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Tongyi DeepResearch Technical Report
Impact and Implications of Generative AI for Enterprise Architects in Agile Environments: A Systematic Literature Review
PaperAsk: A Benchmark for Reliability Evaluation of LLMs in Paper Search and Reading
Breaking Agent Backbones: Evaluating the Security of Backbone LLMs in AI Agents
Progressive Growing of Patch Size: Curriculum Learning for Accelerated and Improved Medical Image Segmentation
DataRater: Meta-Learned Dataset Curation
CXReasonBench: A Benchmark for Evaluating Structured Diagnostic Reasoning in Chest X-rays
Fixing It in Post: A Comparative Study of LLM Post-Training Data Quality and Model Performance
OpenS2S: Advancing Fully Open-Source End-to-End Empathetic Large Speech Language Model
Do we need AI guardians to protect us from health information overload?
npj Digital Medicine, Published online: 27 October 2025; doi:10.1038/s41746-025-02093-0
The rise of digital health technologies has provided individuals with unprecedented access to biometric data and health insights. However, excess monitoring may contribute to fatigue, anxiety, and information overload, sometimes reducing engagement and worsening outcomes. This article explores how artificial intelligence-enabled assistants might help address this challenge by filtering, contextualizing, and personalizing health information, potentially supporting informed self-management while mitigating some unintended harms of digital health technologies.When Models Outthink Their Safety: Mitigating Self-Jailbreak in Large Reasoning Models with Chain-of-Guardrails
AstaBench: Rigorous Benchmarking of AI Agents with a Scientific Research Suite
Biomarkers for non-small cell lung cancer risk using multi-omics approaches: a nested case-control study
Transl Lung Cancer Res. 2025 Sep 30;14(9):3645-3658. doi: 10.21037/tlcr-2025-603. Epub 2025 Sep 25.
ABSTRACT
BACKGROUND: Lung cancer poses a major public health challenge, accounting for the highest cancer-related mortality worldwide. This study aimed to identify non-invasive biomarkers for the early detection of non-small cell lung cancer (NSCLC) risk.
METHODS: We randomly selected 150 incident NSCLC cases during follow-up from the Korean Cancer Prevention Study-II. Controls (n=150) were matched to cases by age, gender, and the time of blood collection. Non-targeted metabolite screening by ultra-high-performance liquid chromatography (UHPLC)/mass spectrometry (MS) was conducted on the pre-diagnostic biological samples. The 11 reported lung cancer-associated single-nucleotide polymorphisms (SNPs) in Koreans were extracted from DNA genotyping data of the study population. Metabolite markers related to NSCLC risk were identified through clustering using hierarchical density-based spatial clustering of applications with noise. The associations between smoking, dietary factors, and NSCLC were also examined.
RESULTS: Six discriminative serum metabolites were identified as having an association with NSCLC incidence. Notably, the relationship between specific metabolite levels and NSCLC risk differed by rs7086803 genotype. Smoking status and occupational exposures appear to influence specific metabolite profiles, while dietary vegetable intake may modulate the risk of NSCLC among smokers.
CONCLUSIONS: The meaningful biomarkers revealed in the current research could be used to enhance the predictive ability for NSCLC risk. Furthermore, we suggest that the protective role of dietary vegetables against NSCLC may be attenuated or absent in smokers.
PMID:41133005 | PMC:PMC12541849 | DOI:10.21037/tlcr-2025-603
AI PB: A Grounded Generative Agent for Personalized Investment Insights
Elucidating lipid nanoparticle properties and structure through biophysical analyses
Nature Biotechnology, Published online: 23 October 2025; doi:10.1038/s41587-025-02855-x
Guidance for optimizing lipid nanoparticle formulations is derived using sophisticated biophysical techniques.A Goal-Driven Survey on Root Cause Analysis
Discovering state-of-the-art reinforcement learning algorithms
Nature, Published online: 22 October 2025; doi:10.1038/s41586-025-09761-x
Discovering state-of-the-art reinforcement learning algorithmsIntegrated epigenetic and genetic programming of primary human T cells
Nature Biotechnology, Published online: 21 October 2025; doi:10.1038/s41587-025-02856-w
Multiplexed editing in primary human T cells generates enhanced immune cell therapies.Integrative Transcriptomic and Metabolomic Analysis Reveals Aberrant Glycosylation as a Hallmark of Lung Adenocarcinoma
OMICS. 2025 Oct 16. doi: 10.1177/15578100251387518. Online ahead of print.
ABSTRACT
Lung adenocarcinoma (LUAD) remains the most common subtype of lung cancer, characterized by high heterogeneity and poor survival outcomes. Although transcriptomic and metabolomic alterations have been individually studied, integrated multi-omics analyses are needed to uncover the convergent pathways that drive tumor progression. Differentially expressed genes (DEGs) were identified from the GSE229253 transcriptomic dataset comprising LUAD tumor and adjacent normal tissues, while significantly altered metabolites were obtained from the Lung Cancer Metabolome Database. The top 10 DEGs and metabolites were analyzed using the search tool for interacting chemicals (STITCH) to construct gene-metabolite networks, and Integrated Molecular Pathway Level Analysis (IMPaLA) was employed for integrated pathway enrichment to identify overlapping molecular processes. Transcriptomic profiling revealed 973 DEGs (410 upregulated and 563 downregulated), and metabolomic analysis identified significant alterations in metabolites linked to redox balance, amino acid derivatives, and nucleotide metabolism. Integration through STITCH generated a network of 16 nodes and 9 edges, highlighting gene-metabolite associations of probable biological relevance. Joint pathway enrichment analysis using IMPaLA consistently identified glycosylation-related pathways, particularly O-linked glycosylation of mucins, as major axes of convergence between transcriptomic and metabolomic alterations in LUAD (joint p = 0.00129-0.00434). Several genes (B3GNT6, FEZF1-AS1, and LCAL1) and metabolites (isoleucylleucine, leucylleucine, and isoleucylvaline) are probable novel candidates, warranting further investigation. These findings provide systems-level evidence that aberrant glycosylation is likely a central hallmark of LUAD, underscore the potential of glycosylation pathways as biomarkers and therapeutic targets, and demonstrate the utility of cross-omics approaches to unpack the molecular complexity of lung cancer.
PMID:41103242 | DOI:10.1177/15578100251387518