Normal view
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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
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(Multiomics OR Omics) AND (Pancreatic)
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Baseline cellular state shapes the molecular impact of mutant KRAS alleles in reconstituted pancreatic cancer cells
Mol Omics. 2026 Sep 10:aaiag022. doi: 10.1093/molecular-omics/aaiag022. Online ahead of print.ABSTRACTKRAS is mutated in over 90% of pancreatic ductal adenocarcinomas (PDAC), where hotspot alterations in codons 12, 13, and 61 drive tumor initiation and progression. Although distinct biochemical properties have been described for individual KRAS mutants, whether they generate unique allele-specific signaling programs in PDAC cells remains unresolved. Here, we systematically interrogated the molec
Baseline cellular state shapes the molecular impact of mutant KRAS alleles in reconstituted pancreatic cancer cells
Mol Omics. 2026 Sep 10:aaiag022. doi: 10.1093/molecular-omics/aaiag022. Online ahead of print.
ABSTRACT
KRAS is mutated in over 90% of pancreatic ductal adenocarcinomas (PDAC), where hotspot alterations in codons 12, 13, and 61 drive tumor initiation and progression. Although distinct biochemical properties have been described for individual KRAS mutants, whether they generate unique allele-specific signaling programs in PDAC cells remains unresolved. Here, we systematically interrogated the molecular consequences of seven common KRAS mutant variants in reconstituted isogenic, KRAS-deficient PDAC cell lines by integrated transcriptomic, proteomic, and phosphoproteomic profiling. We found that baseline cellular state, rather than allele identity, was the predominant driver of molecular variation. Comparisons with established KRAS reference signatures revealed significant but moderate overlap at the mRNA level and less so at the proteome level. Pathway analyses highlighted interferon response and mitochondrial translation-related proteins as recurrently altered across mutant alleles, while phosphoproteomic data confirmed robust ERK1/2 activity and suppression of DYRK kinase substrates by mutant KRAS expression. Importantly, no robust mutant allele-specific molecular programs were identified in our KRAS-reconstituted cell lines. Together, our study establishes a comprehensive multi-omics resource for KRAS signaling in PDAC and demonstrates that cellular context exerts a stronger influence than allele identity in shaping molecular profiles, with implications for interpreting putative allele-specific signaling dependencies.
PMID:42720273 | DOI:10.1093/molecular-omics/aaiag022
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npj Digital Medicine
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Impact of LLM-supported patient education on patient perspectives and patient-reported outcomes: a mixed-methods systematic review
npj Digital Medicine, Published online: 10 September 2026; doi:10.1038/s41746-026-03228-7Impact of LLM-supported patient education on patient perspectives and patient-reported outcomes: a mixed-methods systematic review
Impact of LLM-supported patient education on patient perspectives and patient-reported outcomes: a mixed-methods systematic review
npj Digital Medicine, Published online: 10 September 2026; doi:10.1038/s41746-026-03228-7
Impact of LLM-supported patient education on patient perspectives and patient-reported outcomes: a mixed-methods systematic review-
Molecular Therapy
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Targeting the MNK1-MYH9 axis blocks YAP1 recruitment to prevent thrombosis and platelet activation-induced NETosis
MNK1 acts as a structural shield on MYH9, preventing YAP1-mediated platelet activation. Developing MD2 to lock this MNK1-MYH9 complex introduces a safe antithrombotic strategy, shifting the therapeutic paradigm from kinase inhibition to stabilizing protein-protein interactions against immunothrombosis.
Targeting the MNK1-MYH9 axis blocks YAP1 recruitment to prevent thrombosis and platelet activation-induced NETosis
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cs.AI, q-bio.NC updates on arXiv.org
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PACE: Perceived-Latency-Aware Cascading Service Routing and Filler Control for QoE-Efficient Retrieval-Augmented Dialogue Serving
arXiv:2609.10372v1 Announce Type: cross Abstract: We present the PACE, a framework for retrieval-augmented dialogue serving that formalizes Perceived Time-to-First-Response (PTFR) as a QoE objective and minimizes it under quality/cost constraints. Unlike prior work on cascaded routing, semantic caching, or adaptive retrieval, PACE jointly controls which answer source composes the response and what fills the waiting window. Deployed on a humanoid-robot sales service, it combines three mechanisms
PACE: Perceived-Latency-Aware Cascading Service Routing and Filler Control for QoE-Efficient Retrieval-Augmented Dialogue Serving
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cs.AI, q-bio.NC updates on arXiv.org
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Visualizing the Invisible: Generative Visual Grounding Empowers Universal EEG Understanding in MLLMs
arXiv:2605.18172v2 Announce Type: replace Abstract: Leveraging the universal representations of pre-trained LLMs and MLLMs offers a promising path toward brain foundation models. However, visually-evoked EEG datasets remain scarce, leading existing methods to align neural signals mainly with abstract text, a lossy translation that may discard fine-grained perceptual information encoded in brain activity. We propose Generative Visual Grounding (GVG), a framework that visualizes the invisible by
Visualizing the Invisible: Generative Visual Grounding Empowers Universal EEG Understanding in MLLMs
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Oncogenesis - nature.com science feeds
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SHP1 expression in tumor-associated dendritic cells drives immunoevasion via impairing CD8<sup>+</sup> memory T cell responses
Oncogenesis, Published online: 15 May 2026; doi:10.1038/s41389-026-00627-zSHP1 expression in tumor-associated dendritic cells drives immunoevasion via impairing CD8+ memory T cell responses
SHP1 expression in tumor-associated dendritic cells drives immunoevasion via impairing CD8<sup>+</sup> memory T cell responses
Oncogenesis, Published online: 15 May 2026; doi:10.1038/s41389-026-00627-z
SHP1 expression in tumor-associated dendritic cells drives immunoevasion via impairing CD8+ memory T cell responses-
(Multiomics OR Omics) AND (Pancreatic)
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Baseline cellular state dictates the molecular impact of KRAS mutant variants in pancreatic cancer cells
bioRxiv [Preprint]. 2026 Mar 12:2026.03.10.710185. doi: 10.64898/2026.03.10.710185.ABSTRACTKRAS is mutated in over 90% of pancreatic ductal adenocarcinomas (PDAC), where hotspot alterations in codons 12, 13, and 61 drive tumor initiation and progression. Although distinct biochemical properties have been described for individual KRAS mutants, whether they generate unique allele-specific signaling programs in PDAC cells remains unresolved. Here, we systematically interrogated the molecular conseq
Baseline cellular state dictates the molecular impact of KRAS mutant variants in pancreatic cancer cells
bioRxiv [Preprint]. 2026 Mar 12:2026.03.10.710185. doi: 10.64898/2026.03.10.710185.
ABSTRACT
KRAS is mutated in over 90% of pancreatic ductal adenocarcinomas (PDAC), where hotspot alterations in codons 12, 13, and 61 drive tumor initiation and progression. Although distinct biochemical properties have been described for individual KRAS mutants, whether they generate unique allele-specific signaling programs in PDAC cells remains unresolved. Here, we systematically interrogated the molecular consequences of seven common KRAS mutant variants in reconstituted isogenic, KRAS-deficient PDAC cell lines by integrated transcriptomic, proteomic, and phosphoproteomic profiling. We found that baseline cellular state, rather than allele identity, was the predominant driver of molecular variation. Comparisons with established KRAS reference signatures revealed significant but moderate overlap at the mRNA level and less so at the proteome level. Pathway analyses highlighted interferon response and mitochondrial translation as recurrently altered across alleles, while phosphoproteomic data confirmed robust ERK1/2 activity and suppression of DYRK kinase substrates by mutant KRAS expression. Importantly, no robust allele-specific molecular programs were identified. Together, our study establishes a comprehensive multi-omics resource for KRAS signaling in PDAC and demonstrates that cellular context exerts a stronger influence than allele identity in shaping molecular profiles, with implications for interpreting putative allele-specific signaling dependencies and therapeutic vulnerabilities.
PMID:41959224 | PMC:PMC13060958 | DOI:10.64898/2026.03.10.710185
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cs.AI, q-bio.NC updates on arXiv.org
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Unifying Group-Relative and Self-Distillation Policy Optimization via Sample Routing
arXiv:2604.02288v1 Announce Type: cross Abstract: Reinforcement learning with verifiable rewards (RLVR) has become a standard paradigm for post-training large language models. While Group Relative Policy Optimization (GRPO) is widely adopted, its coarse credit assignment uniformly penalizes failed rollouts, lacking the token-level focus needed to efficiently address specific deviations. Self-Distillation Policy Optimization (SDPO) addresses this by providing denser, more targeted logit-level su
Unifying Group-Relative and Self-Distillation Policy Optimization via Sample Routing
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Omics In Lung
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Correction: Integrative multi-omics and machine learning reveals the spatial niche distribution and role of CYP27A1+TAMs in immunotherapy response in non-small cell lung cancer
Front Immunol. 2026 Mar 16;17:1822612. doi: 10.3389/fimmu.2026.1822612. eCollection 2026.ABSTRACT[This corrects the article DOI: 10.3389/fimmu.2026.1782545.].PMID:41918731 | PMC:PMC13033988 | DOI:10.3389/fimmu.2026.1822612
Correction: Integrative multi-omics and machine learning reveals the spatial niche distribution and role of CYP27A1+TAMs in immunotherapy response in non-small cell lung cancer
Front Immunol. 2026 Mar 16;17:1822612. doi: 10.3389/fimmu.2026.1822612. eCollection 2026.
ABSTRACT
[This corrects the article DOI: 10.3389/fimmu.2026.1782545.].
PMID:41918731 | PMC:PMC13033988 | DOI:10.3389/fimmu.2026.1822612
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(Multiomics OR Omics) AND (Lung OR gastric OR Hepatocellular)
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Correction: Integrative multi-omics and machine learning reveals the spatial niche distribution and role of CYP27A1+TAMs in immunotherapy response in non-small cell lung cancer
Front Immunol. 2026 Mar 16;17:1822612. doi: 10.3389/fimmu.2026.1822612. eCollection 2026.ABSTRACT[This corrects the article DOI: 10.3389/fimmu.2026.1782545.].PMID:41918731 | PMC:PMC13033988 | DOI:10.3389/fimmu.2026.1822612
Correction: Integrative multi-omics and machine learning reveals the spatial niche distribution and role of CYP27A1+TAMs in immunotherapy response in non-small cell lung cancer
Front Immunol. 2026 Mar 16;17:1822612. doi: 10.3389/fimmu.2026.1822612. eCollection 2026.
ABSTRACT
[This corrects the article DOI: 10.3389/fimmu.2026.1782545.].
PMID:41918731 | PMC:PMC13033988 | DOI:10.3389/fimmu.2026.1822612
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cs.AI, q-bio.NC updates on arXiv.org
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Predicting Neuromodulation Outcome for Parkinson's Disease with Generative Virtual Brain Model
arXiv:2603.29176v1 Announce Type: new Abstract: Parkinson's disease (PD) affects over ten million people worldwide. Although temporal interference (TI) and deep brain stimulation (DBS) are promising therapies, inter-individual variability limits empirical treatment selection, increasing non-negligible surgical risk and cost. Previous explorations either resort to limited statistical biomarkers that are insufficient to characterize variability, or employ AI-driven methods which is prone to overf
Predicting Neuromodulation Outcome for Parkinson's Disease with Generative Virtual Brain Model
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cs.AI, q-bio.NC updates on arXiv.org
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Route-Induced Density and Stability (RIDE): Controlled Intervention and Mechanism Analysis of Routing-Style Meta Prompts on LLM Internal States
arXiv:2603.29206v1 Announce Type: new Abstract: Routing is widely used to scale large language models, from Mixture-of-Experts gating to multi-model/tool selection. A common belief is that routing to a task ``expert'' activates sparser internal computation and thus yields more certain and stable outputs (the Sparsity--Certainty Hypothesis). We test this belief by injecting routing-style meta prompts as a textual proxy for routing signals in front of frozen instruction-tuned LLMs. We quantify (C
Route-Induced Density and Stability (RIDE): Controlled Intervention and Mechanism Analysis of Routing-Style Meta Prompts on LLM Internal States
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cs.AI, q-bio.NC updates on arXiv.org
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SortedRL: Accelerating RL Training for LLMs through Online Length-Aware Scheduling
arXiv:2603.23414v1 Announce Type: cross Abstract: Scaling reinforcement learning (RL) has shown strong promise for enhancing the reasoning abilities of large language models (LLMs), particularly in tasks requiring long chain-of-thought generation. However, RL training efficiency is often bottlenecked by the rollout phase, which can account for up to 70% of total training time when generating long trajectories (e.g., 16k tokens), due to slow autoregressive generation and synchronization overhead
SortedRL: Accelerating RL Training for LLMs through Online Length-Aware Scheduling
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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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Do Vision-Language Models Measure Up? Benchmarking Visual Measurement Reading with MeasureBench
arXiv:2510.26865v2 Announce Type: replace-cross Abstract: Reading measurement instruments is effortless for humans and requires relatively little domain expertise, yet it remains surprisingly challenging for current vision-language models (VLMs) as we find in preliminary evaluation. In this work, we introduce MeasureBench, a benchmark on visual measurement reading covering both real-world and synthesized images of various types of measurements, along with an extensible pipeline for data synthes
Do Vision-Language Models Measure Up? Benchmarking Visual Measurement Reading with MeasureBench
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Oncogene - Issue - nature.com science feeds
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Non-classic deubiquitinase USP13 inhibits bladder cancer metastasis through destabilizing cytoplasmic KDM3A
Oncogene, Published online: 24 March 2026; doi:10.1038/s41388-026-03730-yNon-classic deubiquitinase USP13 inhibits bladder cancer metastasis through destabilizing cytoplasmic KDM3A
Non-classic deubiquitinase USP13 inhibits bladder cancer metastasis through destabilizing cytoplasmic KDM3A
Oncogene, Published online: 24 March 2026; doi:10.1038/s41388-026-03730-y
Non-classic deubiquitinase USP13 inhibits bladder cancer metastasis through destabilizing cytoplasmic KDM3A-
Omics in Hepatocellular
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Integrated Machine Learning and Multi-Omics Identifies a Novel Molecular Signature for Improving the Prognosis of Hepatocellular Carcinoma
J Hepatocell Carcinoma. 2026 Mar 11;13:574690. doi: 10.2147/JHC.S574690. eCollection 2026.ABSTRACTBACKGROUND: Hepatocellular carcinoma (HCC) exhibits significant molecular heterogeneity and complex immune microenvironment, which to some extent limits the accuracy of prognosis assessment and the formulation of individualized treatment strategies. This study aims to identify immune-derived molecular signatures based on multi-omics data and machine learning methods for the prognosis prediction and
Integrated Machine Learning and Multi-Omics Identifies a Novel Molecular Signature for Improving the Prognosis of Hepatocellular Carcinoma
J Hepatocell Carcinoma. 2026 Mar 11;13:574690. doi: 10.2147/JHC.S574690. eCollection 2026.
ABSTRACT
BACKGROUND: Hepatocellular carcinoma (HCC) exhibits significant molecular heterogeneity and complex immune microenvironment, which to some extent limits the accuracy of prognosis assessment and the formulation of individualized treatment strategies. This study aims to identify immune-derived molecular signatures based on multi-omics data and machine learning methods for the prognosis prediction and risk stratification of HCC.
METHODS: Based on weighted gene co-expression network analysis(WGCNA) and differential gene analysis,immune-derived molecular signature (IDMS) were screened in both single-cell and bulk transcriptomes. Prognostic model was constructed by multi-machine learning approachs. Subsequently, we investigated the differences in mutations, biological functions, and immune cell infiltration within the tumor microenvironment between the high- and low-risk groups.In addition, we comprehensively analyzed the drug sensitivity of IDMS and predicted potential drugs.
RESULTS: We identified seven hub genes at the single-cell and bulk transcriptome levels. Based on multiple machine learning, we constructed a prognostic model that demonstrated excellent performance in predicting overall survival for patients with HCC. IDMS -integrated normograms provide a promising and quantitative tool for clinical risk management.Notably, a significant difference in microsatellite instability (MSI) was observed between the high- and low-risk groups. This indicates that patients in the high-risk group might have a better response to immunotherapy. Additionally, we predicted potential drugs targeting to these risk subgroups.
CONCLUSION: Our research developed an IDMS that could serve as an effective tool for patient stratification management and prognosis prediction. This signature could provide a reference for immunotherapy for patients with HCC and improve their prognosis.
PMID:41847219 | PMC:PMC12991065 | DOI:10.2147/JHC.S574690
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Cell Death Discovery nature.com science feeds
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MAPK14/SLC7A11/GPX4 axis dysregulation drives podocyte ferroptosis via mediating glycerophospholipid metabolism
Cell Death Discovery, Published online: 11 March 2026; doi:10.1038/s41420-026-02990-7MAPK14/SLC7A11/GPX4 axis dysregulation drives podocyte ferroptosis via mediating glycerophospholipid metabolism
MAPK14/SLC7A11/GPX4 axis dysregulation drives podocyte ferroptosis via mediating glycerophospholipid metabolism
Cell Death Discovery, Published online: 11 March 2026; doi:10.1038/s41420-026-02990-7
MAPK14/SLC7A11/GPX4 axis dysregulation drives podocyte ferroptosis via mediating glycerophospholipid metabolism-
cs.AI, q-bio.NC updates on arXiv.org
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PIRA-Bench: A Transition from Reactive GUI Agents to GUI-based Proactive Intent Recommendation Agents
arXiv:2603.08013v1 Announce Type: new Abstract: Current Graphical User Interface (GUI) agents operate primarily under a reactive paradigm: a user must provide an explicit instruction for the agent to execute a task. However, an intelligent AI assistant should be proactive, which is capable of anticipating user intentions directly from continuous visual inputs, such as mobile or desktop screenshots, and offering timely recommendations without explicit user prompting. Transitioning to this proact