor efficacy in lung cancer by inducing immune responses and remodeling the tumor microenvironment
Cancer Immunol Immunother. 2026 Mar 31;75(4):126. doi: 10.1007/s00262-026-04368-1.ABSTRACTWhile anti-programmed death-1 (anti-PD-1) therapy has revolutionized lung cancer treatment, its efficacy remains limited by an immunosuppressive tumor microenvironment (TME). We therefore investigated whether combining anti-PD-1 inhibitor with catgut embedding at the Zusanli acupoint (CIAA) could enhance anti-tumor immunity by reprogramming the TME in a lung cancer mouse model. Combining in vivo tumor monit
Catgut implantation at acupoints improves anti-PD-1 inhibitor efficacy in lung cancer by inducing immune responses and remodeling the tumor microenvironment
Cancer Immunol Immunother. 2026 Mar 31;75(4):126. doi: 10.1007/s00262-026-04368-1.
ABSTRACT
While anti-programmed death-1 (anti-PD-1) therapy has revolutionized lung cancer treatment, its efficacy remains limited by an immunosuppressive tumor microenvironment (TME). We therefore investigated whether combining anti-PD-1 inhibitor with catgut embedding at the Zusanli acupoint (CIAA) could enhance anti-tumor immunity by reprogramming the TME in a lung cancer mouse model. Combining in vivo tumor monitoring, multi-parametric immune profiling (flow cytometry, IHC, ELISA), and multi-omics analyses (transcriptomics and metabolomics), we found that the combination therapy was associated with enhanced tumor growth inhibition. This effect correlated with a comprehensive TME transformation: conversion to an immunologically active state with increased effector immune cell infiltration (CD8⁺ T, CD4⁺ T, B cells, macrophages) and decreased regulatory T cells, coupled with suppression of pro-tumorigenic factors (VEGF, IL-6). Integrated omics analysis suggests that the combined treatment may modulate tumor-stroma interaction pathways (e.g., PI3K-Akt, focal adhesion) and rewire immunometabolic networks (e.g., tryptophan metabolism). Our study provides hypothesis-generating correlative data positioning CIAA as a potential adjunct capable of remodeling the TME to potentiate anti-PD-1 therapy in lung cancer.
PMID:41915222 | DOI:10.1007/s00262-026-04368-1
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Omics In Lung
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A monocyte-centered framework for predicting immunochemotherapy efficacy in lung squamous cell carcinoma patients
EMBO Mol Med. 2026 Mar 30. doi: 10.1038/s44321-026-00410-y. Online ahead of print.ABSTRACTLung cancer is the leading cause of cancer-related mortality worldwide, with lung squamous cell carcinoma (LUSC) comprising 20-30% of cases. Immunochemotherapy (IC) is the standard first-line treatment for advanced LUSC, yet reliable predictors of therapeutic response remain unavailable. Using single-cell multi-omics profiling of paired pre- and post-treatment tumor and blood samples, we observed that patie
A monocyte-centered framework for predicting immunochemotherapy efficacy in lung squamous cell carcinoma patients
EMBO Mol Med. 2026 Mar 30. doi: 10.1038/s44321-026-00410-y. Online ahead of print.
ABSTRACT
Lung cancer is the leading cause of cancer-related mortality worldwide, with lung squamous cell carcinoma (LUSC) comprising 20-30% of cases. Immunochemotherapy (IC) is the standard first-line treatment for advanced LUSC, yet reliable predictors of therapeutic response remain unavailable. Using single-cell multi-omics profiling of paired pre- and post-treatment tumor and blood samples, we observed that patients responding to IC exhibited significantly higher baseline levels of peripheral blood monocytes, tumor-infiltrating classical monocytes, and APOBEC3A+ monocytes across both compartments compared with non-responders. These associations were independently validated in additional cohorts using routine complete blood count testing and multiplex immunofluorescence analysis of native tumor tissues. Our findings reveal monocyte-related parameters as clinically accessible indicators that link systemic immunity with the tumor microenvironment and hold promise for predicting IC responsiveness in patients with LUSC.
PMID:41912871 | DOI:10.1038/s44321-026-00410-y
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(Multiomics OR Omics) AND (Lung OR gastric OR Hepatocellular)
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A monocyte-centered framework for predicting immunochemotherapy efficacy in lung squamous cell carcinoma patients
EMBO Mol Med. 2026 Mar 30. doi: 10.1038/s44321-026-00410-y. Online ahead of print.ABSTRACTLung cancer is the leading cause of cancer-related mortality worldwide, with lung squamous cell carcinoma (LUSC) comprising 20-30% of cases. Immunochemotherapy (IC) is the standard first-line treatment for advanced LUSC, yet reliable predictors of therapeutic response remain unavailable. Using single-cell multi-omics profiling of paired pre- and post-treatment tumor and blood samples, we observed that patie
A monocyte-centered framework for predicting immunochemotherapy efficacy in lung squamous cell carcinoma patients
EMBO Mol Med. 2026 Mar 30. doi: 10.1038/s44321-026-00410-y. Online ahead of print.
ABSTRACT
Lung cancer is the leading cause of cancer-related mortality worldwide, with lung squamous cell carcinoma (LUSC) comprising 20-30% of cases. Immunochemotherapy (IC) is the standard first-line treatment for advanced LUSC, yet reliable predictors of therapeutic response remain unavailable. Using single-cell multi-omics profiling of paired pre- and post-treatment tumor and blood samples, we observed that patients responding to IC exhibited significantly higher baseline levels of peripheral blood monocytes, tumor-infiltrating classical monocytes, and APOBEC3A+ monocytes across both compartments compared with non-responders. These associations were independently validated in additional cohorts using routine complete blood count testing and multiplex immunofluorescence analysis of native tumor tissues. Our findings reveal monocyte-related parameters as clinically accessible indicators that link systemic immunity with the tumor microenvironment and hold promise for predicting IC responsiveness in patients with LUSC.
PMID:41912871 | DOI:10.1038/s44321-026-00410-y
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cs.AI, q-bio.NC updates on arXiv.org
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Residual Decoding: Mitigating Hallucinations in Large Vision-Language Models via History-Aware Residual Guidance
arXiv:2602.01047v3 Announce Type: replace-cross Abstract: Large Vision-Language Models (LVLMs) can reason from image-text inputs and perform well in various multimodal tasks. Despite this success, they are affected by language priors and often produce hallucinations. Hallucinations denote generated content that is grammatically and syntactically coherent, yet bears no match or direct relevance to visual input. To address this problem, we propose Residual Decoding (ResDec). It is a novel trainin
Residual Decoding: Mitigating Hallucinations in Large Vision-Language Models via History-Aware Residual Guidance
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cs.AI, q-bio.NC updates on arXiv.org
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When Models Judge Themselves: Unsupervised Self-Evolution for Multimodal Reasoning
arXiv:2603.21289v2 Announce Type: replace-cross Abstract: Recent progress in multimodal large language models has led to strong performance on reasoning tasks, but these improvements largely rely on high-quality annotated data or teacher-model distillation, both of which are costly and difficult to scale. To address this, we propose an unsupervised self-evolution training framework for multimodal reasoning that achieves stable performance improvements without using human-annotated answers or ex
When Models Judge Themselves: Unsupervised Self-Evolution for Multimodal Reasoning
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npj Digital Medicine
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Effects of multisensory stimulation based on immersive virtual reality in postoperative neuropsychiatric recovery after gynecological laparoscopy
npj Digital Medicine, Published online: 24 March 2026; doi:10.1038/s41746-026-02515-7Effects of multisensory stimulation based on immersive virtual reality in postoperative neuropsychiatric recovery after gynecological laparoscopy
Effects of multisensory stimulation based on immersive virtual reality in postoperative neuropsychiatric recovery after gynecological laparoscopy
npj Digital Medicine, Published online: 24 March 2026; doi:10.1038/s41746-026-02515-7
Effects of multisensory stimulation based on immersive virtual reality in postoperative neuropsychiatric recovery after gynecological laparoscopy-
cs.AI, q-bio.NC updates on arXiv.org
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Think with 3D: Geometric Imagination Grounded Spatial Reasoning from Limited Views
arXiv:2510.18632v4 Announce Type: replace-cross Abstract: Though recent advances in vision-language models (VLMs) have achieved remarkable progress across a wide range of multimodal tasks, understanding 3D spatial relationships from limited views remains a significant challenge. Previous reasoning methods typically rely on pure text (e.g., topological cognitive maps) or on 2D visual cues. However, their limited representational capacity hinders performance in specific tasks that require 3D spat
Think with 3D: Geometric Imagination Grounded Spatial Reasoning from Limited Views
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cs.AI, q-bio.NC updates on arXiv.org
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Multimodal Continual Learning with MLLMs from Multi-scenario Perspectives
arXiv:2511.18507v3 Announce Type: replace-cross Abstract: Multimodal large language models (MLLMs) deployed on devices must adapt to continuously changing visual scenarios such as variations in background and perspective, to effectively perform complex visual tasks. To investigate catastrophic forgetting under real-world scenario shifts, we construct a multimodal visual understanding dataset (MSVQA), covering four distinct scenarios and perspectives: high-altitude, underwater, low-altitude, and
Multimodal Continual Learning with MLLMs from Multi-scenario Perspectives
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Nature - Issue - nature.com science feeds
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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
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Attn-QAT: 4-Bit Attention With Quantization-Aware Training
arXiv:2603.00040v2 Announce Type: replace-cross Abstract: Achieving reliable 4-bit attention is a prerequisite for end-to-end FP4 computation on emerging FP4-capable GPUs, yet attention remains the main obstacle due to FP4's tiny dynamic range and attention's heavy-tailed activations. This paper presents the first systematic study of 4-bit quantization-aware training (QAT) for attention. We find that "drop-in" QAT, which naively combines an FP4 forward pass with a high-precision Flash Attention
Attn-QAT: 4-Bit Attention With Quantization-Aware Training
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cs.AI, q-bio.NC updates on arXiv.org
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ZipMap: Linear-Time Stateful 3D Reconstruction via Test-Time Training
arXiv:2603.04385v2 Announce Type: replace-cross Abstract: Feed-forward transformer models have driven rapid progress in 3D vision, but state-of-the-art methods such as VGGT and $\pi^3$ have a computational cost that scales quadratically with the number of input images, making them inefficient when applied to large image collections. Sequential-reconstruction approaches reduce this cost but sacrifice reconstruction quality. We introduce ZipMap, a stateful feed-forward model that achieves linear-
ZipMap: Linear-Time Stateful 3D Reconstruction via Test-Time Training
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Oncogene - Issue - nature.com science feeds
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<i>KRAS</i>-extrachromosomal DNA drives intratumoral heterogeneity in gastric cancer
Oncogene, Published online: 05 March 2026; doi:10.1038/s41388-026-03713-zKRAS-extrachromosomal DNA drives intratumoral heterogeneity in gastric cancer
<i>KRAS</i>-extrachromosomal DNA drives intratumoral heterogeneity in gastric cancer
Oncogene, Published online: 05 March 2026; doi:10.1038/s41388-026-03713-z
KRAS-extrachromosomal DNA drives intratumoral heterogeneity in gastric cancer