Normal view
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cs.AI, q-bio.NC updates on arXiv.org
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SCQ: Stabilizing Conservative Q-Learning with Sigmoid-Bounded Entropy
arXiv:2609.12749v1 Announce Type: new Abstract: Offline-to-online reinforcement learning reduces interaction cost for real-world robot learning but suffers from persistent value estimation instability. Existing methods address this through pessimistic regularization, lower-bound calibration, and architectural normalization, but an overlooked source of instability lies in the entropy formulation: the standard log-entropy term can become negative, destabilizing policy updates. We introduce SCQ (S
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cs.AI, q-bio.NC updates on arXiv.org
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AsyncFlow: An Asynchronous Streaming RL Framework for Efficient LLM Post-Training
arXiv:2507.01663v2 Announce Type: replace-cross Abstract: Reinforcement learning (RL) has become a pivotal technology in the post-training phase of large language models (LLMs). Traditional task-collocated RL frameworks suffer from significant scalability bottlenecks, while task-separated RL frameworks face challenges in managing complex dataflows and resolving resource idling. Furthermore, most existing frameworks are tightly coupled with LLM training or inference engines, making them difficul
AsyncFlow: An Asynchronous Streaming RL Framework for Efficient LLM Post-Training
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Molecular Therapy
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CAR T cells secreting anti-EpCAM bispecific T cell engagers overcome tumor heterogeneity in targeting epithelial-originated carcinomas
CAR T cells engineered to secrete tumor-localized anti-EpCAM bispecific T cell engagers (BTCEs) overcome antigen escape and heterogeneity across multiple epithelial carcinomas in preclinical models, achieving complete tumor eradication where conventional single-target CAR T cell therapies often failed, supporting broad translational potential for solid tumor immunotherapy.
CAR T cells secreting anti-EpCAM bispecific T cell engagers overcome tumor heterogeneity in targeting epithelial-originated carcinomas
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Molecular Therapy
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In vivo-directed evolution identifies AAV-WM04 as a next-generation vector for potent and sustained hearing restoration in DFNB9
AAV-WM04, an AAV vector identified through in-vivo-directed screening in the adult cochlea, enables highly efficient and selective inner hair cell transduction. Dual-AAV delivery of OTOF using AAV-WM04 restores hearing in a DFNA9 deafness mouse model at low doses, highlighting its translational potential for gene therapy.
In vivo-directed evolution identifies AAV-WM04 as a next-generation vector for potent and sustained hearing restoration in DFNB9
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cs.AI, q-bio.NC updates on arXiv.org
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A Signal-Language Foundation Model for Broad-Spectrum Cardiovascular Assessment from Routine Electrocardiography
arXiv:2605.25446v1 Announce Type: new Abstract: Electrocardiography (ECG) is central to cardiovascular care, but conventional AI models are often restricted to common arrhythmias and may generalize poorly across populations or clinically subtle diseases. We developed ECG Contrastive Language-Image Pre-training (ECGCLIP), a signal-language contrastive learning framework that aligns ECG waveforms with expert diagnostic reports. ECGCLIP was pre-trained on 2,837,962 ECG studies from 1,324,856 patie
A Signal-Language Foundation Model for Broad-Spectrum Cardiovascular Assessment from Routine Electrocardiography
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cs.AI, q-bio.NC updates on arXiv.org
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StakeBench: Evaluating Language Understanding Grounded in Market Commitment
arXiv:2605.26074v1 Announce Type: cross Abstract: Existing financial NLP benchmarks often rely on labels supplied by outside observers, measuring how language is perceived rather than what speakers have committed to in the market. We introduce StakeBench, an evaluation framework for language understanding grounded in market commitment. StakeBench links 560,876 comments from 2,261 resolved markets to verified position, action, and market-odds records across Polymarket and Manifold. Supervision i
StakeBench: Evaluating Language Understanding Grounded in Market Commitment
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cs.AI, q-bio.NC updates on arXiv.org
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SURGE: Surrogate Gradient Adaptation in Binary Neural Networks
arXiv:2605.10989v3 Announce Type: replace-cross Abstract: The training of Binary Neural Networks (BNNs) is fundamentally based on gradient approximation for non-differentiable binarization operations (e.g., sign function). However, prevailing methods including the Straight-Through Estimator (STE) and its improved variants, rely on hand-crafted designs that suffer from gradient mismatch problem and information loss induced by fixed-range gradient clipping. To address this, we propose SURrogate G
SURGE: Surrogate Gradient Adaptation in Binary Neural Networks
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Nature - Issue - nature.com science feeds
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Mummified early Permian reptile reveals ancient amniote breathing apparatus
Nature, Published online: 08 April 2026; doi:10.1038/s41586-026-10307-yA mummified fossil of the early Permian reptile Captorhinus reveals the potential ancestral amniote breathing mechanism and its impact on terrestrial vertebrate evolution.
Mummified early Permian reptile reveals ancient amniote breathing apparatus
Nature, Published online: 08 April 2026; doi:10.1038/s41586-026-10307-y
A mummified fossil of the early Permian reptile Captorhinus reveals the potential ancestral amniote breathing mechanism and its impact on terrestrial vertebrate evolution.-
Nature Biotechnology - Issue - nature.com science feeds
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Sequence Display enables large-scale sequence–activity datasets for rapid protein evolution
Nature Biotechnology, Published online: 08 April 2026; doi:10.1038/s41587-026-03087-3Sequence Display maps protein variant activities to a sequencing-based readout.
Sequence Display enables large-scale sequence–activity datasets for rapid protein evolution
Nature Biotechnology, Published online: 08 April 2026; doi:10.1038/s41587-026-03087-3
Sequence Display maps protein variant activities to a sequencing-based readout.-
cs.AI, q-bio.NC updates on arXiv.org
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IC3-Evolve: Proof-/Witness-Gated Offline LLM-Driven Heuristic Evolution for IC3 Hardware Model Checking
arXiv:2604.03232v1 Announce Type: new Abstract: IC3, also known as property-directed reachability (PDR), is a commonly-used algorithm for hardware safety model checking. It checks if a state transition system complies with a given safety property. IC3 either returns UNSAFE (indicating property violation) with a counterexample trace, or SAFE with a checkable inductive invariant as the proof to safety. In practice, the performance of IC3 is dominated by a large web of interacting heuristics and i
IC3-Evolve: Proof-/Witness-Gated Offline LLM-Driven Heuristic Evolution for IC3 Hardware Model Checking
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(Multiomics OR Omics) AND (Lung OR gastric OR Hepatocellular)
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Multi-omics integration and machine learning reveal gut-immune signatures in idiopathic pulmonary fibrosis: insights from bulk RNA-seq, single-cell profiles, spatial transcriptomics, and experimental validation
Front Immunol. 2026 Mar 19;17:1730289. doi: 10.3389/fimmu.2026.1730289. eCollection 2026.ABSTRACTBACKGROUND: Idiopathic pulmonary fibrosis (IPF) is a progressive, fatal lung disease with limited treatment options and a poor prognosis. Recent studies suggest a critical role for the gut-immune-lung axis in IPF, yet the underlying molecular mechanisms remain unclear.METHODS: The current study performed in silico multi-omics integration of publicly available datasets, including bulk RNA-seq, single-
Multi-omics integration and machine learning reveal gut-immune signatures in idiopathic pulmonary fibrosis: insights from bulk RNA-seq, single-cell profiles, spatial transcriptomics, and experimental validation
Front Immunol. 2026 Mar 19;17:1730289. doi: 10.3389/fimmu.2026.1730289. eCollection 2026.
ABSTRACT
BACKGROUND: Idiopathic pulmonary fibrosis (IPF) is a progressive, fatal lung disease with limited treatment options and a poor prognosis. Recent studies suggest a critical role for the gut-immune-lung axis in IPF, yet the underlying molecular mechanisms remain unclear.
METHODS: The current study performed in silico multi-omics integration of publicly available datasets, including bulk RNA-seq, single-cell and spatial transcriptomics, as well as peripheral blood multi-omics data to uncover key molecular signatures in IPF. Furthermore, machine learning techniques were utilized to identify core genes, whereas functional analyses and Mendelian randomization were conducted to evaluate the causal relationships among gut microbiota, immune cells, and IPF. Additionally, experimental validation using qPCR and ELISA assays was conducted in vitro, in vivo, and in patient plasma to confirm the expression patterns of key genes.
RESULTS: Across integrated public bulk, single-cell, spatial, and blood multi-omics, CXCL13, IL33, TLR4, and IGF1 were identified as core IPF genes consistently linked to immune infiltration and fibrotic remodeling. Deconvolution, scRNA-seq, and spatial mapping localized their dysregulation to fibroblasts and immune compartments (notably B-cell, macrophage, and mast-cell axes), highlighting fibroblast-immune crosstalk in fibrotic foci. A four-gene model robustly distinguished IPF from controls across cohorts. Mendelian randomization supported a gut-immune-lung axis, indicating causal effects of specific gut taxa on IPF risk via immune phenotypes. qPCR/ELISA in TGF-β1-stimulated fibroblasts, bleomycin mouse lungs, and patient plasma corroborated upregulation of IL33, CXCL13, IGF1 and downregulation of TLR4. Drug-signature reversal nominated cucurbitacin I and temsirolimus; molecular docking was performed as a preliminary in silico, computer-simulation-based assessment of potential ligand-protein interactions between these compounds and the four core targets.
CONCLUSION: This study provides new insights into the importance of gut-immune-lung axis in IPF and identifies CXCL13, IL33, TLR4, and IGF1 as diagnostic signatures and therapeutic targets. By integrating public multi-omics resources with experimental validation, our findings offer a foundation for future diagnostic and treatment strategies aimed at modulating the gut microbiota and immune system in IPF.
PMID:41939867 | PMC:PMC13043422 | DOI:10.3389/fimmu.2026.1730289
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Omics In Lung
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Multi-omics integration and machine learning reveal gut-immune signatures in idiopathic pulmonary fibrosis: insights from bulk RNA-seq, single-cell profiles, spatial transcriptomics, and experimental validation
Front Immunol. 2026 Mar 19;17:1730289. doi: 10.3389/fimmu.2026.1730289. eCollection 2026.ABSTRACTBACKGROUND: Idiopathic pulmonary fibrosis (IPF) is a progressive, fatal lung disease with limited treatment options and a poor prognosis. Recent studies suggest a critical role for the gut-immune-lung axis in IPF, yet the underlying molecular mechanisms remain unclear.METHODS: The current study performed in silico multi-omics integration of publicly available datasets, including bulk RNA-seq, single-
Multi-omics integration and machine learning reveal gut-immune signatures in idiopathic pulmonary fibrosis: insights from bulk RNA-seq, single-cell profiles, spatial transcriptomics, and experimental validation
Front Immunol. 2026 Mar 19;17:1730289. doi: 10.3389/fimmu.2026.1730289. eCollection 2026.
ABSTRACT
BACKGROUND: Idiopathic pulmonary fibrosis (IPF) is a progressive, fatal lung disease with limited treatment options and a poor prognosis. Recent studies suggest a critical role for the gut-immune-lung axis in IPF, yet the underlying molecular mechanisms remain unclear.
METHODS: The current study performed in silico multi-omics integration of publicly available datasets, including bulk RNA-seq, single-cell and spatial transcriptomics, as well as peripheral blood multi-omics data to uncover key molecular signatures in IPF. Furthermore, machine learning techniques were utilized to identify core genes, whereas functional analyses and Mendelian randomization were conducted to evaluate the causal relationships among gut microbiota, immune cells, and IPF. Additionally, experimental validation using qPCR and ELISA assays was conducted in vitro, in vivo, and in patient plasma to confirm the expression patterns of key genes.
RESULTS: Across integrated public bulk, single-cell, spatial, and blood multi-omics, CXCL13, IL33, TLR4, and IGF1 were identified as core IPF genes consistently linked to immune infiltration and fibrotic remodeling. Deconvolution, scRNA-seq, and spatial mapping localized their dysregulation to fibroblasts and immune compartments (notably B-cell, macrophage, and mast-cell axes), highlighting fibroblast-immune crosstalk in fibrotic foci. A four-gene model robustly distinguished IPF from controls across cohorts. Mendelian randomization supported a gut-immune-lung axis, indicating causal effects of specific gut taxa on IPF risk via immune phenotypes. qPCR/ELISA in TGF-β1-stimulated fibroblasts, bleomycin mouse lungs, and patient plasma corroborated upregulation of IL33, CXCL13, IGF1 and downregulation of TLR4. Drug-signature reversal nominated cucurbitacin I and temsirolimus; molecular docking was performed as a preliminary in silico, computer-simulation-based assessment of potential ligand-protein interactions between these compounds and the four core targets.
CONCLUSION: This study provides new insights into the importance of gut-immune-lung axis in IPF and identifies CXCL13, IL33, TLR4, and IGF1 as diagnostic signatures and therapeutic targets. By integrating public multi-omics resources with experimental validation, our findings offer a foundation for future diagnostic and treatment strategies aimed at modulating the gut microbiota and immune system in IPF.
PMID:41939867 | PMC:PMC13043422 | DOI:10.3389/fimmu.2026.1730289
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Journal of Medical Internet Research
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Accuracy of Radiomics-Based Machine Learning for Predicting Risk of Recurrence in Non–Small Cell Lung Cancer: Systematic Review and Meta-Analysis
Background: During the diagnosis and treatment of non–small cell lung cancer (NSCLC), detecting the risk of its recurrence in an early phase is still challenging. Recent studies have investigated the radiomics-based machine learning (ML) models for detecting the risk of recurrence in NSCLC. However, there is still insufficient systematic evidence to prove its efficiency. Objective: This study is designed to systematically evaluate the effectiveness of radiomics-based ML in predicting the risk of
Accuracy of Radiomics-Based Machine Learning for Predicting Risk of Recurrence in Non–Small Cell Lung Cancer: Systematic Review and Meta-Analysis
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cs.AI, q-bio.NC updates on arXiv.org
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WiFi2Cap: Semantic Action Captioning from Wi-Fi CSI via Limb-Level Semantic Alignment
arXiv:2603.22690v1 Announce Type: cross Abstract: Privacy-preserving semantic understanding of human activities is important for indoor sensing, yet existing Wi-Fi CSI-based systems mainly focus on pose estimation or predefined action classification rather than fine-grained language generation. Mapping CSI to natural-language descriptions remains challenging because of the semantic gap between wireless signals and language and direction-sensitive ambiguities such as left/right limb confusion. W
WiFi2Cap: Semantic Action Captioning from Wi-Fi CSI via Limb-Level Semantic Alignment
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cs.AI, q-bio.NC updates on arXiv.org
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Cerebra: A Multidisciplinary AI Board for Multimodal Dementia Characterization and Risk Assessment
arXiv:2603.21597v2 Announce Type: replace Abstract: Modern clinical practice increasingly depends on reasoning over heterogeneous, evolving, and incomplete patient data. Although recent advances in multimodal foundation models have improved performance on various clinical tasks, most existing models remain static, opaque, and poorly aligned with real-world clinical workflows. We present Cerebra, an interactive multi-agent AI team that coordinates specialized agents for EHR, clinical notes, and
Cerebra: A Multidisciplinary AI Board for Multimodal Dementia Characterization and Risk Assessment
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cs.AI, q-bio.NC updates on arXiv.org
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DSH-Bench: A Difficulty- and Scenario-Aware Benchmark with Hierarchical Subject Taxonomy for Subject-Driven Text-to-Image Generation
arXiv:2603.08090v1 Announce Type: cross Abstract: Significant progress has been achieved in subject-driven text-to-image (T2I) generation, which aims to synthesize new images depicting target subjects according to user instructions. However, evaluating these models remains a significant challenge. Existing benchmarks exhibit critical limitations: 1) insufficient diversity and comprehensiveness in subject images, 2) inadequate granularity in assessing model performance across different subject d
DSH-Bench: A Difficulty- and Scenario-Aware Benchmark with Hierarchical Subject Taxonomy for Subject-Driven Text-to-Image Generation
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cs.AI, q-bio.NC updates on arXiv.org
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Beyond Endpoints: Path-Centric Reasoning for Vectorized Off-Road Network Extraction
arXiv:2512.10416v3 Announce Type: replace-cross Abstract: Deep learning has advanced vectorized road extraction in urban settings, yet off-road environments remain underexplored and challenging. A significant domain gap causes advanced models to fail in wild terrains due to two key issues: lack of large-scale vectorized datasets and structural weakness in prevailing methods. Models such as SAM-Road employ a node-centric paradigm that reasons at sparse endpoints, making them fragile to occlusion
Beyond Endpoints: Path-Centric Reasoning for Vectorized Off-Road Network Extraction
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cs.AI, q-bio.NC updates on arXiv.org
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When Relevance Meets Novelty: Dual-Stable Periodic Optimization for Serendipitous Recommendation
arXiv:2508.00450v3 Announce Type: replace-cross Abstract: Traditional recommendation systems tend to trap users in strong feedback loops by excessively pushing content aligned with their historical preferences, thereby limiting exploration opportunities and causing content fatigue. Although large language models (LLMs) demonstrate potential with their diverse content generation capabilities, existing LLM-enhanced dual-model frameworks face two major limitations: first, they overlook long-term p
When Relevance Meets Novelty: Dual-Stable Periodic Optimization for Serendipitous Recommendation
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cs.AI, q-bio.NC updates on arXiv.org
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LEDOM: Reverse Language Model
arXiv:2507.01335v3 Announce Type: replace-cross Abstract: Autoregressive language models are trained exclusively left-to-right. We explore the complementary factorization, training right-to-left at scale, and ask what reasoning patterns emerge when a model conditions on future context to predict the past. We train LEDOM, an open-source purely reverse autoregressive language model (2B/7B parameters, 435B tokens), and find it develops capabilities distinct from forward models, including abductive
LEDOM: Reverse Language Model
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cs.AI, q-bio.NC updates on arXiv.org
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DEFNet: Multitasks-based Deep Evidential Fusion Network for Blind Image Quality Assessment
arXiv:2507.19418v1 Announce Type: cross Abstract: Blind image quality assessment (BIQA) methods often incorporate auxiliary tasks to improve performance. However, existing approaches face limitations due to insufficient integration and a lack of flexible uncertainty estimation, leading to suboptimal performance. To address these challenges, we propose a multitasks-based Deep Evidential Fusion Network (DEFNet) for BIQA, which performs multitask optimization with the assistance of scene and disto