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Machine learning based prediction of cognitive metrics using major biomarkers in SuperAgers

Scientific Reports 2025年第1期15卷 1-20页

作者： Hyo-Bin Lee Jang-Hwan Choi So-Yeon Kwon Ji-Hae Park Young Mi Park Bori Kim Geon-Ha Kim Department of Computational Medicine Graduate Program in System Health Science and Engineering Ewha Womans University Seoul 07804 Korea Department of Artificial Intelligence Ewha Womans University Seoul 03760 Korea Department of Molecular Medicine Ewha Womans University Seoul 07804 Korea Department of Neurology Ewha Womans University Mokdong Hospital Ewha Womans University Seoul 07985 Korea

As populations age, understanding cognitive decline and age-related diseases like dementia has become increasingly important. “SuperAgers,” individuals over 65 with cognitive abilities similar to those in their 40s, provide a unique perspective on cognitive reserve. This study analyzed 55 blood biomarkers, including cellular components and metabolism/inflammation-related factors, in 39 SuperAgers and 42 typical agers. While conventional statistical analyses identified significant differences in only four biomarkers, advanced feature selection and machine learning techniques revealed a broader set of 15 key biomarkers associated with SuperAger status. A predictive model built using these biomarkers achieved an accuracy of 76% in cognitive domain prediction. To address the limitation of small sample sizes, data augmentation leveraging large language models improved the model’s robustness. Shapley Additive exPlanations (SHAP) provided interpretability, revealing the impact of specific blood factors on cognitive function. These findings suggest that certain blood biomarkers are not only associated with cognitive performance but may also serve as indicators of cognitive reserve. By utilizing simple blood tests, this research presents a clinically significant method for predicting cognitive function and identifying SuperAger status in healthy elderly individuals, offering a foundation for future studies on the biological mechanisms underpinning cognitive resilience.

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A pilot scale bioreactor using EMMC for carbon and nitrogen removal

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Clean Technologies and Environmental Policy 2014年第4期3卷 407-412页

作者： P. Yang M. Shimabukuro S. Kim Graduate Program of Biosystems Engineering Department of Molecular Biosciences and Biosystems Engineering University of Hawaii at Manoa Honolulu HI 96822 USA USA

A pilot scale (100 l reactor) of an entrapped mixed microbial cell (EMMC) process was fabricated and tested for simultaneous removal of carbon and nitrogen. Process performance, operational stability, and maintenance requirements were all determined. Two sources of actual agricultural processing wastewater containing a high concentration of chemical oxygen demand (COD) (about 800–1,000 mg/l) and domestic sewage containing a low concentration of COD (about 150–200 mg/l) were investigated in this study. Various HRT (hydraulic retention time) and aeration schedules were operated. It was found that soluble COD (SCOD) and soluble total nitrogen (STN) could be removed in the range of 40–70% and 20–90%, respectively, for domestic sewage depending on the operational conditions provided. For agricultural processing wastewater, removal efficiencies of SCOD and STN are 89–91% and 60–75%, respectively, depending on the HRTs and aeration schedules applied. Economic evaluation for the application of domestic sewage was conducted. It was found that at an HRT of 6 h with 24 h of aeration it costs U.S.$1.75 for the treatment of 1,000 gal/day (3.8 m3/day). It is apparent that the EMMC process is technically feasible for simultaneous removal of carbon and nitrogen under the operation of an alternated schedule of the aeration in one single bioreactor. Ultimately, it can replace or upgrade the existing conventional wastewater treatment plant by combining the secondary and tertiary wastewater treatment plant in one bioreactor and provides simple maintenance and operation. This will also assist in providing the high quality of treated effluent meeting current and future environmental regulation for reuse.

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On-Chip Perovskite Nanocrystal Laser Integrated with Long-Range Surface Plasmon Polariton Waveguide by Etching-Free Lithographic Patterning

On-Chip Perovskite Nanocrystal Laser Integrated with Long-Ra...

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2022 JSAP-Optica Joint Symposia, JSAP 2022

作者： Lee, Yang-Chun Lin, Hsin-Chang Lin, Cheng-Chieh Ho, Ya-Lun Xing, Di Chen, Mu-Hsin Lin, Bo-Wei Chen, Li-Yin Chen, Chun-Wei Delaunay, Jean-Jacques School of Engineering The University of Tokyo Japan Department of Photonics National Sun Yat-sen University Taiwan International Graduate Program of Molecular Science and Technology National Taiwan University Academia Sinica Taiwan Department of Materials Science and Engineering National Taiwan University Taiwan Molecular Science and Technology Program Taiwan International Graduate Program Academia Sinica Taiwan Department of Photonics National Yang Ming Chiao Tung University Taiwan Center of Atomic Initiative for New Materials National Taiwan University Taiwan

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Correction: AR loss in prostate cancer stroma mediated by NF-κB and p38-MAPK signaling disrupts stromal morphogen production

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Oncogene 2025年第1期44卷 50页

作者： Shekha Tahsin Neha S Sane Brent Cernyar Linan Jiang Yitshak Zohar Benjamin R Lee Cindy K Miranti Cancer Biology Graduate Interdisciplinary Program University of Arizona Tucson AZ USA. Department of Cellular and Molecular Medicine University of Arizona Tucson AZ USA. Department of Aerospace and Mechanical Engineering University of Arizona Tucson AZ USA. University of Arizona Cancer Center University of Arizona Tucson AZ USA. Department of Urology University of Arizona Tucson AZ USA. Cancer Biology Graduate Interdisciplinary Program University of Arizona Tucson AZ USA. cmiranti@arizona.edu. Department of Cellular and Molecular Medicine University of Arizona Tucson AZ USA. cmiranti@arizona.edu. University of Arizona Cancer Center University of Arizona Tucson AZ USA. cmiranti@arizona.edu.

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Orphan nuclear receptors-induced ALT-associated PML bodies are targets for ALT inhibition

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Nucleic Acids Research 2024年第11期52卷 6472-6489页

作者： Marie Gaela, Venus Hsia, Hsuan-Yu Joseph, Nithila A. Tzeng, Wan-Yi Ting, Pin-Chao Shen, Yi-Ling Tsai, Chia-Tsen Boudier, Thomas Chen, Liuh-Yow Molecular and Cell Biology Taiwan International Graduate Program Academia Sinica Graduate Institute of Life Sciences National Defense Medical Center Taipei 11529 Taiwan Institute of Molecular Biology Academia Sinica Taipei 11529 Taiwan Insitute of Molecular and Cellular Biology National Taiwan University Taipei 106319 Taiwan Department and Graduate Institute of Microbiology and Immunology National Defense Medical Center Taipei 11490 Taiwan CENTURI multi-engineering platform Aix-Marseille Université Marseille 13288 France

Orphan nuclear receptors (NRs), such as COUP-TF1, COUP-TF2, EAR2, TR2 and TR4, are implicated in telomerase-negative cancers that maintain their telomeres through the alternative lengthening of telomeres (ALT) mechanism. However, how telomere association of orphan NRs is involved in ALT activation remains unclear. Here, we demonstrate that telomeric tethering of orphan NRs in human fibroblasts initiates formation of ALT-associated PML bodies (APBs) and features of ALT activity, including ALT telomere DNA synthesis, telomere sister chromatid exchange, and telomeric C-circle generation, suggesting de novo ALT induction. Overexpression of orphan NRs exacerbates ALT phenotypes in ALT cells, while their depletion limits ALT. Orphan NRs initiate ALT via the zinc finger protein 827, suggesting the involvement of chromatin structure alterations for ALT activation. Furthermore, we found that orphan NRs and deficiency of the ALT suppressor ATRX-DAXX complex operate in concert to promote ALT activation. Moreover, PML depletion by gene knockout or arsenic trioxide treatment inhibited ALT induction in fibroblasts and ALT cancer cells, suggesting that APB formation underlies the orphan NR-induced ALT activation. Importantly, arsenic trioxide administration abolished APB formation and features of ALT activity in ALT cancer cell line-derived mouse xenografts, suggesting its potential for further therapeutic development to treat ALT cancers. © The Author(s) 2024.

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Building a Better Biofuel Production Platform: engineering metabolic control techniques to control the photosynthetic cyanobacterium Synechocystis sp. PCC 6803 1

Building a Better Biofuel Production Platform: Engineering m...

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1st Annual World Congress on Sustainable engineering 2011 - Topical Conference at the 2011 AIChE Annual Meeting

作者： Albers, Stevan C. Peebles, Christie A.M. Cell and Molecular Biology Graduate Program Colorado State University Fort CollinsCO United States Department of Chemical and Biological Engineering Colorado State University Fort CollinsCO United States

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Mesenchymal stromal cell-derived small extracellular vesicles modulate macrophage polarization and enhance angio-osteogenesis to promote bone healing

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Genes & Diseases 2022年第4期9卷 841-844页

作者： Shang Jiunn Chuah Chee Weng Yong Kristeen Ye Wen Teo Jacob Ren Jie Chew Yi Ann Cheow Shipin Zhang Raymond Chung Wen Wong Asher Ah Tong Lim Sai Kiang Lim Wei Seong Toh Faculty of Dentistry National University of Singapore119085Singapore Institute of Molecular and Cell Biology Agency for ScienceTechnology and Research138648Singapore Department of Orthopaedic Surgery Yong Loo Lin School of MedicineNational University of Singapore119288Singapore Department of Biomedical Engineering Faculty of EngineeringNational University of Singapore117583Singapore Tissue Engineering Program Life Sciences InstituteNational University of Singapore117456Singapore Integrative Sciences and Engineering Program NUS Graduate SchoolNational University of Singapore119077Singapore

Mesenchymal stem/stromal cells(MSCs)have demonstrated therapeutic efficacy for bone regeneration in animal and clinical *** MSCs were initially thought to differentiate to various cell types to replace the injured/diseased tissue,it is now accepted that these cells secrete factors to promote tissue repair.1 Among these factors,small extracellular vesicles(sEVs)of size 50–200 nm,which include the exosomes,have been identified as the principal agent mediating the wide-ranging therapeutic efficacy of MSCs.2 Several studies have also reported the therapeutic effects of MSC-sEVs to enhance bone repair in animal models,as recently reviewed.3 However,the cellular processes and mechanisms mediated by MSC-sEVs in bone regeneration remain to be fully elucidated.

关键词： healing clinical macrophage

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A disordered linker in the Polycomb protein Polyhomeotic tunes phase separation and oligomerization

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molecular Cell 2025年

作者： Tim M. Gemeinhardt Roshan M. Regy Tien M. Phan Nanu Pal Jyoti Sharma Olga Senkovich Andrea J. Mendiola Heather J. Ledterman Amy Henrickson Daniel Lopes Utkarsh Kapoor Ashish Bihani Djamouna Sihou Young C. Kim David Jeruzalmi Borries Demeler Chongwoo A. Kim Jeetain Mittal Nicole J. Francis Montreal Clinical Research Institute (IRCM) Montreal QC Canada Division of Experimental Medicine McGill University Montreal QC Canada Department of Chemistry and Biochemistry The University of Lethbridge Lethbridge AB Canada Artie McFerrin Department of Chemical Engineering Texas A&M University College Station TX USA Department of Biochemistry and Molecular Medicine University of Montreal Montreal QC Canada Department of Biochemistry and Molecular Genetics Midwestern University Glendale AZ USA Department of Chemistry and Biochemistry City College of New York New York NY USA Department of Chemical and Biomedical Engineering University of Wyoming Laramie WY USA Center for Materials Physics and Technology Naval Research Laboratory Washington DC USA Ph.D. Program in Biochemistry The Graduate Center of the City University of New York New York NY USA Ph.D. Program in Biology The Graduate Center of the City University of New York New York NY USA Ph.D. Program in Chemistry The Graduate Center of the City University of New York New York NY USA Department of Chemistry and Biochemistry University of Montana Missoula MT USA Department of Chemistry Texas A&M University College Station TX USA Interdisciplinary Graduate Program in Genetics and Genomics Texas A&M University College Station TX USA

Biomolecular condensates are increasingly recognized as key regulators of chromatin organization, yet how their formation and properties arise from protein sequences remains incompletely understood. Cross-species comparisons can reveal both conserved functions and significant evolutionary differences. Here, we integrate in vitro reconstitution, molecular dynamics simulations, and cell-based assays to examine how Drosophila and human variants of Polyhomeotic (Ph)—a subunit of the PRC1 chromatin regulatory complex—drive condensate formation through their sterile alpha motif (SAM) oligomerization domains. We identify divergent interactions between SAM and the disordered linker connecting it to the rest of Ph. These interactions enhance oligomerization and modulate both the formation and properties of reconstituted condensates. Oligomerization influences condensate dynamics but minimally impacts condensate formation. Linker-SAM interactions also affect condensate formation in Drosophila and human cells and growth in Drosophila imaginal discs. Our findings show how evolutionary changes in disordered linkers can fine-tune condensate properties, providing insights into sequence-function relationships.

关键词： sterile alpha motif oligomerization molecular dynamics simulations phase separation gene regulation Polycomb intrinsically disordered regions biomolecular condensates analytical ultracentrifugation biochemistry CRISPR Drosophila

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Resistive-pulse sensing tumor-derived exosome detection device 22

Resistive-pulse sensing tumor-derived exosome detection devi...

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22nd International Conference on Miniaturized Systems for Chemistry and Life Sciences, MicroTAS 2018

作者： Carey, Thomas R. Yu, Connie W. Hall, Jennifer Sohn, Lydia L. UC Berkeley UCSF Graduate Program in Bioengineering United States UC Berkeley Bioengineering United States UC Berkeley Molecular and Cell Biology United States UC Berkeley Mechanical Engineering United States

ISBN: (纸本)9781510897571

We present the theory, design, and proof-of-concept demonstration of a tumor-derived exosome detection platform that enables non-invasive, cost-effective, point-of-care cancer screening. Our platform detects exosomes displaying a specific surface antigen by electronically measuring through node-pore sensing the effective size increase that occurs when exosomes bind to colloids functionalized with specific antibodies. We have demonstrated that our platform can differentially detect exosomes derived from A549 cells (a non-small cell lung cancer cell line) and BEAS-2B cells (a non-malignant bronchial epithelial cell line). Copyright © (2018) by Chemical and Biological Microsystems Society. All rights reserved.

关键词： Tumors

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High-speed 3D brain activity quantification with compressive light-field microscopy

High-speed 3D brain activity quantification with compressive...

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Novel Techniques in Microscopy, NTM 2015

作者： Pégard, Nicolas Lyall, Evan Mardinly, Alan Antipa, Nick Waller, Laura Adesnik, Hillel Department of Molecular and Cell Biology UC Berkeley CA United States Department of Electrical Engineering and Computer Science UC Berkeley CA United States Biophysics Graduate Program UC Berkeley CA United States

We present a non-imaging light-field microscopy method for volume quantification of neural activity in scattering brain tissue. Individual neuron fluorescence is computed directly by independent component identificati... 详细信息

ISBN: (纸本)9781557529541

关键词： Time domain analysis

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