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cs.AI, q-bio.NC updates on arXiv.org
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Back to Parsimonious Latents: Learning Task-Centric World Models from Visual Foundations
arXiv:2605.25620v1 Announce Type: new Abstract: World models enable agents to predict future dynamics conditioned on actions, making the choice of latent representation central to planning and control. Such representations are often either learned directly from pixels with limited semantic structure or inherited from frozen visual foundation models with excessive task-irrelevant detail, yielding state spaces that are poorly matched to downstream planning and control. This is especially challeng
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(Multiomics OR Omics) AND (Pancreatic)
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Human pancreatic progenitor organoids define genetic and epigenetic barriers to early PDAC transformation
Dev Cell. 2026 May 19:S1534-5807(26)00159-0. doi: 10.1016/j.devcel.2026.04.012. Online ahead of print.ABSTRACTThe lack of accurate human models that recapitulate pancreatic ductal adenocarcinoma (PDAC) initiation has hindered therapeutic development. Using pluripotent stem cell-derived pancreatic progenitor organoids, we established a human PDAC model that faithfully reproduces the genetic, epigenetic, and transcriptomic trajectories of tumor initiation and progression, validated against clinica
Human pancreatic progenitor organoids define genetic and epigenetic barriers to early PDAC transformation
Dev Cell. 2026 May 19:S1534-5807(26)00159-0. doi: 10.1016/j.devcel.2026.04.012. Online ahead of print.
ABSTRACT
The lack of accurate human models that recapitulate pancreatic ductal adenocarcinoma (PDAC) initiation has hindered therapeutic development. Using pluripotent stem cell-derived pancreatic progenitor organoids, we established a human PDAC model that faithfully reproduces the genetic, epigenetic, and transcriptomic trajectories of tumor initiation and progression, validated against clinical datasets and tumor histopathology. We demonstrate that CDKN2A loss, which is nearly universal in patients but dispensable in mouse models, is essential for neoplastic transformation when combined with KRAS and TP53 mutations, whereas SMAD4 loss promotes tumor progression. Multi-omics profiling reveals epigenetic repression of the pancreatic lineage program during PDAC initiation, alongside AP-1-driven chromatin remodeling. We identify TET1 suppression as a mechanistic link between oncogenic ERK signaling and hypermethylation of essential pancreatic transcription factors. This model captures genetic and epigenetic determinants of human PDAC, reveals antagonism between oncogenic and lineage restriction programs, and supports TET-based lineage restoration as a potential early intervention strategy.
PMID:42161274 | PMC:PMC13196429 | DOI:10.1016/j.devcel.2026.04.012
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Nature - Issue - nature.com science feeds
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De novo design of quasisymmetric two-component protein cages
Nature, Published online: 20 May 2026; doi:10.1038/s41586-026-10464-0Researchers designed two-component proteins forming quasisymmetric cages via geometric frustration, enabling tunable virus-like assemblies for cargo delivery, cellular uptake and studying intracellular diffusion and protein localization.
De novo design of quasisymmetric two-component protein cages
Nature, Published online: 20 May 2026; doi:10.1038/s41586-026-10464-0
Researchers designed two-component proteins forming quasisymmetric cages via geometric frustration, enabling tunable virus-like assemblies for cargo delivery, cellular uptake and studying intracellular diffusion and protein localization.-
(Multiomics OR Omics) AND (Pancreatic)
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A Genetically Engineered Human Organoid Model Reveals Distinct Genetic and Epigenetic Barriers of Lineage Plasticity in Early PDAC Transformation
bioRxiv [Preprint]. 2026 Mar 11:2026.03.09.710586. doi: 10.64898/2026.03.09.710586.ABSTRACTThe lack of accurate, human-based models recapitulating early-stage pancreatic ductal adenocarcinoma (PDAC) has hindered therapeutic development. Using pluripotent stem cell-derived pancreatic progenitor organoids, we established a human PDAC model that faithfully reproduces the genetic, epigenetic, and transcriptomic trajectory of tumor initiation and progression in vitro , validated against clinical data
A Genetically Engineered Human Organoid Model Reveals Distinct Genetic and Epigenetic Barriers of Lineage Plasticity in Early PDAC Transformation
bioRxiv [Preprint]. 2026 Mar 11:2026.03.09.710586. doi: 10.64898/2026.03.09.710586.
ABSTRACT
The lack of accurate, human-based models recapitulating early-stage pancreatic ductal adenocarcinoma (PDAC) has hindered therapeutic development. Using pluripotent stem cell-derived pancreatic progenitor organoids, we established a human PDAC model that faithfully reproduces the genetic, epigenetic, and transcriptomic trajectory of tumor initiation and progression in vitro , validated against clinical datasets and histopathology. We demonstrate that CDKN2A loss, nearly universal in patients but dispensable in mouse models, is essential for neoplastic transformation when combined with KRAS and TP53 mutations, while SMAD4 loss promotes tumor progression. Multi-omics profiling reveals epigenetic repression of pancreatic lineage program during PDAC initiation, alongside oncogenic AP-1-driven chromatin remodeling. Notably, we identify TET1 suppression as a mechanistic link between oncogenic ERK signaling and the hypermethylation and silencing of essential pancreatic transcription factors. This model captures the genetic and epigenetic determinants of human PDAC, reveals antagonism between oncogenic and lineage restriction programs, and supports TET-based lineage restoration as a promising early intervention strategy for high-risk individuals.
PMID:41959451 | PMC:PMC13060829 | DOI:10.64898/2026.03.09.710586
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cs.AI, q-bio.NC updates on arXiv.org
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Low-Bitrate Video Compression through Semantic-Conditioned Diffusion
arXiv:2512.00408v2 Announce Type: replace-cross Abstract: Traditional video codecs optimized for pixel fidelity collapse at ultra-low bitrates and produce severe artifacts. This failure arises from a fundamental misalignment between pixel accuracy and human perception. We propose a semantic video compression framework named DiSCo that transmits only the most meaningful information while relying on generative priors for detail synthesis. The source video is decomposed into three compact modaliti
Low-Bitrate Video Compression through Semantic-Conditioned Diffusion
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(Multiomics OR Omics) AND (Lung OR gastric OR Hepatocellular)
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Multi-ancestry transcriptome prediction with functionally informed variants in TOPMed MESA improves performance of transcriptome-wide association studies
Am J Hum Genet. 2026 Apr 2;113(4):828-841. doi: 10.1016/j.ajhg.2026.03.008.ABSTRACTReliable reference transcriptome prediction models are key to accurate multi-ancestry transcriptome-wide association studies (TWASs). We propose three methods leveraging functionally informed variants (FIVs) for transcriptome prediction models to improve multi-ancestry TWASs. We trained models on 1,287 multi-ancestry participants from the Trans-Omics for Precision Medicine (TOPMed) program Multi-Ethnic Study of At
Multi-ancestry transcriptome prediction with functionally informed variants in TOPMed MESA improves performance of transcriptome-wide association studies
Am J Hum Genet. 2026 Apr 2;113(4):828-841. doi: 10.1016/j.ajhg.2026.03.008.
ABSTRACT
Reliable reference transcriptome prediction models are key to accurate multi-ancestry transcriptome-wide association studies (TWASs). We propose three methods leveraging functionally informed variants (FIVs) for transcriptome prediction models to improve multi-ancestry TWASs. We trained models on 1,287 multi-ancestry participants from the Trans-Omics for Precision Medicine (TOPMed) program Multi-Ethnic Study of Atherosclerosis (MESA) with RNA sequencing (RNA-seq) data from peripheral blood mononuclear cells (PBMCs). We validated models' prediction accuracy on two external independent datasets, Geuvadis and Jackson Heart Study. To test robustness of our methods for TWASs, we integrated models with three multi-ancestry GWASs from blood cell, lipid, and pulmonary function traits, respectively. Our methods presented similar prediction accuracy while using a smaller and functionally informed set of variants compared to the benchmark method, elastic net (EN). Overall, our methods achieved higher power and accuracy (with average improved accuracy of 24% over EN) for TWASs. However, no single proposed method outperformed all GWAS traits. To further improve TWAS performance, we propose an omnibus approach that aggregates TWAS summary statistics from our methods. The omnibus approach yielded the highest number of Bonferroni-significant TWAS genes for all GWAS traits, and it further improved TWAS power and accuracy for blood cell traits. Additionally, the omnibus approach detected some trait-relevant important genes that the EN missed. Our study demonstrates the value of including FIVs in multi-ancestry transcriptome prediction models for improving TWAS performance. Further, the observed TWAS improvement depends on the GWAS trait's relevance to the PBMCs used to build our transcriptome prediction models.
PMID:41932314 | DOI:10.1016/j.ajhg.2026.03.008
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cs.AI, q-bio.NC updates on arXiv.org
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Improving Ensemble Forecasts of Abnormally Deflecting Tropical Cyclones with Fused Atmosphere-Ocean-Terrain Data
arXiv:2603.29200v2 Announce Type: replace-cross Abstract: Deep learning-based tropical cyclone (TC) forecasting methods have demonstrated significant potential and application advantages, as they feature much lower computational cost and faster operation speed than numerical weather prediction models. However, existing deep learning methods still have key limitations: they can only process a single type of sequential trajectory data or homogeneous meteorological variables, and fail to achieve a
Improving Ensemble Forecasts of Abnormally Deflecting Tropical Cyclones with Fused Atmosphere-Ocean-Terrain Data
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cs.AI, q-bio.NC updates on arXiv.org
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Improving Ensemble Forecasts of Abnormally Deflecting Tropical Cyclones with Fused Atmosphere-Ocean-Terrain Data
arXiv:2603.29200v1 Announce Type: cross Abstract: Deep learning-based tropical cyclone (TC) forecasting methods have demonstrated significant potential and application advantages, as they feature much lower computational cost and faster operation speed than numerical weather prediction models. However, existing deep learning methods still have key limitations: they can only process a single type of sequential trajectory data or homogeneous meteorological variables, and fail to achieve accurate
Improving Ensemble Forecasts of Abnormally Deflecting Tropical Cyclones with Fused Atmosphere-Ocean-Terrain Data
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cs.AI, q-bio.NC updates on arXiv.org
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Self-Improving Code Generation via Semantic Entropy and Behavioral Consensus
arXiv:2603.29292v1 Announce Type: cross Abstract: Improving the code generation capabilities of large language models (LLMs) typically relies on supervised fine-tuning or preference optimization, both of which require costly external resources such as powerful teacher models or reliable test units. However, in real-world scenarios, it is much harder to obtain reference solutions and test oracles than problem descriptions and test inputs. In this paper, we tackle a challenging yet realistic ques
Self-Improving Code Generation via Semantic Entropy and Behavioral Consensus
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cs.AI, q-bio.NC updates on arXiv.org
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KEditVis: A Visual Analytics System for Knowledge Editing of Large Language Models
arXiv:2603.29689v1 Announce Type: cross Abstract: Large Language Models (LLMs) demonstrate exceptional capabilities in factual question answering, yet they sometimes provide incorrect responses. To address this issue, knowledge editing techniques have emerged as effective methods for correcting factual information in LLMs. However, typical knowledge editing workflows struggle with identifying the optimal set of model layers for editing and rely on summary indicators that provide insufficient gu
KEditVis: A Visual Analytics System for Knowledge Editing of Large Language Models
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cs.AI, q-bio.NC updates on arXiv.org
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LPNSR: Prior-Enhanced Diffusion Image Super-Resolution via LR-Guided Noise Prediction
arXiv:2603.21045v3 Announce Type: replace-cross Abstract: Diffusion-based image super-resolution (SR), which aims to reconstruct high-resolution (HR) images from corresponding low-resolution (LR) observations, faces a fundamental trade-off between inference efficiency and reconstruction quality. The state-of-the-art residual-shifting diffusion framework achieves efficient 4-step inference, yet suffers from severe performance degradation in compact sampling trajectories. This is mainly attribute
LPNSR: Prior-Enhanced Diffusion Image Super-Resolution via LR-Guided Noise Prediction
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Omics in Gastric
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Cellular Senescence in Gastric Cancer: Molecular Mechanisms, Microenvironment Remodeling and Therapeutic Implications
Aging Dis. 2026 Mar 19. doi: 10.14336/AD.2025.1571. Online ahead of print.ABSTRACTGastric cancer (GC) remains a leading cause of cancer-related morbidity and mortality worldwide, with poor prognosis for advanced-stage patients. Therefore, in-depth exploration of the mechanisms underlying GC initiation and progression, as well as the development of novel therapeutic strategies, is of crucial importance. Cellular senescence is a stable cell cycle arrest program that plays a dual role in GC. It exe
Cellular Senescence in Gastric Cancer: Molecular Mechanisms, Microenvironment Remodeling and Therapeutic Implications
Aging Dis. 2026 Mar 19. doi: 10.14336/AD.2025.1571. Online ahead of print.
ABSTRACT
Gastric cancer (GC) remains a leading cause of cancer-related morbidity and mortality worldwide, with poor prognosis for advanced-stage patients. Therefore, in-depth exploration of the mechanisms underlying GC initiation and progression, as well as the development of novel therapeutic strategies, is of crucial importance. Cellular senescence is a stable cell cycle arrest program that plays a dual role in GC. It exerts tumor-suppressive effects via growth arrest but also promotes tumor progression and immune evasion by remodeling the tumor microenvironment (TME) through senescence-associated secretory phenotype (SASP). This review comprehensively elucidates the molecular mechanisms of cellular senescence in GC and the core regulatory networks involving gene regulation, epigenetic modifications, metabolic reprogramming, and cell cycle arrest. Additionally, the review highlights how senescent cells foster an immunosuppressive microenvironment via SASP, forming a self-reinforcing feed-forward loop. Regarding therapeutic strategies, we summarize potential approaches targeting cellular senescence, including senescence induction, senescent cell clearance, SASP modulation, and multi-target synergistic therapy by integrating epigenetic regulation, metabolic intervention, and immune microenvironment modulation. Despite progress, numerous challenges remain. Future studies should leverage multi-omics technologies, novel models' development, and large-scale clinical trials to advance the clinical translation of GC cellular senescence research, providing new insights for improving prognosis.
PMID:41910653 | DOI:10.14336/AD.2025.1571
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cs.AI, q-bio.NC updates on arXiv.org
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PhySe-RPO: Physics and Semantics Guided Relative Policy Optimization for Diffusion-Based Surgical Smoke Removal
arXiv:2603.22844v2 Announce Type: new Abstract: Surgical smoke severely degrades intraoperative video quality, obscuring anatomical structures and limiting surgical perception. Existing learning-based desmoking approaches rely on scarce paired supervision and deterministic restoration pipelines, making it difficult to perform exploration or reinforcement-driven refinement under real surgical conditions. We propose PhySe-RPO, a diffusion restoration framework optimized through Physics- and Seman
PhySe-RPO: Physics and Semantics Guided Relative Policy Optimization for Diffusion-Based Surgical Smoke Removal
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cs.AI, q-bio.NC updates on arXiv.org
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LPNSR: Prior-Enhanced Diffusion Image Super-Resolution via LR-Guided Noise Prediction
arXiv:2603.21045v2 Announce Type: replace-cross Abstract: Diffusion-based image super-resolution (SR), which aims to reconstruct high-resolution (HR) images from corresponding low-resolution (LR) observations, faces a fundamental trade-off between inference efficiency and reconstruction quality. The state-of-the-art residual-shifting diffusion framework achieves efficient 4-step inference, yet suffers from severe performance degradation in compact sampling trajectories. This is mainly attribute
LPNSR: Prior-Enhanced Diffusion Image Super-Resolution via LR-Guided Noise Prediction
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Nature - Issue - nature.com science feeds
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Multimodal electron microscopy of halide perovskite interfacial dynamics
Nature, Published online: 11 March 2026; doi:10.1038/s41586-026-10238-8A multimodal in situ electron microscopy approach enables direct visualization of structural and chemical evolution in a working halide perovskite light-emitting diode with nanometre precision.
Multimodal electron microscopy of halide perovskite interfacial dynamics
Nature, Published online: 11 March 2026; doi:10.1038/s41586-026-10238-8
A multimodal in situ electron microscopy approach enables direct visualization of structural and chemical evolution in a working halide perovskite light-emitting diode with nanometre precision.-
cs.AI, q-bio.NC updates on arXiv.org
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Geodesic Gradient Descent: A Generic and Learning-rate-free Optimizer on Objective Function-induced Manifolds
arXiv:2603.06651v1 Announce Type: cross Abstract: Euclidean gradient descent algorithms barely capture the geometry of objective function-induced hypersurfaces and risk driving update trajectories off the hypersurfaces. Riemannian gradient descent algorithms address these issues but fail to represent complex hypersurfaces via a single classic manifold. We propose geodesic gradient descent (GGD), a generic and learning-rate-free Riemannian gradient descent algorithm. At each iteration, GGD uses
Geodesic Gradient Descent: A Generic and Learning-rate-free Optimizer on Objective Function-induced Manifolds
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cs.AI, q-bio.NC updates on arXiv.org
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DreamSAC: Learning Hamiltonian World Models via Symmetry Exploration
arXiv:2603.07545v1 Announce Type: cross Abstract: Learned world models excel at interpolative generalization but fail at extrapolative generalization to novel physical properties. This limitation arises because they learn statistical correlations rather than the environment's underlying generative rules, such as physical invariances and conservation laws. We argue that learning these invariances is key to robust extrapolation. To achieve this, we first introduce \textbf{Symmetry Exploration}, a
DreamSAC: Learning Hamiltonian World Models via Symmetry Exploration
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cs.AI, q-bio.NC updates on arXiv.org
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Solution to the 10th ABAW Expression Recognition Challenge: A Robust Multimodal Framework with Safe Cross-Attention and Modality Dropout
arXiv:2603.08034v1 Announce Type: cross Abstract: Emotion recognition in real-world environments is hindered by partial occlusions, missing modalities, and severe class imbalance. To address these issues, particularly for the Affective Behavior Analysis in-the-wild (ABAW) Expression challenge, we propose a multimodal framework that dynamically fuses visual and audio representations. Our approach uses a dual-branch Transformer architecture featuring a safe cross-attention mechanism and a modalit
Solution to the 10th ABAW Expression Recognition Challenge: A Robust Multimodal Framework with Safe Cross-Attention and Modality Dropout
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cs.AI, q-bio.NC updates on arXiv.org
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RADAR: Learning to Route with Asymmetry-aware DistAnce Representations
arXiv:2603.03388v1 Announce Type: cross Abstract: Recent neural solvers have achieved strong performance on vehicle routing problems (VRPs), yet they mainly assume symmetric Euclidean distances, restricting applicability to real-world scenarios. A core challenge is encoding the relational features in asymmetric distance matrices of VRPs. Early attempts directly encoded these matrices but often failed to produce compact embeddings and generalized poorly at scale. In this paper, we propose RADAR,
RADAR: Learning to Route with Asymmetry-aware DistAnce Representations
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cs.AI, q-bio.NC updates on arXiv.org
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DeepFusion: Accelerating MoE Training via Federated Knowledge Distillation from Heterogeneous Edge Devices
arXiv:2602.14301v1 Announce Type: cross Abstract: Recent Mixture-of-Experts (MoE)-based large language models (LLMs) such as Qwen-MoE and DeepSeek-MoE are transforming generative AI in natural language processing. However, these models require vast and diverse training data. Federated learning (FL) addresses this challenge by leveraging private data from heterogeneous edge devices for privacy-preserving MoE training. Nonetheless, traditional FL approaches require devices to host local MoE model