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Association of APOC1 with cortical atrophy during conversion to Alzheimer’s disease

Geroscience 2025年 1-18页

作者： Oh, Sewook Kim, Sunghun Kim, Jun Pyo Seo, Sang Won Park, Bo-Yong Park, Hyunjin Department of Electrical and Computer Engineering Sungkyunkwan University Jangan-gu Gyeonggi-do Suwon 16419 South Korea Center for Neuroscience Imaging Research Institute for Basic Science Jangan-gu Gyeonggi-do Suwon 16419 South Korea Department of Brain and Cognitive Engineering Korea University Seongbuk-gu Seoul 02841 South Korea BK21 Four Institute of Precision Public Health Seoul South Korea Alzheimer’s Disease Convergence Research Center Samsung Medical Center Gangnam-gu Seoul 06351 South Korea Department of Neurology Samsung Medical Center Sungkyunkwan University School of Medicine Gangnam-gu Seoul 06351 South Korea Neuroscience Center Samsung Medical Center Gangnam-gu Seoul 06351 South Korea

Alzheimer’s disease (AD) is a prevalent neurodegenerative disorder, with its progression influenced by aberrant gene expression and alterations in the brain network topology. Although APOE has been extensively studied in relation to AD, the role of APOC1 remains relatively underexplored. This study investigated the impact of APOC1 on changes in cortical thickness (CTh) during conversion to AD in a longitudinal setting. Using a normative modeling approach, we examined changes in CTh in patients with mild cognitive impairment (MCI). The spatial patterns of CTh changes were then correlated with APOC1 mRNA expression levels. We estimated the time to conversion to AD and compared progression rates between the low and high APOC1 expression groups. Finally, mediation analysis was performed to assess the indirect effects of APOC1 expression on memory function via CTh changes. In patients with MCI and AD, reduced CTh was observed in the limbic and default mode regions, with a notable impact on the entorhinal cortex, parahippocampus, and fusiform gyrus when comparing baseline and follow-up measurements. The degree of change in CTh was significantly associated with APOC1 expression, with the paralimbic regions identified as particularly vulnerable. Furthermore, the high APOC1 expression group demonstrated more rapid conversion to AD than that observed in the low expression group. Mediation analysis indicated a trend suggesting that APOC1 expression indirectly affected memory and cognitive function through its influence on CTh. These results highlight the potential of APOC1 as an additional focus of AD research, offering insights into the genetic influences on AD pathology. © The Author(s) 2025.

关键词： Alzheimer’s disease APOC1 Conversion Cortical thickness Gene expression

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Pan-cancer analysis of CDC7 in human tumors: Integrative multi-omics insights and discovery of novel marine-based inhibitors through machine learning and computational approaches

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computers in Biology and Medicine 2025年 190卷 110044-110044页

作者： Saif, Ahmed Islam, Md. Tarikul Raihan, Md. Obayed Yousefi, Niloofar Rahman, Md. Ajijur Faridi, Hafeez Hasan, Al Riyad Hossain, Mirza Mahfuj Saleem, Rasha Mohammed Albadrani, Ghadeer M. Al-Ghadi, Muath Q. Ahasan Setu, Md. Ali Kamel, Mohamed Abdel-Daim, Mohamed M. Aktaruzzaman, Md. Department of Pharmacy Faculty of Science University of Rajshahi Rajshahi6205 Bangladesh Department of Genetic Engineering and Biotechnology Faculty of Biological Science and Technology Jashore University of Science and Technology Jashore7408 Bangladesh Jashore7408 Bangladesh Department of Pharmaceutical Sciences College of Health Sciences and Pharmacy Chicago State University ChicagoIL United States Department of Industrial Engineering and Management Systems University of Central Florida USA OrlandoFL United States Department of Pharmacy Faculty of Biological Science and Technology Jashore University of Science and Technology Jashore7408 Bangladesh Department of Computer Science and Engineering Faculty of Engineering and Technology Jashore University of Science and Technology Jashore7408 Bangladesh Department of Laboratory Medicine Faculty of Applied Medical Sciences Al-Baha University Al-Baha65431 Saudi Arabia Department of Biology College of Science Princess Nourah bint Abdulrahman University 84428 Riyadh11671 Saudi Arabia Department of Zoology College of Science King Saud University P.O. Box 2455 Riyadh11451 Saudi Arabia Department of Microbiology Faculty of Biological Science and Technology Jashore University of Science and Technology Jashore7408 Bangladesh Department of Medicine and Infectious Diseases Faculty of Veterinary Medicine Cairo University Giza12211 Egypt Department of Pharmaceutical Sciences Pharmacy Program Batterjee Medical College P.O. Box 6231 Jeddah21442 Saudi Arabia Pharmacology Department Faculty of Veterinary Medicine Suez Canal University Ismailia41522 Egypt

Cancer remains a significant global health challenge, with the Cell Division Cycle 7 (CDC7) protein emerging as a potential therapeutic target due to its critical role in tumor proliferation, survival, and resistance. However, a comprehensive analysis of CDC7 across multiple cancers is lacking, and existing therapeutic options have come with limited clinical success. The aim of this is to integrate a comprehensive pan-cancer analysis of CDC7 with the identification of novel marine-derived inhibitors, bridging the understanding of CDC7's role as a prognostic biomarker and therapeutic target across diverse cancer types. In this study, we conducted a pan-cancer analysis of CDC7 across 33 tumor types using publicly available datasets to evaluate its expression, genetic alterations, immune interactions, survival, and prognostic significance. Additionally, a marine-derived compound library of 31,492 molecules was screened to identify potential CDC7 inhibitors using chemoinformatics and machine learning. The top candidates underwent rigorous evaluations, including molecular docking, pharmacokinetics, toxicity, Density Functional Theory (DFT) calculations, and Molecular Dynamics (MD) simulations. The findings revealed that CDC7 is overexpressed in several cancers and is associated with poor survival outcomes and unfavorable prognosis. Enrichment analysis linked CDC7 to critical DNA replication pathways, while its role in modulating tumor-immune interactions highlighted its potential as a target for immunotherapy. Among all tested compounds, Tetrahydroaltersolanol D (CMNPD21999) exhibited the strongest binding affinity and stability, along with better drug-likeness and zero toxicity. These attributes highlight its potential as a promising drug candidate for CDC7 inhibition and future cancer treatment development. Furthermore, additional in vitro and in vivo studies are required to confirm the effectiveness of this drug candidate against the CDC7 protein. © 2025

关键词： Gene expression

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Competitor Activation and Semantic Interference: Evidence from Combined Phonological and Semantic Similarity 36

Competitor Activation and Semantic Interference: Evidence fr...

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36th Annual Meeting of the cognitive science Society, CogSci 2014

作者： Frazer, Alexandra K. O'Séaghdha, Padraig G. Munoz-Avila, Hector Roessler, Nicholas Department of Psychology and Cognitive Science Program Lehigh University United States Computer Science and Engineering and Cognitive Science Program Lehigh University United States

ISBN: (纸本)9780991196708

Incremental learning explanations state that semantic interference is driven by activation levels of competitors. To explore nonsemantic contributions to interference, we examined the combined and separate effects of facilitatory phonological form preparation and semantic relatedness in a blocked cyclic picture naming procedure. Phonological similarity was facilitatory when tested separately, but had little effect when tested with the other conditions. We found about twice as much interference in word sets that shared both meaning and form (e.g., cyclically name puffin, pigeon, and peacock) as in semantic-only sets. Thus, phonological similarity impacted interference when it was combined with a semantic attribute. A computational model that isolated the learning mechanism and eliminated carryover effects simulated this result and additionally showed cumulative interference over naming cycles. Together with other findings from our research group and in the literature, these results suggest that co-activation from a variety of sources can drive interference. © 2014 Proceedings of the 36th Annual Meeting of the cognitive science Society, CogSci 2014. All rights reserved.

关键词： Semantics

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Replace2Self: Self-Supervised Denoising based on Voxel Replacing and Image Mixing for Diffusion MRI

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IEEE Transactions on Medical Imaging 2025年 PP卷 PP页

作者： Wu, Linhai Wang, Lihui Deng, Zeyu Zhu, Yuemin Wei, Hongjiang Guizhou University Key Laboratory of Advanced Medical Imaging and Intelligent Computing of Guizhou Province Engineering Research Center of Text Computing & Cognitive Intelligence Ministry of Education State Key Laboratory of Public Big Data College of Computer Science and Technology 550025 China Univ Lyon INSA Lyon CNRS Inserm CREATIS UMR 5220 LyonF-69621 France Shanghai Jiao Tong University School of Biomedical Engineering Shanghai200030 China

Low signal to noise ratio (SNR) remains one of the limitations of diffusion weighted (DW) imaging. How to suppress the influence of noise on the subsequent analysis about the tissue microstructure is still challenging. This work proposed a novel self-supervised learning model, Replace2Self, to effectively reduce spatial correlated noise in DW images. Specifically, a voxel replacement strategy based on similar block matching in Q-space was proposed to destroy the correlations of noise in DW image along one diffusion gradient direction. To alleviate the signal gap caused by the voxel replacement, an image mixing strategy based on complementary mask was designed to generate two different noisy DW images. After that, these two noisy DW images were taken as input, and the non-correlated noisy DWimage after voxel replacement was taken as learning target, a denoising network was trained for denoising. To promote the denoising performance, a complementary mask mixing consistency loss and an inverse replacement regularization loss were also proposed. Through the comparisons against several existing DW image denoising methods on extensive simulation data with different noise distributions, noise levels and b-values, as well as the acquisition datasets and the ablation experiments, we verified the effectiveness of the proposed method. Regardless of the noise distribution and noise level, the proposed method achieved the highest PSNR, which was at least 1.9% higher than the suboptimal method when the noise level reaches 10%. Furthermore, our method has superior generalization ability due to the use of the proposed strategies. © 2025 IEEE. All rights reserved.

关键词： Signal to noise ratio

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Visual Control and Mapping for UAV-Based Platform Inspection

Visual Control and Mapping for UAV-Based Platform Inspection

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International Conference on Unmanned Aircraft Systems (ICUAS)

作者： Leonardo A. Fagundes Carlos M. Soria Raquel F. Vassallo Alexandre S. Brandão Department of Electrical Engineering Graduate Program on Computer Science Federal University of Viçosa Viçosa MG Brazil Facultad de Ingeniería Instituto de Automática Universidad Nacional de San Juan Argentine Department of Electric Engineering Federal University of Espirito Santo Vitória ES Brazil

ISBN: (数字)9798331513283

ISBN: (纸本)9798331513290

Autonomous take-off and landing capabilities are crucial in UAV vision-based missions, ensuring adaptive navigation, especially in challenging environments where realtime identification and interaction with a variety of landing platforms are required. In this context, this paper presents a servo-visual controller that uses pattern detection and color segmentation techniques to identify take-off/landing platforms and estimate their current orientation. The proposed system was subjected to experimental validation with four platforms positioned in different orientations, heights, and positions, demonstrating its versatility in various conditions. Our study addresses the Flying Robots Trial League challenge, which emulates mapping and inspection tasks in offshore platforms.

关键词： Visualization Offshore installations Navigation Color Inspection Autonomous aerial vehicles Aircraft Drones Aerospace control

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Scaling Up Synthetic Cell Production Using Robotics and Machine Learning Toward Therapeutic Applications

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Advanced Biology 2025年第5期9卷 e2400671页

作者： Sharf-Pauker, Noga Galil, Ido Kfir, Omer Chen, Gal Menachem, Rotem Shklover, Jeny Schroeder, Avi Ackerman, Shanny The Louis Family Laboratory for Targeted Drug Delivery and Personalized Medicine Technologies Department of Chemical Engineering Technion – Israel Institute of Technology Haifa32000 Israel The Norman Seiden Multidisciplinary Program for Nanoscience and Nanotechnology Technion – Israel Institute of Technology Haifa32000 Israel Faculty of Computer Science Technion – Israel Institute of Technology Haifa32000 Israel The Interdisciplinary Program for Biotechnology Technion – Israel Institute of Technology Haifa32000 Israel Cell Biology and Cancer Science Rappaport Faculty of Medicine Technion – Israel Institute of Technology Haifa32000 Israel

Synthetic cells (SCs), developed through bottom-up synthetic biology, hold great potential for biomedical applications, with the promise of replacing malfunctioning natural cells and treating diseases with spatiotemporal control. Currently, most SC synthesis and characterization processes are manual, limiting scalability and efficiency. In this study, an automated method is developed for large-scale production of protein-producing SCs for therapeutic applications. The optimized process, compatible with a robotic liquid handling system (LiHa), reduces production time by half. Additionally, incorporation of an automated tissue dissociator-based emulsification increases batch size 30-fold while preserving SC characteristics. To assess SC quality and protein synthesis, artificial intelligence (AI)-based image analysis is employed, allowing for automated, accurate and high-throughput SC characterization. Large-scale luciferase-expressing SCs from a single homogeneous batch are administered to mice, allowing for real-time monitoring of protein expression and reducing experimental variability. By troubleshooting several central steps in SC synthesis, it is demonstrated that automation and computerized quality control can significantly improve the process of SC synthesis for preclinical and clinical applications. © 2025 The Author(s). Advanced Biology published by Wiley-VCH GmbH.

关键词： AI artificial Intelligence automation machine learning robotics synthetic biology synthetic cells

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AVTENet: A Human-Cognition-Inspired Audio-Visual Transformer-Based Ensemble Network for Video Deepfake Detection

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IEEE Transactions on cognitive and Developmental Systems 2025年

作者： Hashmi, Ammarah Shahzad, Sahibzada Adil Lin, Chia-Wen Tsao, Yu Wang, Hsin-Min Taiwan International Graduate Program Academia Sinica Social Networks and Human-Centered Computing Program Taipei11529 Taiwan National Tsing Hua University Institute of Information Systems and Applications Hsinchu30013 Taiwan National Chengchi University Department of Computer Science Taipei11605 Taiwan National Tsing Hua University Department of Electrical Engineering Institute of Communications Engineering Hsinchu300044 Taiwan Academia Sinica Research Center for Information Technology Innovation Taipei11529 Taiwan

The recent proliferation of hyper-realistic deepfake videos has drawn attention to the threat of audio and visual forgeries. Most previous studies on detecting artificial intelligence-generated fake videos only utilize visual modality or audio modality. While some methods exploit audio and visual modalities to detect forged videos, they have not been comprehensively evaluated on multimodal datasets of deepfake videos involving acoustic and visual manipulations, and are mostly based on convolutional neural networks with low detection accuracy. Considering that human cognition instinctively integrates multisensory information including audio and visual cues to perceive and interpret content and the success of transformer in various fields, this study introduces the audio-visual transformer-based ensemble network (AVTENet). This innovative framework tackles the complexities of deepfake technology by integrating both acoustic and visual manipulations to enhance the accuracy of video forgery detection. Specifically, the proposed model integrates several purely transformer-based variants that capture video, audio, and audio-visual salient cues to reach a consensus in prediction. For evaluation, we use the recently released benchmark multimodal audio-video FakeAVCeleb dataset. For a detailed analysis, we evaluate AVTENet, its variants, and several existing methods on multiple test sets of the FakeAVCeleb dataset. Experimental results show that the proposed model outperforms all existing methods and achieves state-of-the-art performance on Testset-I and Testset-II of the FakeAVCeleb dataset. We also compare AVTENet against humans in detecting video forgery. The results show that AVTENet significantly outperforms humans. © 2016 IEEE.

关键词： audio-visual AVTENet Deepfake detection

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MV-CLAM: Multi-View Molecular Interpretation with Cross-Modal Projection via Language Model

arXiv

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arXiv 2025年

作者： Ha, Sumin Kim, Jun Hyeong Piao, Yinhua Kim, Sun Interdisciplinary Program in Artificial Intelligence Seoul National University Korea Republic of Bio-MAX/N-Bio Seoul National University Korea Republic of Department of Computer Science and Engineering Seoul National University Korea Republic of Interdisciplinary Program in Bioinformatics Seoul National University Korea Republic of AIGENDRUG Co. Ltd. Korea Republic of

Human expertise in chemistry and biomedicine relies on contextual molecular understanding, a capability that large language models (LLMs) can extend through fine-grained alignment between molecular structures and text. Recent multimodal learning advances focus on cross-modal alignment, but existing molecule-text models ignore complementary information in different molecular views and rely on single-view representations, limiting molecular understanding. Moreover, naïve multi-view alignment strategies face two challenges: (1) separate aligned spaces with inconsistent mappings between molecule and text embeddings, and that (2) existing loss objectives fail to preserve complementary information for fine-grained alignment. This can limit the LLM’s ability to fully understand the molecular properties. To address these issues, we propose MV-CLAM, a novel framework that aligns multi-view molecular representations into a unified textual space using a multi-query transformer (MQ-Former). Our approach ensures cross-view consistency while a token-level contrastive loss preserves diverse molecular features across textual queries. MV-CLAM enhances molecular reasoning, improving retrieval and captioning accuracy. The source code of MV-CLAM is available in https://***/sumin124/***. © 2025, CC BY-NC-SA.

关键词： Molecular docking

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Microbial Communities in Coastal Salt Marshes Along the Southeast Coast of China and their Effects on Carbon Storage

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Current Analytical Chemistry 2025年

作者： Lv, Chunguang Li, Yan Zhang, Huining Wang, Chenyi Ren, Min Zhang, Chiqian Zhejiang Wanli University College of Biological & Environmental Sciences 315000 China NingboTech University School of Civil Engineering 315000 China Marine Environmental Monitoring Centre of Ningbo 315100 China Civil Engineering Program College of Engineering & Computer Science Arkansas State University 72467 AR United States

Background: Wetlands are vital carbon sinks, with coastal salt marshes being particularly effective in carbon sequestration. Understanding how different vegetation types influence soil carbon storage and microbial composition can enhance our knowledge of these ecosystems’ roles in global carbon cycling. Methods: This study investigates soil physicochemical properties, soil carbon storage, and microbial community composition and diversity at three depths (10, 30, and 60 cm) in five salt marsh plots from five coastal salt marshes: Bare flat (a non-vegetated marsh) and plots dominated by Imperata cylindrica, Solidago canadensis, Suaeda spp., and Phragmites australis. Carbon storage was evaluated by measuring soil organic carbon (SOC) content. At the same time, high-throughput sequencing was employed to analyze microbial communities, aiming to elucidate their relationships with soil carbon storage and wetland vegetation. Results: The average SOC contents in the five plots were in the order of S. canadensis (13.33 g·kg^–1) > Bare flat (11.45 g·kg^–1) > Suaeda spp. (8.10 g·kg^–1) > I. cylindrica (6.15 g·kg^–1) > P. australis (5.80 g·kg^–1). S. canadensis and Bare flat marshes had the highest carbon content, which is mainly attributed to the presence of the most abundant carbon-fixation microbes, Fulvivirgaceae (family) and Acidobacteria RB41 (genus), in the soil of these two plots. Both organic and dissolved organic carbon contents at 10 cm were higher than those at the other two depths for all five marshes. Conclusion: The Bare flat exhibited strong carbon sequestration capability, second only to the invasive S. canadensis plot among the five plots surveyed. It also showed the highest microbial abundance and the greatest number of carbon-sequestration-related functional genes. The S. canadensis plot exhibited the lowest microbial community diversity and abundance despite having the highest carbon storage capacity. As an i

关键词： carbon content carbon fixation carbon storage Coastal salt marsh invasive vegetation microbial community

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Effect of Music Training in Neural Responses to Emotional Speech Prosody: Insights from EEG and Brain Network Analysis 4th

Effect of Music Training in Neural Responses to Emotional...

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4th International Workshop on Human Brain and Artificial Intelligence, HBAI 2024

作者： Gao, Ci-Jun Liu, Xucheng Jia, Gufeng Yang, Hongzhe Tao, Wei Wu, Haiyan Huang, Ruey-Song Wan, Feng Department of Psychology Faculty of Social Sciences University of Macau Taipa China Centre for Cognitive and Brain Sciences Institute of Collaborative Innovation University of Macau Taipa China Department of Electrical and Computer Engineering Faculty of Science and Technology University of Macau Taipa China Centre for Artificial Intelligence and Robotics Institute of Collaborative Innovation University of Macau Taipa China

ISBN: (纸本)9789819640003

Speech prosody conveys crucial information during social communication. However, the neural mechanisms underlying speech pro-sody in the human brain remain unclear. The primary aim of this study was to explore the impact of long-term musical training on the recognition of emotional speech prosody. Employing a task that isolated prosody recognition without semantic content interference, we recorded behavioral and electrophysiological data. Participants were categorized into two groups: individuals with systematic musical training and those without any formal musical training. Our findings indicate that the musician group exhibited enhanced neural activity in the frontal region, characterized by significant differences in the P50, P200, P3a, P3b, and P600 components. Additionally, a larger Power Spectral Density (PSD) was observed in the frontal, occipital, and parietal regions of musicians, particularly in the theta and alpha frequency bands. Graph theoretical analysis also indicated that musically trained individuals demonstrated an increased local coefficient and more concentrated degree. This study provides a comprehensive analysis of the neural alteration during speech prosody recognition attributable to long-term musical training, incorporating both static and dynamic analyses, with a focus on temporal and spatial dimensions. Our study provides new insights into the neural mechanisms induced by speech prosody. © The Author(s), under exclusive license to Springer Nature Singapore Pte Ltd. 2025.

关键词： Power spectral density

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