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Correction: How Does ChatGPT Perform on the United States Medical Licensing Examination (USMLE)? The Implications of Large Language Models for Medical Education and Knowledge Assessment

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JMIR Medical Education 2024年 10卷 e57594页

作者： Gilson, Aidan Safranek, Conrad W. Huang, Thomas Socrates, Vimig Chi, Ling Taylor, Richard Andrew Chartash, David Section for Biomedical Informatics and Data Science Yale University School of Medicine New Haven CT United States Department of Emergency Medicine Yale University School of Medicine New Haven CT United States Program of Computational Biology and Bioinformatics Yale University New Haven CT United States School of Medicine University College Dublin National University of Ireland Dublin Dublin Ireland Section for Biomedical Informatics and Data Science Yale University School of Medicine 300 George Street Suite 501 New Haven 06511 CT United States

In “How Does ChatGPT Perform on the United States Medical Licensing Examination (USMLE)? The Implications of Large Language Models for Medical Education and Knowledge” (MIR Med Educ 2023;9:e45312) three additions were made to enhance discoverability. The title originally appeared as: How Does ChatGPT Perform on the United States Medical Licensing Examination? The Implications of Large Language Models for Medical Education and Knowledge Assessment And has been changed to: How Does ChatGPT Perform on the United States Medical Licensing Examination (USMLE)? The Implications of Large Language Models for Medical Education and Knowledge In the “Objective” section of the Abstract, the following sentence: This study aimed to evaluate the performance of ChatGPT on questions within the scope of the United States Medical Licensing Examination Step 1 and Step 2 exams, as well as to analyze responses for user interpretability. Has been changed to read as: This study aimed to evaluate the performance of ChatGPT on questions within the scope of the United States Medical Licensing Examination (USMLE) Step 1 and Step 2 exams, as well as to analyze responses for user interpretability. Finally, the abbreviation “USMLE” has been added to the Keywords section. The correction will appear in the online version of the paper on the JMIR Publications website on February 27, 2024 together with the publication of this correction notice. Because this was made after submission to PubMed, PubMed Central, and other full-text repositories, the corrected article has also been resubmitted to those repositories. © 2024 JMIR Publications Inc.. All rights reserved.

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Ribosomes guide pachytene piRNA formation on long intergenic piRNA precursors (vol 22, pg 200, 2020)

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NATURE CELL biology 2020年第3期22卷 353-353页

作者： Sun, Yu H. Zhu, Jiang Xie, Li Huitong Li, Ziwei Meduri, Rajyalakshmi Zhu, Xiaopeng Song, Chi Chen, Chen Ricci, Emiliano P. Weng, Zhiping Li, Xin Zhiguo Center for RNA Biology: From Genome to Therapeutics Department of Biochemistry and Biophysics University of Rochester Medical Center Rochester NY USA Computational Biology Department Carnegie Mellon University Pittsburgh PA USA College of Public Health Division of Biostatistics The Ohio State University Columbus OH USA Department of Animal Science Michigan State University East Lansing MI USA Université de Lyon ENSL UCBL INSERM CNRS LBMC Lyon France Program in Bioinformatics and Integrative Biology University of Massachusetts Medical School Worcester MA USA Department of Urology University of Rochester Medical Center Rochester NY USA

An amendment to this paper has been published and can be accessed via a link at the top of the paper.

关键词： RNA Spermatogenesis

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The mTORC1 complex in pre-osteoblasts regulates whole-body energy metabolism independently of osteocalcin

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Bone Research 2021年第1期9卷 109-125页

作者： Pawanrat Tangseefa Sally K.Martin Peck Yin Chin James Breen Chui Yan Mah Paul A.Baldock Gary A.Wittert Amanda J.Page Christopher G.Proud Stephen Fitter Andrew C.W.Zannettino Adelaide Medical School Faculty of Health and Medical ScienceUniversity of AdelaideAdelaide5005 SAAustralia Cancer Program Precision Medicine ThemeSouth Australian Health and Medical Research InstituteAdelaide5000 SAAustralia Research Centre for Reproductive Health School of Paediatrics and Reproductive HealthUniversity of AdelaideAdelaide5005 SAAustralia Computational&Systems Biology program Precision Medicine ThemeSouth Australian Health and Medical Research InstituteAdelaide5000 SAAustralia Robinson Research Institute University of AdelaideAdelaideSA 5005Australia Bioinformatics Hub University of AdelaideAdelaideSA 5005Australia Freemasons Foundation Centre for Men’s Health University of AdelaideAdelaide5005 SAAustralia Skeletal Metabolism Group Garvan Institute of Medical ResearchSydney2010 NSWAustralia Nutrition Diabetes&Metabolism ProgramLifelong Health ThemeSouth Australian Health and Medical Research InstituteAdelaide5000 SAAustralia School of Biological Sciences University of AdelaideAdelaide5005 SAAustralia Central Adelaide Local Health Network AdelaideSAAustralia

Overnutrition causes hyperactivation of mTORC1-dependent negative feedback loops leading to the downregulation of insulin signaling and development of insulin *** osteoblasts(OBs),insulin signaling plays a crucial role in the control of systemic glucose *** utilized mice with conditional deletion of Rptor to investigate how the loss of mTORC1 function in OB affects glucose metabolism under normal and overnutrition dietary *** to the controls,chow-fed Rptorob−/−mice had substantially less fat mass and exhibited adipocyte ***,upon feeding with high-fat diet,mice with pre-and post-natal deletion of Rptor in OBs were protected from diet-induced obesity and exhibited improved glucose metabolism with lower fasting glucose and insulin levels,increased glucose tolerance and insulin *** leanness and resistance to weight gain was not attributable to changes in food intake,physical activity or lipid absorption but instead was due to increased energy expenditure and greater whole-body substrate ***-seq revealed an increase in glycolysis and skeletal insulin signaling pathways,which correlated with the potentiation of insulin signaling and increased insulin-dependent glucose uptake in Rptorknockout ***,these findings point to a critical role for the mTORC1 complex in the skeletal regulation of wholebody glucose metabolism and the skeletal development of insulin resistance.

关键词： metabolism mTORC1 homeostasis

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BPS2025 - Cross-scale conundrum: Slow masticatory myosin in jaw muscles that are both fast and strong

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Biophysical Journal 2025年第3期124卷 516a-516a页

作者： Varun V. Dhorajia Nicholas LaFave Brandon Reder Robert Brocklehurst Nicolai Konow Sam Walcott Jeffrey R. Moore Biomedical Engineering and Biotechnology Program University of Massachusetts Lowell Lowell MA USA Department of Biological Sciences University of Massachusetts Lowell Lowell MA USA Department of Mathematical Sciences Worcester Polytechnic Institute Worcester MA USA Department of Bioinformatics and Computational Biology Worcester Polytechnic Institute Worcester MA USA

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DIFFUSION CURVATURE FOR ESTIMATING LOCAL CURVATURE IN HIGH DIMENSIONAL DATA

arXiv

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arXiv 2022年

作者： Bhaskar, Dhananjay MacDonald, Kincaid Fasina, Oluwadamilola Thomas, Dawson Rieck, Bastian Adelstein, Ian Krishnaswamy, Smita Department of Genetics Yale School of Medicine New HavenCT United States Department of Mathematics Yale University New HavenCT United States Program for Applied Mathematics Yale University New HavenCT United States Department of Physics Yale University New HavenCT United States Institute of AI for Health Helmholtz Pioneer Campus Munich Germany Department of Computer Science Yale University New HavenCT United States Program for Computational Biology and Bioinformatics Yale University New HavenCT United States

We introduce a new intrinsic measure of local curvature on point-cloud data called diffusion curvature. Our measure uses the framework of diffusion maps, including the data diffusion operator, to structure point cloud data and define local curvature based on the laziness of a random walk starting at a point or region of the data. We show that this laziness directly relates to volume comparison results from Riemannian geometry. We then extend this scalar curvature notion to an entire quadratic form using neural network estimations based on the diffusion map of point-cloud data. We show applications of both estimations on toy data, single-cell data and on estimating local Hessian matrices of neural network loss landscapes. © 2022, CC BY.

关键词： Geometry

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Biomedical data and AI

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Science China Life Sciences 2025年第5期68卷 1536-1540页

作者： Hao Xu Shibo Zhou Zefeng Zhu Vincenzo Vitelli Liangyi Chen Ziwei Dai Ning Yang Luhua Lai Shengyong Yang Sergey Ovchinnikov Zhuoran Qiao Sirui Liu Chen Song Jianfeng Pei Han Wen Jianfeng Feng Yaoyao Zhang Zhengwei Xie Yang-Yu Liu Zhiyuan Li Fulai Jin Hao Li Mohammad Lotfollahi Xuegong Zhang Ge Yang Shihua Zhang Ge Gao Pulin Li Qi Liu Jing-Dong Jackie Han Peking-Tsinghua Center for Life Sciences (CLS) Academy for Advanced Interdisciplinary StudiesPeking University Center for Quantitative Biology (CQB) Academy for Advanced Interdisciplinary StudiesPeking University Peking University-Tsinghua University-National Institute of Biological Sciences Joint Graduate Program Academy for Advanced Interdisciplinary StudiesPeking University Department of Physics University of Chicago School of Life Sciences Southern University of Science and Technology Peking University Chengdu Academy for Advanced Interdisciplinary Biotechnologies College of Chemistry and Molecular Engineering Peking University Department of Biotherapy Cancer Center and State Key Laboratory of BiotherapyWest China HospitalSichuan University Department of Biology Massachusetts Institute of Technology Lambic Therapeutics Inc. Changping Laboratory Al for Science Institute Key Laboratory of Computational Neuroscience and Brain-Inspired Intelligence Fudan University Department of Obstetrics and Gynecology West China Second University HospitalSichuan University Peking University International Cancer Institute and Peking University-Yunnan Baiyao International Medical Institute and State Key Laboratory of Natural and Biomimetic Drugs Department of Molecular and Cellular PharmacologySchool of Pharmaceutical SciencesPeking University Health Science CenterPeking University Channing Division of Network Medicine Department of MedicineBrigham and Women's Hospital and Harvard Medical School Center for Artificial Intelligence and Modeling the Carl R.Woese Institute for Genomic BiologyUniversity of Illinois Urbana-Champaign Department of Genetics and Genome Sciences School of Medicine and Department of Computer and Data Sciences and Department of Population and Quantitative Health SciencesCase Western Reserve University Department of Biochemistry and Biophysics University of California Sanger Institute Department of Automation Tsinghua University State Key Laboratory of Multimodal Artificial Intelligence Systems I

The development of artificial intelligence(AI) and the mining of biomedical data complement each other. From the direct use of computer vision results to analyze medical images for disease screening, to now integrating biological knowledge into models and even accelerating the development of new AI based on biological discoveries, the boundaries of both are constantly expanding, and their connections are becoming closer.

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利用中心原子价层轨道阐释软硬酸碱理论的原理与应用

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化学教育（中英文） 2024年第6期45卷 99-107页

作者：杨雪梅王志鹏张永臻马新雨 Chen Maggie 蒋振雄哈尔滨工业大学(深圳)理学院广东深圳518055 Division of Genetics Department of MedicineBrigham and Women’s HospitalDepartment of Biological Chemistry and Molecular PharmacologyHarvard Medical SchoolBostonMA02115USA Department of Chemistry Texas A&M UniversityCollege StationTX77840USA 清华大学化学系北京100084 澳门科技大学创新工程学院材料科学与工程系中国澳门999078 Department of Chemistry and Chemical Biology Harvard UniversityBostonMA02138USA Department of Microbiology Miami UniversityOxfordOH45056USA Computational Biology and Bioinformatics Program Duke UniversityDurhamNC27703USA

软硬酸碱理论作为基础化学的重要理论,其在教学与教材中却存在定义不清、难以应用、适用范围不明、模棱两可等众多问题。借用前线轨道理论的观念,针对核心原子的外层轨道进行系统性讨论,并分类举例说明其适用范围与应用方式,以期对基础... 详细信息

软硬酸碱理论作为基础化学的重要理论,其在教学与教材中却存在定义不清、难以应用、适用范围不明、模棱两可等众多问题。借用前线轨道理论的观念,针对核心原子的外层轨道进行系统性讨论,并分类举例说明其适用范围与应用方式,以期对基础教学和相关科研有助。

关键词：软硬酸碱理论前线轨道理论亲核进攻电负性

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Landscape of global urban environmental resistome and its association with local socioeconomic and medical status

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Science China(Life Sciences) 2024年第6期67卷 1292-1301页

作者： Jun Wu Yige Hu Michael H Perlin David Danko Jun Lu Manuela Oliveira Johannes Werner Maria M Zambrano Maria A Sierra Olayinka O Osuolale Paweł Łabaj Nicolás Rascovan Nur Hazlin Hazrin-Chong Soojin Jang Haruo Suzuki Marina Nieto-Caballero Bharath Prithiviraj Patrick K H Lee Agnieszka Chmielarczyk Anna Różańska Yongxiang Zhao Lan Wang Christopher E Mason Tieliu Shi Center for Bioinformatics and Computational Biology and the Institute of Biomedical SciencesSchool of Life SciencesEast China Normal UniversityShanghai 200241China Department of Biology Program on Disease EvolutionUniversity of LouisvilleLouisville 40292USA Weill Cornell Medicine New York 10065USA The Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine New York 10065USA Department of Pulmonary Medicine Shanghai Chest HospitalShanghai Jiao Tong UniversityShanghai 200025China i3S-Instituto de Investiga玢o e Inova玢o em Saúde Universidade do PortoPorto 4050-290Portugal Ipatimup-Instituto de Patologia e Imunologia Molecular da Universidade do Porto Porto 4200-465Portugal Departamento de Biologia Faculdade de CiênciasUniversidade do PortoPorto 4050-290Portugal High Performance and Cloud Computing Group Zentrum für Datenverarbeitung(ZDV)Eberhard Karls University of TübingenW鋍hterstra遝7672074TübingenGermany Corporación Corpogen Research Center Bogotá110311Colombia Applied Environmental Metagenomics and Infectious Diseases Research(AEMIDR) Department of Biological SciencesElizade UniversityIlara-Mokin 340271Nigeria Maopolska Centre of Biotechnology Jagiellonian UniversityKraków 30-005Poland Aix-Marseille Université Mediterranean Institute of OceanologyUniversitéde ToulonCNRSIRDUM 110Marseille 83041France Department of Biological Sciences and Biotechnology Faculty of Science and TechnologyUniversiti Kebangsaan Malaysia43600 UKM BangiSelangor Institut Pasteur Korea Seoul 13488Republic of Korea Faculty of Environment and Information Studies Keio UniversityFujisawaKanagawa 252-0882Japan University of Colorado at Boulder CivilEnvironmental and Architectural DepartmentBoulder 80303USA Brooklyn College of the City University of New York Brooklyn 11210USA School of Energy and Environment City University of Hong KongHong Kong 999077China Department of Microbiology Faculty of MedicineJagiellonian UniversityKraków 30-005Poland Biological Targeting Diagnosis and The

Antimicrobial resistance(AMR)poses a critical threat to global health and development,with environmental factors—particularly in urban areas—contributing significantly to the spread of antibiotic resistance genes(ARGs).However,most research to date has been conducted at a local level,leaving significant gaps in our understanding of the global status of antibiotic resistance in urban *** address this issue,we thoroughly analyzed a total of 86,213 ARGs detected within 4,728 metagenome samples,which were collected by the Meta SUB International Consortium involving diverse urban environments in 60 cities of 27 countries,utilizing a deep-learning based *** findings demonstrated the strong geographical specificity of urban environmental resistome,and their correlation with various local socioeconomic and medical *** also identified distinctive evolutionary patterns of ARG-related biosynthetic gene clusters(BGCs)across different countries,and discovered that the urban environment represents a rich source of novel *** study provides a comprehensive overview of the global urban environmental resistome,and fills a significant gap in our knowledge of large-scale urban antibiotic resistome analysis.

关键词： urban environment metagenome antibiotic resistance resistance diversity biosynthetic gene clusters

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Local and global measures of the shear moduli of jammed disk packings

arXiv

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arXiv 2023年

作者： Zhang, Shiyun Jin, Weiwei Wang, Dong Xu, Ding Zhang, Jerry Shattuck, Mark D. O’Hern, Corey S. Department of Physics University of Science and Technology of China Anhui Hefei230026 China Department of Mechanical Engineering and Materials Science Yale University New HavenCT06520 United States Benjamin Levich Institute and Physics Department The City College of New York New YorkNY10031 United States Department of Physics Yale University New HavenCT06520 United States Department of Applied Physics Yale University New HavenCT06520 United States Graduate Program in Computational Biology and Bioinformatics Yale University New HavenCT06520 United States

Strain-controlled isotropic compression gives rise to jammed packings of repulsive, frictionless disks with either positive or negative global shear moduli. We carry out computational studies to understand the contributions of the negative shear moduli to the mechanical response of jammed disk packings. We first decompose the ensemble-averaged, global shear modulus as hGi = (1 − F−)hG+i + F−hG−i, where F− is the fraction of jammed packings with negative shear moduli and hG+i and hG−i are the average values from packings with positive and negative moduli, respectively. We show that hG+i and h|G−|i obey different power-law scaling relations above and below pN2 ∼ 1. For pN2 > 1, both hG+iN and h|G−|iN ∼ (pN2)β, where β ∼ 0.5 for repulsive linear spring interactions. Despite this, hGiN ∼ (pN2)β0 with β0 & 0.5 due to the contributions from packings with negative shear moduli. We show further that the probability distribution of global shear moduli P(G) collapses at fixed pN2 and different values of p and N. We calculate analytically that P(G) is a Gamma distribution in the pN2 1 limit. As pN2 increases, the skewness of P(G) decreases and P(G) becomes a skew-normal distribution with negative skewness in the pN2 1 limit. We also partition jammed disk packings into subsystems using Delanunay triangulation of the disk centers to calculate local shear moduli. We show that the local shear moduli defined from groups of adjacent triangles can be negative even when G > 0. The spatial correlation function of local shear moduli C(~r) displays weak correlations for pn2sub −2, where nsub is the number of particles within each subsystem. However, C(~r) begins to develop long-ranged spatial correlations with four-fold angular symmetry for pn2sub & 10−2 © 2023, CC BY-NC-ND.

关键词： Elastic moduli

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Simultaneous biomonitoring of volatile organic compounds’ metabolites in human urine samples using a novel in-syringe based fast urinary metabolites extraction (FaUMEx) technique coupled with UHPLC-MS/MS analysis

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Chemosphere 2023年第1期329卷 138667页

作者： Gurrani, Swapnil Prakasham, Karthikeyan Huang, Po-Chin Wu, Ming-Tsang Wu, Chia-Fang Lin, Yu-Chia Tsai, Bongee Krishnan, Anbarasu Tsai, Pei-Chien Ponnusamy, Vinoth Kumar Kaohsiung City807 Taiwan Miaoli County 35053 Taiwan Department of Medical Research China Medical University Hospital China Medical University Taichung City Taiwan Kaohsiung City807 Taiwan Department of Public Health Kaohsiung Medical University Kaohsiung City Taiwan International Master Program of Translational Medicine College of Engineering and Science National United University Miaoli Taiwan Corporation No.392 Yucheng Rd. Zuoying District. Kaohsiung City813 Taiwan Department of Computational Biology Institute of Bioinformatics Saveetha School of Engineering Saveetha Institute of Medical and Technical Sciences Saveetha University Chennai602105 India Kaohsiung City807 Taiwan Kaohsiung City807 Taiwan

Assessing the impact of human exposure to environmental toxicants is often crucial to biomonitoring the exposed dose. In this work, we report a novel fast urinary metabolites extraction (FaUMEx) technique coupled with UHPLC-MS/MS analysis for the highly sensitive and simultaneous biomonitoring of the five major urinary metabolites (thiodiglycolic acid, s-phenylmercapturic acid, t,t-muconic acid, mandelic acid, and phenyl glyoxylic acid) of common volatile organic compounds' (VOCs) exposure (vinyl chloride, benzene, styrene, and ethylbenzene) in human. FaUMEx technique comprises of two-steps, liquid-liquid microextraction was performed first in an extraction syringe using 1 mL of methanol (pH 3) as an extraction solvent and then, the extractant was passed through a clean-up syringe (pre-packed-with various sorbents including 500 mg anhydrous MgSO4, 50 mg C18, and 50 mg SiO2) to obtain the high order of matrice clean-up and preconcentration efficiency. The developed method displayed excellent linearity, and the correlation coefficients were >0.998 for all the target metabolites with detection and quantification limits of 0.02–0.24 ng mL−1 and 0.05–0.72 ng mL−1, respectively. Furthermore, the matrix effects were © 2023 Elsevier Ltd

关键词： Metabolites

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