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Changing the public perception of human embryology ( vol 25, pg 1717, 2023)

NATURE CELL BIOLOGY 2023年第12期25卷 1884-1884页

作者： Rivron, Nicolas C. Martinez-Arias, Alfonso Sermon, Karen Mummery, Christine Scholer, Hans R. Wells, James Nichols, Jenny Hadjantonakis, Anna-Katerina Lancaster, Madeline A. Moris, Naomi Fu, Jianping Sturmey, Roger G. Niakan, Kathy Rossant, Janet Kato, Kazuto Institute of Molecular Biotechnology of the Austrian Academy of Sciences (IMBA) Vienna BioCenter (VBC) Vienna Austria Systems Bioengineering MELIS Universidad Pompeu Fabra and Catalan Institution for Research and Advanced Studies (ICREA) Barcelona Spain Research Group Reproduction and Genetics Vrije Universiteit Brussel Brussels Belgium European Society for Human Reproduction and Embryology (ESHRE) Strombeek-Bever Belgium Leiden University Medical Center Leiden the Netherlands Max Planck Institute for Molecular Biomedicine Münster Germany Center for Stem Cell and Organoid Medicine Cincinnati Children’s Hospital Medical Center Cincinnati OH USA Division of Developmental Biology Cincinnati Children’s Hospital Medical Center Cincinnati OH USA MRC Human Genetics Unit Institute of Genetics and Cancer The University of Edinburgh Crewe Road Edinburgh UK Developmental Biology Program Sloan Kettering Institute Memorial Sloan Kettering Cancer Center New York NY USA MRC Laboratory of Molecular Biology Cambridge UK The Francis Crick Institute London UK Department of Mechanical Engineering University of Michigan Ann Arbor MI USA Department of Biomedical Engineering University of Michigan Ann Arbor MI USA Department of Cell & Developmental Biology University of Michigan Medical School Ann Arbor MI USA Biomedical Institute for Multimorbidity Hull York Medical School University of Hull Hull UK Cambridge Reproduction University of Cambridge Cambridge UK The Centre for Trophoblast Research Department of Physiology Development and Neuroscience University of Cambridge Cambridge UK Human Embryo and Stem Cell Laboratory The Francis Crick Institute London UK Wellcome Trust–Medical Research Council Stem Cell Institute University of Cambridge Jeffrey Cheah Biomedical Centre Cambridge UK Epigenetics Programme Babraham Institute Cambridge UK The Hospital for Sick Children Toronto ON Canada Department of Biomedical Ethics and Public Policy Graduate School of Medicin

Human embryology is flourishing thanks to an impetus provided by embryo models formed from stem cells. These scientific advances require meticulous experimental work and a refined ethical framework, but also sensible ... 详细信息

关键词： Embryology Embryonic stem cells

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Rats: A robotic arm training system designed for rats

Rats: A robotic arm training system designed for rats

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ASME 2020 International Design engineering Technical Conferences and Computers and Information in engineering Conference, IDETC-CIE 2020

作者： Zhang, Haohan Luna, Tatiana Yang, Lillian Martin, John Agrawal, Sunil Robotics and Rehabilitation Laboratory Dept. of Mechanical Engineering Columbia University New YorkNY10027 United States CUNY School of Medicine City College of New York New YorkNY10031 United States Dept. of Molecular Cellular and Biomedical Sciences Center for Discovery and Innovation CUNY School of Medicine Neuroscience Program CUNY Graduate Center New YorkNY10031 United States

ISBN: (纸本)9780791883990

This paper presents a novel robotic system to characterize and retrain reaching in rats. This robot is intended to be a research platform for rehabilitation of forelimb movements in rats. In this paper, we focus on the design of this robotic system. We present the design requirements, mathematical models, and details of the physical device. A parallel mechanism with a special alignment of the component chains is used to accommodate observed reaching motions of a rat’s forelimb. Additionally, we demonstrate the use of this robot to record forelimb trajectories. Three healthy rats were used to record repeated reaching motions while the robot applied nearly zero force. We believe that this robotic system can be used in future training studies with rats who have impaired arm motions due to a neurological insult. Copyright © 2020 ASME

关键词： Rats

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A review of fluid-structure interaction: blood flow in arteries

Biomedical Engineering Advances

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biomedical engineering Advances 2025年 9卷

作者： Zubeir Allum Saib Farid Abed Mergen H. Ghayesh Marco Amabili Biomedical Engineering Graduate Program American University of Sharjah Sharjah United Arab Emirates Department of Bioengineering New York University Abu Dhabi Abu Dhabi United Arab Emirates Department of Civil Engineering American University of Sharjah Sharjah United Arab Emirates School of Electrical and Mechanical Engineering University of Adelaide South Australia Australia School of Engineering Westlake University Hangzhou Zhejiang province China

Over the past decade, Fluid-Structure Interaction studies related to blood vessels have been an active area of research, as they adequately capture the multiphysics of blood flow within the circulatory system. Despite the growing interest, only few state-of-the-art reviews have been published in the literature, each focusing individually on the coronary artery, carotid artery, aorta, heart valves and peripheral arteries. This systematic review assesses the current research and implications of Fluid-Structure Interaction implementation strategies in relation to human arteries. It is meant to comprehensively amalgamate research studies on an array of arteries coupled with cardiovascular complications such as atherosclerosis, plaque calcification, aneurysms, aortic dissections and valve dysfunction. It additionally covers computational finite element and finite volume solver demands, coupling schemes, inlet and outlet boundary conditions specifications, newtonian and non-newtonian blood rheological properties, laminar and turbulent flow types, as well as the modelling of the vessel wall’s hyperelastic and viscoelastic mechanical behavior. The research information is retrieved from the last ten years and summarized in a tabulated format, to help researchers in easily extracting useful information for future investigations and reviews.

关键词： Fluid-structure interaction Computational fluid dynamics Finite element analysis Blood flow Hemodynamics Biomechanics Atherosclerosis Aneurysm Calcification Artery Plaque Valve

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Hospital Admission Risks and Excess Costs for Neurological Symptoms Attributable to Long-Term Exposure to Fine Particulate Matter in new york State, USA

SSRN

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SSRN 2023年

作者： Min, Jieun Lee, Whanhee Bell, Michelle L. Kim, Yijun Heo, Seulkee Kim, Ga Eun Kim, Jee Hyun Yun, Ji Young Kim, Soo In Schwartz, Joel Ha, Eunhee Department of Environmental Medicine School of Medicine Ewha Womans University Seoul Korea Republic of Graduate Program in System Health Science and Engineering College of Medicine Ewha Womans University Seoul Korea Republic of Ewha Womans University College of Medicine Seoul Korea Republic of School of Biomedical Convergence Engineering College of Information and Biomedical Engineering Pusan National University Yangsan Korea Republic of Yale School of the Environment Yale University New HavenCT United States Department of Psychiatry Ewha Womans University Mokdong Hospital Ewha Womans University College of Medicine Seoul Korea Republic of Department of Neurology Ewha Womans University Seoul Hospital Ewha Womans University College of Medicine Seoul Korea Republic of Department of Environmental Health Harvard T H Chan School of Public Health BostonMA United States Department of Medical Science Ewha Womans University School of Medicine Ewha Medical Research Institute Seoul Korea Republic of

Background: Although emerging evidence suggests that PM2.5 is linked to neurological symptoms (NSs) via neuroinflammation, relevant studies are scarce. This study aimed to investigate the risks and excess costs of hospital admission for five NSs—fatigue, headache, dizziness, convulsion, and paralysis—attributable to long-term exposure to PM2.5 in new york State, ***: We analyzed the new york Statewide Planning and Research Cooperative System (SPARCS) from 2010 to 2016. A Bayesian hierarchical model with integrated nested Laplace approximations was performed to estimate the risks and excess costs of hospital admission for NSs due to long-term exposure to PM2.5 at the county ***: A 1 µg/m3 increase in lag 0–1 years PM2.5 was associated with an increased risk of headache and convulsion by 1.06 (1.01, 1.11) and 1.04 (1.01, 1.06), respectively. The excess hospital admission cost for five NSs attributable to lag 0–1 years PM2.5 above the new World Health Organization guideline (annual standard: 5 µg/m3) was $200.24 (95% CI: 6.00, 376.96) million during 2011–2016, recording the highest for convulsion ($153.73 [95% CI: 63.61, 244.19] million).Conclusions: This study provides quantitative estimates of risks and excess costs for NSs attributable to long-term PM2.5 and suggests that policies that reduce long-term PM2.5 concentration in accordance with the new WHO air quality guidelines can yield substantial health and economic benefits related to NSs in the new york State population. © 2023, The Authors. All rights reserved.

关键词： Hierarchical systems

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A consensus protocol for functional connectivity analysis in the rat brain (vol 26, pg 673, 2023)

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NATURE NEUROSCIENCE 2023年第6期26卷 1127-1128页

作者： Grandjean, Joanes Desrosiers-Gregoire, Gabriel Anckaerts, Cynthia Angeles-Valdez, Diego Ayad, Fadi Barriere, David A. Blockx, Ines Bortel, Aleksandra Broadwater, Margaret Cardoso, Beatriz M. Celestine, Marina Chavez-Negrete, Jorge E. Choi, Sangcheon Christiaen, Emma Clavijo, Perrin Colon-Perez, Luis Cramer, Samuel Daniele, Tolomeo Dempsey, Elaine Diao, Yujian Doelemeyer, Arno Dopfel, David Dvorakova, Lenka Falfan-Melgoza, Claudia Fernandes, Francisca F. Fowler, Caitlin F. Fuentes-Ibanez, Antonio Garin, Clement M. Gelderman, Eveline Golden, Carla E. M. Guo, Chao C. G. Henckens, Marloes J. A. G. Hennessy, Lauren A. Herman, Peter Hofwijks, Nita Horien, Corey Ionescu, Tudor M. Jones, Jolyon Kaesser, Johannes Kim, Eugene Lambers, Henriette Lazari, Alberto Lee, Sung-Ho Lillywhite, Amanda Liu, Yikang Liu, Yanyan Y. Lopez-Castro, Alejandra Lopez-Gil, Xavier Ma, Zilu MacNicol, Eilidh Madularu, Dan Mandino, Francesca Marciano, Sabina McAuslan, Matthew J. McCunn, Patrick McIntosh, Alison Meng, Xianzong Meyer-Baese, Lisa Missault, Stephan Moro, Federico Naessens, Daphne M. P. Nava-Gomez, Laura J. Nonaka, Hiroi Ortiz, Juan J. Paasonen, Jaakko Peeters, Lore M. Pereira, Mickael Perez, Pablo D. Pompilus, Marjory Prior, Malcolm Rakhmatullin, Rustam Reimann, Henning M. Reinwald, Jonathan Del Rio, Rodrigo Triana Rivera-Olvera, Alejandro Ruiz-Perez, Daniel Russo, Gabriele Rutten, Tobias J. Ryoke, Rie Sack, Markus Salvan, Piergiorgio Sanganahalli, Basavaraju G. Schroeter, Aileen Seewoo, Bhedita J. Selingue, Erwan Seuwen, Aline Shi, Bowen Sirmpilatze, Nikoloz Smith, Joanna A. B. Smith, Corrie Sobczak, Filip Stenroos, Petteri J. Straathof, Milou Strobelt, Sandra Sumiyoshi, Akira Takahashi, Kengo Torres-Garcia, Maria E. Tudela, Raul van den Berg, Monica van der Marel, Kajo van Hout, Aran T. B. Vertullo, Roberta Vidal, Benjamin Vrooman, Roel M. Wang, Victora X. Wank, Isabel Watson, David J. G. Yin, Ting Zhang, Yongzhi Zurbruegg, Stefan Achard, Sophie Alcauter, Sarael Auer, Dorothee P. Barbier, Emmanuel L. Baudewig, Juergen Beckmann, Chri Donders Institute for Brain Behaviour and Cognition Radboud University Nijmegen The Netherlands Department for Medical Imaging Radboud University Medical Center Nijmegen The Netherlands Cerebral Imaging Centre Douglas Mental Health University Institute Verdun QC Canada Integrated Program in Neuroscience McGill University Montreal QC Canada Bio-imaging Lab University of Antwerp Antwerp Belgium µNEURO Research Centre of Excellence University of Antwerp Antwerp Belgium Instituto de Neurobiología Universidad Nacional Autónoma de México Campus Juriquilla Querétaro Mexico Biological and Biomedical Engineering McGill University Montreal QC Canada McConnell Brain Imaging Centre McGill University Montreal QC Canada Montreal Neurological Institute McGill University Montreal QC Canada UMR INRAE/CNRS 7247 Physiologie des Comportements et de la Reproduction Physiologie de la reproduction et des comportements Centre de recherche INRAE de Nouzilly Tours France Department of Neurology and Neurosurgery McGill University Montreal QC Canada Center for Animal MRI University of North Carolina at Chapel Hill Chapel Hill NC USA Department of Neurology University of North Carolina at Chapel Hill Chapel Hill NC USA Biomedical Research Imaging Center University of North Carolina at Chapel Hill Chapel Hill NC USA Preclinical MRI Champalimaud Research Champalimaud Centre for the Unknown Lisbon Portugal Laboratoire des Maladies Neurodégénératives Molecular Imaging Research Center (MIRCen) Université Paris-Saclay Commissariat à l’Énergie Atomique et aux Énergies Alternatives (CEA) CNRS Fontenay-aux-Roses France Departamento de Neurobiología Conductual y Cognitiva Instituto de Neurobiología Universidad Nacional Autónoma de México Campus Juriquilla Querétaro México Translational Neuroimaging and Neural Control Group High-Field Magnetic Resonance Max Planck Institute for Biological Cybernetics Tuebingen Germany Graduate Training Centre of Neuroscience International Max

Task-free functional connectivity in animal models provides an experimental framework to examine connectivity phenomena under controlled conditions and allows for comparisons with data modalities collected under invasive or terminal procedures. Currently, animal acquisitions are performed with varying protocols and analyses that hamper result comparison and integration. Here we introduce StandardRat, a consensus rat functional magnetic resonance imaging acquisition protocol tested across 20 centers. To develop this protocol with optimized acquisition and processing parameters, we initially aggregated 65 functional imaging datasets acquired from rats across 46 centers. We developed a reproducible pipeline for analyzing rat data acquired with diverse protocols and determined experimental and processing parameters associated with the robust detection of functional connectivity across centers. We show that the standardized protocol enhances biologically plausible functional connectivity patterns relative to previous acquisitions. The protocol and processing pipeline described here is openly shared with the neuroimaging community to promote interoperability and cooperation toward tackling the most important challenges in neuroscience.

关键词： Databases Neural circuits

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A self-motivated carrier free nanoplatform for synergistic photodynamic and ferroptosis-based therapy for targeted antitumor treatment

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Nano Research 2025年第5期18卷 463-474页

作者： Tian, Chutong Ma, Wenjing Shi, Jianbin Deng, Jia Gao, Zeping Tian, Haowen Kikkawa, Ayumi Tanaka, Kaho Xi, Ronggang Luo, Cong Wang, Xiaobo Kamei, Ken-Ichiro Department of Pharmaceutics Wuya College of Innovation Shenyang Pharmaceutical University Shenyang110016 China Pharmacy Department the 967th Hospital of PLA Joint Logistics Support Force Dalian116021 China Joint International Research Laboratory of Intelligent Drug Delivery Systems Ministry of Education Shenyang110016 China Graduate School and Faculty of Pharmaceutical Sciences Kyoto University Yoshida-Ushinomiya-cho Sakyo-ku Kyoto606-8501 Japan Institute for Advanced Study Kyoto University Yoshida-Ushinomiya-cho Sakyo-ku Kyoto606-8501 Japan Programs of Biology and Bioengineering Divisions of Science and Engineering New York University Abu Dhabi Abu Dhabi129188 United Arab Emirates Department of Biomedical Engineering Tandon School of Engineering New York University MetroTech Brooklyn NY11201 United States

Photodynamic therapy (PDT) has been extensively investigated as an alternative cancer treatment;however, its efficacy is limited by the low oxygen content and excess glutathione (GSH) in tumor tissues. With the emergence of ferroptosis, which also impacts redox homeostasis, a combined PDT-ferroptosis approach holds promise for amplifying the efficacy of both treatments. However, concerns persist regarding biocompatibility and tumor-specific release. Here, we report a self-motivated co-nanoassembly for combined PDT and ferroptosis-driven tumor therapy. We first modify linoleic acid with protoporphyrin IX to form a lipidic derivative (denoted as PLA) and develop a light-boosted carrier-free nanoplatform (PLA@R NPs) by co-assembling the ferroptosis inducer RAS-selective lethal 3 (RSL3) and PLA. Upon light irradiation, reactive oxygen species produced by PDT trigger linoleic acid peroxidation, leading to the destruction of the nanoparticles and the release of RSL3. The rapid release of RSL3 enhances PDT sensitivity by depleting GSH and utilizing the Fenton reaction to supplement oxygen. Additionally, PDT accelerates lipid peroxidation, further inducing ferroptosis. This self-motivated effect increases oxidative stress in tumor tissues, as confirmed by a tumor-on-a-chip model. Moreover, the in vivo therapeutic effect with the PLA@R NPs is significant, demonstrating the promising potential of combining PDT and ferroptosis using a light-boosted and self-motivated nanoplatform. © The Author(s) 2025.

关键词： Targeted drug delivery

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Exploration of Dark Chemical Genomics Space via Portal Learning: Applied to Targeting the Undruggable Genome and COVID-19 Anti-Infective Polypharmacology

Research Square

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Research Square 2021年

作者： Cai, Tian Xie, Li Chen, Muge Liu, Yang He, Di Zhang, Shuo Mura, Cameron Bourne, Philip E. Xie, Lei Ph.D. Program in Computer Science The Graduate Center The City University of New York New York10016 United States Department of Computer Science Hunter College The City University of New York New York10065 United States Master Program in Computer Science Courant Institute of Mathematical Sciences New York University United States School of Data Science Department of Biomedical Engineering University of Virginia VA22903 United States Helen and Robert Appel Alzheimer’s Disease Research Institute Feil Family Brain & Mind Research Institute Weill Cornell Medicine Cornell University New York10021 United States

Advances in biomedicine are largely fueled by exploring uncharted territories of human biology. Machine learning can both enable and accelerate discovery, but faces a fundamental hurdle when applied to unseen data with distributions that differ from previously observed ones—a common dilemma in scientific inquiry. We have developed a new deep learning framework, called Portal Learning, to explore dark chemical and biological space. Three key, novel components of our approach include: (i) end-to-end, step-wise transfer learning, in recognition of biology’s sequence-structure-function paradigm, (ii) out-of-cluster meta-learning, and (iii) stress model selection. Portal Learning provides a practical solution to the out-of-distribution (OOD) problem in statistical machine learning. Here, we have implemented Portal Learning to predict chemical-protein interactions on a genome-wide scale. Systematic studies demonstrate that Portal Learning can effectively assign ligands to unexplored gene families (unknown functions), versus existing state-of-the-art methods. Compared with AlphaFold2-based protein-ligand docking, Portal Learning significantly improved the performance by 79% in PR-AUC and 27% in ROC-AUC, respectively. The superior performance of Portal Learning allowed us to target previously "undruggable" proteins and design novel polypharmacological agents for disrupting interactions between SARS-CoV-2 and human proteins. Portal Learning is general-purpose and can be further applied to other areas of scientific inquiry. © 2021, CC BY.

关键词： Coronavirus

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Exploration of dark chemical genomics space via portal learning: Applied to targeting the undruggable genome and COVID-19 anti-infective polypharmacology

arXiv

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arXiv 2021年

Advances in biomedicine are largely fueled by exploring uncharted territories of human biology. Machine learning can both enable and accelerate discovery, but faces a fundamental hurdle when applied to unseen data with distributions that differ from previously observed ones—a common dilemma in scientific inquiry. We have developed a new deep learning framework, called Portal Learning, to explore dark chemical and biological space. Three key, novel components of our approach include: (i) end-to-end, step-wise transfer learning, in recognition of biology’s sequence-structure-function paradigm, (ii) out-of-cluster meta-learning, and (iii) stress model selection. Portal Learning provides a practical solution to the out-of-distribution (OOD) problem in statistical machine learning. Here, we have implemented Portal Learning to predict chemical-protein interactions on a genome-wide scale. Systematic studies demonstrate that Portal Learning can effectively assign ligands to unexplored gene families (unknown functions), versus existing state-of-the-art methods, thereby allowing us to target previously "undruggable" proteins and design novel polypharmacological agents for disrupting interactions between SARS-CoV-2 and human proteins. Portal Learning is general-purpose and can be further applied to other areas of scientific *** Codes 68T07 © 2021, CC BY.

关键词： Genes

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Author Correction: Mechanically active integrins target lytic secretion at the immune synapse to facilitate cellular cytotoxicity

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Nature communications 2023年第1期14卷 8401页

作者： Mitchell S Wang Yuesong Hu Elisa E Sanchez Xihe Xie Nathan H Roy Miguel de Jesus Benjamin Y Winer Elizabeth A Zale Weiyang Jin Chirag Sachar Joanne H Lee Yeonsun Hong Minsoo Kim Lance C Kam Khalid Salaita Morgan Huse Immunology Program Memorial Sloan Kettering Cancer Center New York NY USA. Pharmacology Program Weill-Cornell Graduate School of Medical Sciences New York NY USA. Department of Chemistry Emory University Atlanta GA USA. Biochemistry and Molecular Biology Program Weill-Cornell Graduate School of Medical Sciences New York NY USA. Neuroscience Program Weill-Cornell Graduate School of Medical Sciences New York NY USA. Department of Microbiology and Immunology State University of New York Upstate Medical University Syracuse NY USA. Department of Biomedical Engineering Columbia University New York NY USA. Department of Microbiology and Immunology University of Rochester Medical Center Rochester NY USA. Immunology Program Memorial Sloan Kettering Cancer Center New York NY USA. husem@***.

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The Role of Frontal and Occipital Cortices in Processing Sustained Visual Attention in Young Adults with Attention-Deficit/Hyperactivity Disorder:A Functional Near-Infrared Spectroscopy Study

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Neuroscience Bulletin 2020年第6期36卷 659-663页

作者： Ziyan Wu Yuyang Luo Yu Gao Ying Han Kai Wu Xiaobo Li Department of Electrical and Computer Engineering New Jersey Institute of TechnologyNewarkNJ 07102USA Department of Biomedical Engineering New Jersey Institute of TechnologyNewarkNJ 07102USA Department of Psychology Brooklyn College and the Graduate Center of the City University of New YorkBrooklynNY 10004USA Department of Neurology XuanWu Hospital of Capital Medical UniversityBeijing 100053China Beijing Institute of Geriatrics XuanWu Hospital of Capital Medical UniversityBeijing 100053China National Clinical Research Center for Geriatric Disorders Beijing 100053China Center of Alzheimer’s Disease Beijing Institute for Brain DisordersBeijing 100069China Department of Biomedical Engineering School of Materials Science and EngineeringSouth China University of TechnologyGuangzhou 510003China Guangzhou Huiai Hospital The Affiliated Brain Hospital of Guangzhou Medical UniversityGuangzhou 510370China Guangdong Engineering Technology Research Center for Diagnosis and Rehabilitation of Dementia Guangzhou 510500China

Dear Editor,Attention deficit/hyperactivity disorder(ADHD),characterized by age-inappropriate symptoms of inattention,hyperactivity,and impulsivity,is a highly prevalent and heritable childhood-onset neurodevelopmental disorder,with impairing symptoms that persist into adulthood in up to 65%of patients[1].Adults with persistent ADHD symptoms since childhood have been found to have neurocognitive impairments in multiple domains,especially in attention and cognitive control,which significantly contribute to an increased risk of social disability,educational and occupational failure,and other comorbid psychiatric disorders,resulting in significant economic burdens to the affected individuals, their families, andsociety [2, 3].

关键词： Corti impairment Infrared

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