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Global and risk-group stratified well-being and mental health during the COVID-19 pandemic in adults: Results from the international COH-FIT Study

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Psychiatry Research 2024年 342卷 115972-115972页

作者： Solmi, Marco Thompson, Trevor Estradé, Andrés Agorastos, Agorastos Radua, Joaquim Cortese, Samuele Dragioti, Elena Vancampfort, Davy Thygesen, Lau Caspar Aschauer, Harald Schlögelhofer, Monika Aschauer, Elena Schneeberger, Andres Huber, Christian G. Hasler, Gregor Conus, Philippe Cuénod, Kim Q. Do von Känel, Roland Arrondo, Gonzalo Fusar-Poli, Paolo Gorwood, Philip Llorca, Pierre-Michel Krebs, Marie-Odile Scanferla, Elisabetta Kishimoto, Taishiro Rabbani, Golam Skonieczna-Żydecka, Karolina Brambilla, Paolo Favaro, Angela Takamiya, Akihiro Zoccante, Leonardo Colizzi, Marco Bourgin, Julie Kamiński, Karol Moghadasin, Maryam Seedat, Soraya Matthews, Evan Wells, John Vassilopoulou, Emilia Gadelha, Ary Su, Kuan-Pin Kwon, Jun Soo Kim, Minah Lee, Tae Young Papsuev, Oleg Manková, Denisa Boscutti, Andrea Gerunda, Cristiano Saccon, Diego Righi, Elena Monaco, Francesco Croatto, Giovanni Cereda, Guido Demurtas, Jacopo Brondino, Natascia Veronese, Nicola Enrico, Paolo Politi, Pierluigi Ciappolino, Valentina Pfennig, Andrea Bechdolf, Andreas Meyer-Lindenberg, Andreas Kahl, Kai G. Domschke, Katharina Bauer, Michael Koutsouleris, Nikolaos Winter, Sibylle Borgwardt, Stefan Bitter, Istvan Balazs, Judit Czobor, Pál Unoka, Zsolt Mavridis, Dimitris Tsamakis, Konstantinos Bozikas, Vasilios P. Tunvirachaisakul, Chavit Maes, Michael Rungnirundorn, Teerayuth Supasitthumrong, Thitiporn Haque, Ariful Brunoni, Andre R. Costardi, Carlos Gustavo Schuch, Felipe Barreto Polanczyk, Guilherme Luiz, Jhoanne Merlyn Fonseca, Lais Aparicio, Luana V. Valvassori, Samira S. Nordentoft, Merete Vendsborg, Per Hoffmann, Sofie Have Sehli, Jihed Sartorius, Norman Heuss, Sabina Guinart, Daniel Hamilton, Jane Kane, John Rubio, Jose Sand, Michael Koyanagi, Ai Solanes, Aleix Andreu-Bernabeu, Alvaro Cáceres, Antonia San José Arango, Celso Díaz-Caneja, Covadonga M. Hidalgo-Mazzei, Diego Vieta, Eduard Gonzalez-Peñas, Javier Fortea, Lydia Parellada, Mara Fullana, Miquel A. Verdolini, Norma Andrlíková, Eva Janků, Karolina Millan, Mark J. Honciuc, Mihaela Moniuszko-Mal University of Ottawa Department of Psychiatry ON Canada The Ottawa Hospital Department of Mental Health ON Canada Ottawa Hospital Research Institute (OHRI) Neurosciences Program Ottawa Ontario Canada Early Psychosis: Interventions and Clinical-detection (EPIC) Lab Department of Psychosis Studies Institute of Psychiatry Psychology & Neuroscience King's College London London United Kingdom Centre for Innovation in Mental Health-Developmental Lab School of Psychology University of Southampton and NHS Trust Southampton United Kingdom Charité Universitätsmedizin Berlin Department of Child and Adolescent Psychiatry Berlin Germany Centre for Chronic Illness and Ageing University of Greenwich London United Kingdom University of Southampton Centre for Innovation in Mental Health Southampton United Kingdom Universidad Católica Department of Psychology Montevideo Uruguay Aristotle University of Thessaloniki II. Dept. of Psychiatry Division of Neurosciences Medical School Faculty of Health Sciences Greece Institut d'Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS) Imaging of Mood- and Anxiety-Related Disorders (IMARD) University of Barcelona CIBERSAM Instituto de Salud Carlos III Barcelona Spain Karolinska Institutet Centre for Psychiatric Research and Education Department of Clinical Neuroscience Stockholm Sweden Linköping University Pain and Rehabilitation Centre and Department of Health Medicine and Caring Sciences Linköping Sweden University of Ioannina Research Laboratory Psychology of Patients Families & Health Professionals Department of Nursing School of Health Sciences Ioannina Greece Katholieke Universiteit Leuven (KU Leuven) Department of Rehabilitation Sciences Leuven Belgium National Institute of Public Health University of Southern Denmark Denmark BioPsyC - Biopsychosocial Corporation Non-profit association for Research Funding Ltd. Vienna Austria University of California San Diego California United States University of Basel Universitä

International studies measuring wellbeing/multidimensional mental health before/ during the COVID-19 pandemic, including representative samples for >2 years, identifying risk groups and coping strategies are lacking. COH-FIT is an online, international, anonymous survey measuring changes in well-being (WHO-5) and a composite psychopathology P-score, and their associations with COVID-19 deaths/restrictions, 12 a-priori defined risk individual/cumulative factors, and coping strategies during COVID-19 pandemic (26/04/2020-26/06/2022) in 30 languages (representative, weighted non-representative, adults). T-test, χ², penalized cubic splines, linear regression, correlation analyses were conducted. Analyzing 121,066/142,364 initiated surveys, WHO-5/P-score worsened intra-pandemic by 11.1±21.1/13.2±17.9 points (effect size d=0.50/0.60) (comparable results in representative/weighted non-probability samples). Persons with WHO-5 scores indicative of depression screening (<50, 13% to 32%) and major depression (<29, 3% to 12%) significantly increased. WHO-5 worsened from those with mental disorders, female sex, COVID-19-related loss, low-income country location, physical disorders, healthcare worker occupations, large city location, COVID-19 infection, unemployment, first-generation immigration, to age=18-29 with a cumulative effect. Similar findings emerged for P-score. Changes were significantly but minimally related to COVID-19 deaths, returning to near-pre-pandemic values after >2 years. The most subjectively effective coping strategies were exercise and walking, internet use, social contacts. Identified risk groups, coping strategies and outcome trajectories can inform global public health strategies. © 2024 The Authors

关键词： Covid-19 Mental health P-factor Pandemic Psychiatry Psychopathology Survey Well-being WHO-5

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Standards of Care for the health of Transgender and Gender Diverse People, Version 8 (vol 23, pg S1, 2022)

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INTERNATIONAL JOURNAL OF TRANSGENDER health 2022年第Suppl 1期23卷 S259-S261页

作者： Coleman, E. Radix, A. E. Bouman, W. P. Brown, G. R. de Vries, A. L. C. Deutsch, M. B. Ettner, R. Fraser, L. Goodman, M. Green, J. Hancock, A. B. Johnson, T. W. Karasic, D. H. Knudson, G. A. Leibowitz, S. F. Meyer-Bahlburg, H. F. L. Monstrey, S. J. Motmans, J. Nahata, L. Arcelus, J. Institute for Sexual and Gender Health Department of Family Medicine and Community Health University of Minnesota Medical School Minneapolis MN USA Callen-Lorde Community Health Center New York NY USA Department of Medicine NYU Grossman School of Medicine New York NY USA Nottingham Centre for Transgender Health Nottingham UK School of Medicine University of Nottingham Nottingham UK James H. Quillen College of Medicine East Tennessee State University Johnson City TN USA James H. Quillen VAMC Johnson City TN USA Department of Child and Adolescent Psychiatry Amsterdam UMC Location Vrije Universiteit Amsterdam Amsterdam Netherlands Center of Expertise on Gender Dysphoria Amsterdam UMC Location Vrije Universiteit Amsterdam Amsterdam The Netherlands Department of Family & Community Medicine University of California-San Francisco San Francisco CA USA UCSF Gender Affirming Health Program San Francisco CA USA New Health Foundation Worldwide Evanston IL USA Weiss Memorial Hospital Chicago IL USA Independent Practice San Francisco CA USA Emory University Rollins School of Public Health Atlanta GA USA Independent Scholar Vancouver WA USA The George Washington University Washington DC USA Department of Anthropology California State University Chico CA USA University of California San Francisco San Francisco CA USA Independent Practice at *** University of British Columbia Vancouver Canada Vancouver Coastal Health Vancouver Canada Ann & Robert H. Lurie Children's Hospital of Chicago Chicago IL USA New York State Psychiatric Institute New York NY USA Department of Psychiatry Columbia University New York NY USA Ghent University Hospital Gent Belgium Transgender Infopunt Ghent University Hospital Gent Belgium Centre for Research on Culture and Gender Ghent University Gent Belgium Department of Pediatrics The Ohio State University College of Medicine Columbus OH USA Endocrinology and Center for Biobehavioral Health The Abigail Wexner Research

Background: Transgender healthcare is a rapidly evolving interdisciplinary field. In the last decade, there has been an unprecedented increase in the number and visibility of transgender and gender diverse (TGD) people seeking support and gender-affirming medical treatment in parallel with a significant rise in the scientific literature in this area. The World Professional Association for Transgender health (WPATH) is an international, multidisciplinary, professional association whose mission is to promote evidence-based care, education, research, public policy, and respect in transgender health. One of the main functions of WPATH is to promote the highest standards of health care for TGD people through the Standards of Care (SOC). The SOC was initially developed in 1979 and the last version (SOC-7) was published in 2012. In view of the increasing scientific evidence, WPATH commissioned a new version of the Standards of Care, the SOC-8. Aim: The overall goal of SOC-8 is to provide health care professionals (HCPs) with clinical guidance to assist TGD people in accessing safe and effective pathways to achieving lasting personal comfort with their gendered selves with the aim of optimizing their overall physical health, psychological well-being, and self-fulfillment. Methods: The SOC-8 is based on the best available science and expert professional consensus in transgender health. International professionals and stakeholders were selected to serve on the SOC-8 committee. Recommendation statements were developed based on data derived from independent systematic literature reviews, where available, background reviews and expert opinions. Grading of recommendations was based on the available evidence supporting interventions, a discussion of risks and harms, as well as the feasibility and acceptability within different contexts and country settings. Results: A total of 18 chapters were developed as part of the SOC-8. They contain recommendations for health care professiona

关键词： adolescents assessment children communication education endocrinology eunuch gender diverse health care professional institutional settings intersex mental health nonbinary population postoperative care primary care reproductive health sexual health SOC8 Standards of Care surgery terminology transgender voice

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Proceedings of the 8th Annual Conference on the Science of Dissemination and Implementation : Washington, DC, USA. 14-15 December 2015

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Implementation science : IS 2016年第2期11 Suppl 2卷 100页

作者： Chambers, David Simpson, Lisa Hill-Briggs, Felicia Neta, Gila Vinson, Cynthia Beidas, Rinad Marcus, Steven Aarons, Gregory Hoagwood, Kimberly Schoenwald, Sonja Evans, Arthur Hurford, Matthew Rubin, Ronnie Hadley, Trevor Barg, Frances Walsh, Lucia Adams, Danielle Mandell, David Martin, Lindsey Mignogna, Joseph Mott, Juliette Hundt, Natalie Kauth, Michael Kunik, Mark Naik, Aanand Cully, Jeffrey McGuire, Alan White, Dominique Bartholomew, Tom McGrew, John Luther, Lauren Rollins, Angie Salyers, Michelle Cooper, Brittany Funaiole, Angie Richards, Julie Lee, Amy Lapham, Gwen Caldeiro, Ryan Lozano, Paula Gildred, Tory Achtmeyer, Carol Ludman, Evette Addis, Megan Marx, Larry Bradley, Katharine VanDeinse, Tonya Wilson, Amy Blank Stacey, Burgin Powell, Byron Bunger, Alicia Cuddeback, Gary Barnett, Miya Stadnick, Nicole Brookman-Frazee, Lauren Lau, Anna Dorsey, Shannon Pullmann, Michael Mitchell, Shannon Schwartz, Robert Kirk, Arethusa Dusek, Kristi Oros, Marla Hosler, Colleen Gryczynski, Jan Barbosa, Carolina Dunlap, Laura Lounsbury, David O’Grady, Kevin Brown, Barry Damschroder, Laura Waltz, Thomas Ritchie, Mona Atkins, David Imel, Zac E. Xiao, Bo Can, Doğan Georgiou, Panayiotis Narayanan, Shrikanth Berkel, Cady Gallo, Carlos Sandler, Irwin Brown, C. Hendricks Wolchik, Sharlene Mauricio, Anne Marie Mehrotra, Sanjay Chandurkar, Dharmendra Bora, Siddhartha Das, Arup Tripathi, Anand Saggurti, Niranjan Raj, Anita Hughes, Eric Jacobs, Brian Kirkendall, Eric Loeb, Danielle Trinkley, Katy Yang, Michael Sprowell, Andrew Nease, Donald Lyon, Aaron Lewis, Cara Boyd, Meredith Melvin, Abigail Nicodimos, Semret Liu, Freda Jungbluth, Nathanial Flynn, Allen Landis-Lewis, Zach Sales, Anne Baloh, Jure Ward, Marcia Zhu, Xi Bennett, Ian Unutzer, Jurgen Mao, Johnny Proctor, Enola Vredevoogd, Mindy Chan, Ya-Fen Williams, Nathaniel Green, Phillip Bernstein, Steven Rosner, June-Marie DeWitt, Michelle Tetrault, Jeanette Dziura, James Hsiao, Allen Sussman, Scott O’Connor, Patrick Toll, Benjamin Jones, Michael Gassaway, Julie Tobin, Jonathan Zatzic Division of Cancer Control and Population Sciences National Cancer Institute National Institutes of Health Rockville USA AcademyHealth Washington USA Department of Medicine and Welch Center for Prevention Epidemiology and Clinical Research Johns Hopkins Medical Institutions Baltimore USA Psychiatry University of Pennsylvania Philadelphia USA Family Medicine and Community Health University of Pennsylvania Philadelphia USA School of Social Policy and Practice University of Pennsylvania Philadelphia USA Psychiatry UC San Diego La Jolla USA Child & Adolescent Psychiatry The Child Study Center at NYU Langone Medical Center New York NY New York USA Psychiatry and Behavioral Sciences MUSC Charleston USA DBHIDS City of Philadelphia Philadelphia USA CBH City of Philadelphia Philadelphia USA Psychiatry University of Pennsylvania Perelman School of Medicine Philadelphia USA Health Services Research & Development Department of Veterans Affairs & Baylor College of Medicine Houston USA Treatment Core Department of Veterans Affairs Waco USA National Center for PTSD Executive Division Department of Veterans Affairs White River Junction USA HSR&D HSR&D Center for Health Information and Communication Roudebush VA Medical Center Indianapolis USA Psychology Indiana University Purdue University Indianapolis Indianapolis USA Department of Psychiatric Rehabilitation and Counseling Rutgers University Newark USA Health Services Research & Development Richard L. Roudebush VAMC Indianapolis USA IUPUI Department of Psychology ACT Center of Indiana Indianapolis USA Human Development Washington State University Pullman USA Prevention Science Washington State University Pullman USA Group Health Research Institute Group Health Seattle USA Behavioral Health Services Group Health Seattle USA Preventive Care Group Health Seattle USA Health Services Research & Development Primary and Specialty Medical Care Service VA Puget Sound Seattle USA School of Social Work Un

A1 Introduction to the 8th Annual Conference on the Science of Dissemination and Implementation: Optimizing Personal and Population health David Chambers, Lisa Simpson D1 Discussion forum: Population health D&I research Felicia Hill-Briggs D2 Discussion forum: Global health D&I research Gila Neta, Cynthia Vinson D3 Discussion forum: Precision medicine and D&I research David Chambers S1 Predictors of community therapists’ use of therapy techniques in a large public mental health system Rinad Beidas, Steven Marcus, Gregory Aarons, Kimberly Hoagwood, Sonja Schoenwald, Arthur Evans, Matthew Hurford, Ronnie Rubin, Trevor Hadley, Frances Barg, Lucia Walsh, Danielle Adams, David Mandell S2 Implementing brief cognitive behavioral therapy (CBT) in primary care: Clinicians' experiences from the field Lindsey Martin, Joseph Mignogna, Juliette Mott, Natalie Hundt, Michael Kauth, Mark Kunik, Aanand Naik, Jeffrey Cully S3 Clinician competence: Natural variation, factors affecting, and effect on patient outcomes Alan McGuire, Dominique White, Tom Bartholomew, John McGrew, Lauren Luther, Angie Rollins, Michelle Salyers S4 Exploring the multifaceted nature of sustainability in community-based prevention: A mixed-method approach Brittany Cooper, Angie Funaiole S5 Theory informed behavioral health integration in primary care: Mixed methods evaluation of the implementation of routine depression and alcohol screening and assessment Julie Richards, Amy Lee, Gwen Lapham, Ryan Caldeiro, Paula Lozano, Tory Gildred, Carol Achtmeyer, Evette Ludman, Megan Addis, Larry Marx, Katharine Bradley S6 Enhancing the evidence for specialty mental health probation through a hybrid efficacy and implementation study Tonya VanDeinse, Amy Blank Wilson, Burgin Stacey, Byron Powell, Alicia Bunger, Gary Cuddeback S7 Personalizing evidence-based child mental health care within a fiscally mandated policy reform Miya Barnett, Nicole Stadnick, Lauren Brookman-Frazee, Anna Lau S8 Leveraging an existing

关键词： Veteran Affair Motivational Interview Qualitative Comparative Analysis Community That Care Supplemental Nutrition Assistance program

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International Society for Extracellular Vesicles workshop. QuantitatEVs: Multiscale analyses, from bulk to single extracellular vesicle

Journal of Extracellular Biology

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Journal of Extracellular Biology 2024年第1期3卷 e137页

作者： Basso, Manuela Gori, Alessandro Nardella, Caterina Palviainen, Mari Holcar, Marija Sotiropoulos, Ioannis Bobis-Wozowicz, Sylwia Casarotto, Elena Ciani, Yari Suetsugu, Shiro Gualerzi, Alice Martin-Jaular, Lorena Boselli, Daniela Kashkanova, Anna Parisse, Pietro Lippens, Lien Pagliuca, Martina Blessing, Martin Frigerio, Roberto Fourniols, Thibaut Meliciano, Ana Fietta, Anna Fioretti, Paolo Vincenzo Soroczyńska, Karolina Picciolini, Silvia Salviano-Silva, Amanda Bergese, Paolo Zocco, Davide Chiari, Marcella Jenster, Guido Waldron, Levi Milosavljevic, Aleksandar Nolan, John Monopoli, Marco P. Witwer, Kenneth W. Bussolati, Benedetta Di Vizio, Dolores Falcon Perez, Juan Lenassi, Metka Cretich, Marina Demichelis, Francesca Department of Cellular Computational and Integrative Biology (CIBIO) University of Trento Trento Italy National Research Council of Italy Istituto di Scienze e Tecnologie Chimiche (SCITEC-CNR) Milan Italy EV group Molecular and Integrative Biosciences Research Program Faculty of Biological and Environmental Sciences University of Helsinki Helsinki Finland Institute of Biochemistry and Molecular Genetics Faculty of Medicine University of Ljubljana Ljubljana Slovenia Institute of Biosciences & Applications National Center for Scientific Research (NCSR) Demokritos Paraskevi Greece Faculty of Biochemistry Biophysics and Biotechnology Department of Cell Biology Jagiellonian University Krakow Poland Dipartimento di Scienze Farmacologiche e Biomolecolari “Rodolfo Paoletti” (DiSFeB) Dipartimento di Eccellenza Università degli Studi di Milano Milan Italy Division of Biological Science Graduate School of Science and Technology Nara Institute of Science and Technology Ikoma Japan IRCCS Fondazione Don Carlo Gnocchi Milan Italy Institut Curie PSL University Inserm U932 Immunity and Cancer Paris France FRACTAL (Flow Cytometry Resource Advanced Cytometry Technical Applications Laboratory) San Raffaele Scientific Institute Milan Italy Max Planck Institute for the Science of Light Erlangen Germany National Research Council of Italy Istituto Officina dei Materiali (IOM-CNR) Trieste Italy Department of Human Structure and Repair Laboratory of Experimental Cancer Research Ghent University Ghent Belgium Cancer Research Institute Ghent Ghent Belgium Molecular Predictors and New Targets in Oncology Gustave Roussy Villejuif France Clinical and Translational Oncology Scuola Superiore Meridionale Naples Italy EverZom Paris France iBET-Instituto de Biologia Experimental e Tecnológica Oeiras Portugal Department of Biomedical Sciences (DSB) University of Padua Padua Italy Fondazione Istituto di Ricerca Pediatrica Città della Speranza (IRP) Padua Italy Medical University of

The “QuantitatEVs: multiscale analyses, from bulk to single vesicle” workshop aimed to discuss quantitative strategies and harmonized wet and computational approaches toward the comprehensive analysis of extracellular vesicles (EVs) from bulk to single vesicle analyses with a special focus on emerging technologies. The workshop covered the key issues in the quantitative analysis of different EV-associated molecular components and EV biophysical features, which are considered the core of EV-associated biomarker discovery and validation for their clinical translation. The in-person-only workshop was held in Trento, Italy, from January 31^st to February 2^nd, 2023, and continued in Milan on February 3^rd with “Next Generation EVs,” a satellite event dedicated to early career researchers (ECR). This report summarizes the main topics and outcomes of the workshop. © 2024 The Authors. Journal of Extracellular Biology published by Wiley Periodicals LLC on behalf of International Society for Extracellular Vesicles.

关键词： multiomics analysis multiscale analysis quantitative biology single vesicle

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Publisher Correction: Live cell tagging tracking and isolation for spatial transcriptomics using photoactivatable cell dyes

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Nature communications 2021年第1期12卷 5361页

作者： Alex S Genshaft Carly G K Ziegler Constantine N Tzouanas Benjamin E Mead Alex M Jaeger Andrew W Navia Ryan P King Miyeko D Mana Siyi Huang Vanessa Mitsialis Scott B Snapper Ömer H Yilmaz Tyler Jacks Jeffrey F Van Humbeck Alex K Shalek Institute for Medical Engineering & Science MIT Cambridge MA USA. Department of Chemistry MIT Cambridge MA USA. Koch Institute for Integrative Cancer Research MIT Cambridge MA USA. The Ragon Institute of MGH MIT and Harvard Cambridge MA USA. Broad Institute of MIT and Harvard Cambridge MA USA. Harvard-MIT Program in Health Sciences and Technology Harvard Medical School Cambridge MA USA. Department of Immunology & HMS Center for Immune Imaging Harvard Medical School Boston MA USA. Division of Gastroenterology Hepatology and Nutrition Boston Children's Hospital Boston MA USA. Division of Gastroenterology Brigham and Women's Hospital Boston MA USA. Department of Biology Massachusetts Institute of Technology Cambridge MA USA. Department of Pathology Massachusetts General Hospital and Harvard Medical School Boston MA USA. Howard Hughes Medical Institute Chevy Chase MD USA. Department of Chemistry University of Calgary Calgary AB Canada. Institute for Medical Engineering & Science MIT Cambridge MA USA. shalek@mit.edu. Department of Chemistry MIT Cambridge MA USA. shalek@mit.edu. Koch Institute for Integrative Cancer Research MIT Cambridge MA USA. shalek@mit.edu. The Ragon Institute of MGH MIT and Harvard Cambridge MA USA. shalek@mit.edu. Broad Institute of MIT and Harvard Cambridge MA USA. shalek@mit.edu. Harvard-MIT Program in Health Sciences and Technology Harvard Medical School Cambridge MA USA. shalek@mit.edu.

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QU-BraTS: MICCAI BraTS 2020 Challenge on Quantifying Uncertainty in Brain Tumor Segmentation - Analysis of Ranking Scores and Benchmarking Results

arXiv

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arXiv 2021年

作者： Mehta, Raghav Filos, Angelos Baid, Ujjwal Sako, Chiharu McKinley, Richard Rebsamen, Michael Dätwyler, Katrin Meier, Raphael Radojewski, Piotr Murugesan, Gowtham Krishnan Nalawade, Sahil Ganesh, Chandan Wagner, Ben Yu, Fang F. Fei, Baowei Madhuranthakam, Ananth J. Maldjian, Joseph A. Daza, Laura Gómez, Catalina Arbeláez, Pablo Dai, Chengliang Wang, Shuo Reynaud, Hadrien Mo, Yuanhan Angelini, Elsa Guo, Yike Bai, Wenjia Banerjee, Subhashis Pei, Linmin Murat, A.K. Rosas-González, Sarahi Zemmoura, Ilyess Tauber, Clovis Vu, Minh H. Nyholm, Tufve Löfstedt, Tommy Ballestar, Laura Mora Vilaplana, Veronica McHugh, Hugh Talou, Gonzalo Maso Wang, Alan Patel, Jay Chang, Ken Hoebel, Katharina Gidwani, Mishka Arun, Nishanth Gupta, Sharut Aggarwal, Mehak Singh, Praveer Gerstner, Elizabeth R. Kalpathy-Cramer, Jayashree Boutry, Nicolas Huard, Alexis Vidyaratne, Lasitha Rahman, md Monibor Iftekharuddin, Khan M. Chazalon, Joseph Puybareau, Elodie Tochon, Guillaume Ma, Jun Cabezas, Mariano Llado, Xavier Oliver, Arnau Valencia, Liliana Valverde, Sergi Amian, Mehdi Soltaninejad, Mohammadreza Myronenko, Andriy Hatamizadeh, Ali Feng, Xue Dou, Quan Tustison, Nicholas Meyer, Craig Shah, Nisarg A. Talbar, Sanjay Weber, Marc-André Mahajan, Abhishek Jakab, Andras Wiest, Roland Fathallah-Shaykh, Hassan M. Nazeri, Arash Milchenko, Mikhail Marcus, Daniel Kotrotsou, Aikaterini Colen, Rivka Freymann, John Kirby, Justin Davatzikos, Christos Menze, Bjoern Bakas, Spyridon Gal, Yarin Arbel, Tal McGill University MontrealQC Canada Group University of Oxford Oxford United Kingdom University of Pennsylvania PhiladelphiaPA United States Department of Radiology Perelman School of Medicine The University of Pennsylvania PhiladelphiaPA United States Department of Pathology and Laboratory Medicine Perelman School of Medicine University of Pennsylvania PhiladelphiaPA United States University Institute of Diagnostic and Interventional Neuroradiology University of Bern Inselspital Bern University Hospital Bern Switzerland Department of Radiology University of Texas Southwestern Medical Center DallasTX United States Department of Bioengineering University of Texas DallasTX United States Advanced Imaging Research Center University of Texas Southwestern Medical Center DallasTX United States Universidad de los Andes Bogotá Colombia Data Science Institute Imperial College London London United Kingdom NIHR Imperial BRC ITMAT Data Science Group Imperial College London London United Kingdom Department of Brain Sciences Imperial College London London United Kingdom Machine Intelligence Unit Indian Statistical Institute Kolkata India Department of CSE University of Calcutta Kolkata India Department of Information Technology Uppsala University Uppsala Sweden Department of Diagnostic Radiology The University of Pittsburgh Medical Center PittsburghPA United States UMR U1253 iBrain Université de Tours Inserm Tours France Department of Radiation Sciences Umeå University Umeå Sweden Department of Computing Science Umeå University Umeå Sweden Signal Theory and Communications Department Universitat Politècnica de Catalunya Barcelona Tech Barcelona Spain Faculty of Medical and Health Sciences University of Auckland Auckland New Zealand Radiology Department Auckland City Hospital Auckland New Zealand Auckland Bioengineering Institute University of Auckland New Zealand Athinoula A. Martinos Center for Biomedical Imaging Department of Radiology

Deep learning (DL) models have provided state-of-the-art performance in various medical imaging benchmarking challenges, including the Brain Tumor Segmentation (BraTS) challenges. However, the task of focal pathology multi-compartment segmentation (e.g., tumor and lesion sub-regions) is particularly challenging, and potential errors hinder translating DL models into clinical workflows. Quantifying the reliability of DL model predictions in the form of uncertainties could enable clinical review of the most uncertain regions, thereby building trust and paving the way toward clinical translation. Several uncertainty estimation methods have recently been introduced for DL medical image segmentation tasks. Developing scores to evaluate and compare the performance of uncertainty measures will assist the end-user in making more informed decisions. In this study, we explore and evaluate a score developed during the BraTS 2019 and BraTS 2020 task on uncertainty quantification (QU-BraTS) and designed to assess and rank uncertainty estimates for brain tumor multi-compartment segmentation. This score (1) rewards uncertainty estimates that produce high confidence in correct assertions and those that assign low confidence levels at incorrect assertions, and (2) penalizes uncertainty measures that lead to a higher percentage of under-confident correct assertions. We further benchmark the segmentation uncertainties generated by 14 independent participating teams of QU-BraTS 2020, all of which also participated in the main BraTS segmentation task. Overall, our findings confirm the importance and complementary value that uncertainty estimates provide to segmentation algorithms, highlighting the need for uncertainty quantification in medical image analyses. Finally, in favor of transparency and reproducibility, our evaluation code is made publicly available at https://***/RagMeh11/QU-BraTS. © 2021, CC BY.

关键词： Benchmarking

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Correction: Clinical utility of combinatorial pharmacogenomic testing in depression: A Canadian patient- and rater-blinded, randomized, controlled trial

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Translational psychiatry 2022年第1期12卷 214页

作者： Arun K Tiwari Clement C Zai C Anthony Altar Julie-Anne Tanner Paige E Davies Paul Traxler James Li Elizabeth S Cogan Matthew T Kucera Ana Gugila Nicole Braganza Heather Emmerson Gwyneth Zai Daniel J Müller Robert Levitan Stefan Kloiber Zafiris J Daskalakis Benicio N Frey James M Bowen Jean-Eric Tarride Richard Tytus Ranjith Chandrasena Nicholas Voudouris Valerie H Taylor Raymond Tempier Verinder Sharma Akshya Vasudev Peter Dzongowski Lew Pliamm Todd Greenspoon Bryan M Dechairo James L Kennedy Tanenbaum Centre for Pharmacogenetics Neurogenetics Section Molecular Brain Sciences Research Department Campbell Family Mental Health Research Institute Centre for Addiction and Mental Health Toronto ON Canada. Department of Psychiatry University of Toronto Toronto ON Canada. Institute of Medical Science University of Toronto Toronto ON Canada. Laboratory Medicine and Pathobiology University of Toronto Toronto ON Canada. Splice Therapeutics 20271 Goldenrod Lane Lab 2071 Germantown MD 20876 USA. Myriad Neuroscience Mason OH USA. Myriad Genetics Salt Lake City UT USA. Campbell Family Mental Health Research Institute Centre for Addiction and Mental Health Toronto ON Canada. Department of Psychiatry UC San Diego San Diego CA USA. Mood Disorders Treatment and Research Centre and Women's Health Concerns Clinic St Joseph's Healthcare Hamilton Hamilton ON Canada. Department of Psychiatry and Behavioural Neurosciences McMaster University Hamilton ON Canada. Department of Health Research Methods Evidence and Impact Faculty of Health Sciences McMaster University Hamilton Canada. Program for Health System and Technology Evaluation Ted Rogers Centre for Heart Research at Peter Munk Cardiac Centre Toronto General Hospital Research Institute (TGHRI) Hamilton Canada. Toronto Health Economics and Technology Assessment (THETA) Collaborative University Health Network (UHN) Hamilton Canada. Department of Health Research Methods Evidence and Impact (HEI) Faculty of Health Science McMaster University Hamilton ON Canada. Programs for Assessment of Technology in Health (PATH) The Research Institute of St. Joe's Hamilton St. Joseph's Healthcare Hamilton Hamilton ON Canada. Center for Health Economics and Policy Analysis (CHEPA) McMaster University Hamilton Canada. Family Medicine McMaster University Hamilton ON Canada. Chatham-Kent Health Alliance Chatham ON Canada. Thornhill Medical Center Toronto ON Canada. Department of Psychiatry University of Calga

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The repertoire of mutational signatures in human cancer (vol 578, pg 94, 2020)

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NATURE 2023年第7948期614卷 E41-E41页

作者： Alexandrov, Ludmil B. Kim, Jaegil Haradhvala, Nicholas J. Huang, Mi Ni Ng, Alvin Wei Tian Wu, Yang Boot, Arnoud Covington, Kyle R. Gordenin, Dmitry A. Bergstrom, Erik N. Islam, S. M. Ashiqul Lopez-Bigas, Nuria Klimczak, Leszek J. McPherson, John R. Morganella, Sandro Sabarinathan, Radhakrishnan Wheeler, David A. Mustonen, Ville Getz, Gad Rozen, Steven G. Stratton, Michael R. Department of Cellular and Molecular Medicine Department of Bioengineering Moores Cancer Center University of California San Diego CA USA Wellcome Sanger Institute Wellcome Genome Campus Hinxton UK Department of Cellular and Molecular Medicine and Department of Bioengineering University of California San Diego La Jolla CA USA UC San Diego Moores Cancer Center San Diego CA USA University of California San Diego San Diego CA USA Broad Institute of MIT and Harvard Cambridge MA USA Center for Cancer Research Massachusetts General Hospital Boston MA USA Massachusetts General Hospital Boston MA USA Department of Pathology Massachusetts General Hospital Boston MA USA Harvard Medical School Boston MA USA Laboratory for Medical Science Mathematics RIKEN Center for Integrative Medical Sciences Yokohama Japan Computational Biology Program Ontario Institute for Cancer Research Toronto ON Canada Programme in Cancer & Stem Cell Biology Duke-NUS Medical School Singapore Singapore Centre for Computational Biology Duke-NUS Medical School Singapore Singapore Programme in Cancer and Stem Cell Biology Duke-NUS Medical School Singapore Singapore Programme in Cancer and Stem Cell Biology Centre for Computational Biology Duke-NUS Medical School Singapore Singapore SingHealth Duke-NUS Institute of Precision Medicine National Heart Centre Singapore Singapore Singapore Cancer Science Institute of Singapore National University of Singapore Singapore Singapore Institute of Molecular and Cell Biology Singapore Singapore Laboratory of Cancer Epigenome Division of Medical Science National Cancer Centre Singapore Singapore Singapore Duke-NUS Medical School Singapore Singapore Human Genome Sequencing Center Baylor College of Medicine Houston TX USA Dan L. Duncan Cancer Center Baylor College of Medicine Houston TX USA Department of Molecular and Human Genetics Baylor College of Medicine Houston TX USA Genome Integrity and Structural Biology Laboratory National Ins

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The Past, Present, and Future of the Brain Imaging Data Structure (BIDS)

arXiv

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arXiv 2023年

作者： Poldrack, Russell A. Markiewicz, Christopher J. Appelhoff, Stefan Ashar, Yoni K. Auer, Tibor Baillet, Sylvain Bansal, Shashank Beltrachini, Leandro Bénar, Christian G. Bertazzoli, Giacomo Bhogawar, Suyash Blair, Ross W. Bortoletto, Marta Boudreau, Mathieu Brooks, Teon L. Calhoun, Vince D. Castelli, Filippo Maria Clement, Patricia Cohen, Alexander L. Cohen-Adad, Julien D'Ambrosio, Sasha de Hollander, Gilles de la Iglesia-Vayá, María de la Vega, Alejandro Delorme, Arnaud Devinsky, Orrin Draschkow, Dejan Duff, Eugene Paul DuPre, Elizabeth Earl, Eric Esteban, Oscar Feingold, Franklin W. Flandin, Guillaume Galassi, Anthony Gallitto, Giuseppe Ganz, Melanie Gau, Rémi Gholam, James Ghosh, Satrajit S. Giacomel, Alessio Gillman, Ashley G. Gleeson, Padraig Gramfort, Alexandre Guay, Samuel Guidali, Giacomo Halchenko, Yaroslav O. Handwerker, Daniel A. Hardcastle, Nell Herholz, Peer Hermes, Dora Honey, Christopher J. Innis, Robert B. Ioanas, Horea-Ioan Jahn, Andrew Karakuzu, Agah Keator, David B. Kiar, Gregory Kincses, Balint Laird, Angela R. Lau, Jonathan C. Lazari, Alberto Legarreta, Jon Haitz Li, Adam Li, Xiangrui Love, Bradley C. Lu, Hanzhang Maumet, Camille Mazzamuto, Giacomo Meisler, Steven L. Mikkelsen, Mark Mutsaerts, Henk Nichols, Thomas E. Nikolaidis, Aki Nilsonne, Gustav Niso, Guiomar Norgaard, Martin Okell, Thomas W. Oostenveld, Robert Ort, Eduard Park, Patrick J. Pawlik, Mateusz Pernet, Cyril R. Pestilli, Franco Petr, Jan Phillips, Christophe Poline, Jean-Baptiste Pollonini, Luca Raamana, Pradeep Reddy Ritter, Petra Rizzo, Gaia Robbins, Kay A. Rockhill, Alexander P. Rogers, Christine Rokem, Ariel Rorden, Chris Routier, Alexandre Saborit-Torres, Jose Manuel Salo, Taylor Schirner, Michael Smith, Robert E. Spisak, Tamas Sprenger, Julia Swann, Nicole C. Szinte, Martin Takerkart, Sylvain Thirion, Bertrand Thomas, Adam G. Torabian, Sajjad Varoquaux, Gael Voytek, Bradley Welzel, Julius Wilson, Martin Yarkoni, Tal Gorgolewski, Krzysztof J. Department of Psychology Stanford University StanfordCA United States Max Planck Institute for Human Development Berlin Germany University of Colorado Anschutz Medical Campus AuroraCO United States School of Psychology University of Surrey Guildford United Kingdom McConnell Brain Imaging Centre Montréal Neurological Institute McGill University Montréal Canada Department of Bioengineering University of California San Diego La Jolla CA United States School of Physics Astronomy Cardiff University Wales United Kingdom Institut de Neurosciences des Systèmes Marseille France Neurophysiology Lab IRCCS Istituto Centro San Giovanni di Dio Fatebenefratelli Brescia Italy Center for Mind/Brain Sciences - CIMeC University of Trento TN Rovereto Italy Brigham and Women’s Hospital BostonMA United States Massachusetts General Hospital BostonMA United States Harvard Medical School BostonMA United States Rackspace Technology San AntonioTX United States NeuroPoly Lab Polytechnique Montréal MontréalQC Canada Georgia State Georgia Tech Emory AtlantaGA United States University of Florence Sesto Fiorentino Italy Bioretics srl Cesena Italy Department of Medical Imaging Ghent University Hospital Ghent Belgium Department of Diagnostic Sciences Ghent University Ghent Belgium Department of Neurology Boston Children's Hospital BostonMA United States Dipartimento di Scienze della Salute dell'Università degli Studi di Milano Milan Italy Department of Clinical and Experimental Epilepsy University College London United Kingdom Zurich Center for Neuroeconomics Department of Economics University of Zurich Zurich Switzerland UMIB-FISABIO Valencia Spain The University of Texas at Austin AustinTX United States SCCN University of California San Diego La Jolla CA United States Department of Neurology NYU Langone Medical Center New YorkNY United States Department of Experimental Psychology University of Oxford Oxford United Kingdom UK Dementia Research Ins

The Brain Imaging Data Structure (BIDS) is a community-driven standard for the organization of data and metadata from a growing range of neuroscience modalities. This paper is meant as a history of how the standard has developed and grown over time. We outline the principles behind the project, the mechanisms by which it has been extended, and some of the challenges being addressed as it evolves. We also discuss the lessons learned through the project, with the aim of enabling researchers in other domains to learn from the success of BIDS. © 2023, CC BY.

关键词： Data structures

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Patterns of somatic structural variation in human cancer genomes (vol 578, pg 112, 2020)

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NATURE 2023年第7948期614卷 E38-E38页

作者： Li, Yilong Roberts, Nicola D. Wala, Jeremiah A. Shapira, Ofer Schumacher, Steven E. Kumar, Kiran Khurana, Ekta Waszak, Sebastian Korbel, Jan O. Haber, James E. Imielinski, Marcin Weischenfeldt, Joachim Beroukhim, Rameen Campbell, Peter J. Cancer Genome Project Wellcome Trust Sanger Institute Hinxton UK Totient Inc Cambridge MA USA Wellcome Sanger Institute Wellcome Genome Campus Hinxton UK Department of Haematology University of Cambridge Cambridge UK Cambridge University Hospitals NHS Foundation Trust Cambridge UK Korea Advanced Institute of Science and Technology Daejeon South Korea Department of Zoology Genetics and Physical Anthropology University of Santiago de Compostela Santiago de Compostela Spain Centre for Research in Molecular Medicine and Chronic Diseases (CIMUS) University of Santiago de Compostela Santiago de Compostela Spain The Biomedical Research Centre (CINBIO) University of Vigo Vigo Spain Centre for Research in Molecular Medicine and Chronic Diseases (CiMUS) Universidade de Santiago de Compostela Santiago de Compostela Spain Department of Zoology Genetics and Physical Anthropology (CiMUS) Universidade de Santiago de Compostela Santiago de Compostela Spain The Biomedical Research Centre (CINBIO) Universidade de Vigo Vigo Spain The Broad Institute of Harvard and MIT Cambridge MA USA Bioinformatics and Integrative Genomics Harvard University Cambridge MA USA Department of Cancer Biology Dana-Farber Cancer Institute Boston MA USA Broad Institute of MIT and Harvard Cambridge MA USA Department of Medical Oncology Dana-Farber Cancer Institute Boston MA USA Harvard Medical School Boston MA USA Massachusetts General Hospital Center for Cancer Research Charlestown MA USA Dana-Farber Cancer Institute Boston MA USA Department of Biostatistics and Computational Biology Dana-Farber Cancer Institute and Harvard Medical School Boston MA USA Weill Cornell Medical College New York NY USA Department of Physiology and Biophysics Weill Cornell Medicine New York NY USA Institute for Computational Biomedicine Weill Cornell Medicine New York NY USA Controlled Department and Institution New York NY USA Englander Institute for Precision Medicine Weill Cornell Medicine Ne

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