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Author Correction: Disrupting cellular memory to overcome drug resistance

Nature communications 2024年第1期15卷 4264页

作者： Guillaume Harmange Raúl A Reyes Hueros Dylan L Schaff Benjamin Emert Michael Saint-Antoine Laura C Kim Zijian Niu Shivani Nellore Mitchell E Fane Gretchen M Alicea Ashani T Weeraratna M Celeste Simon Abhyudai Singh Sydney M Shaffer Cellular and Molecular Biology Graduate Group Perelman School of Medicine University of Pennsylvania Philadelphia PA USA. Department of Biochemistry and Molecular Biophysics Perelman School of Medicine University of Pennsylvania Philadelphia PA USA. Department of Bioengineering School of Engineering and Applied Sciences University of Pennsylvania Philadelphia PA USA. Division of Biology and Biological Engineering California Institute of Technology Pasadena CA 91125 USA. Department of Electrical and Computer Engineering University of Delaware Newark DE 19716 USA. Abramson Family Cancer Research Institute Perelman School of Medicine University of Pennsylvania Philadelphia PA USA. Department of Chemistry College of the Arts and Sciences University of Pennsylvania Philadelphia PA USA. Department of Physics College of the Arts and Sciences University of Pennsylvania Philadelphia PA USA. Department of Biology College of the Arts and Sciences University of Pennsylvania Philadelphia PA USA. The Wharton School University of Pennsylvania Philadelphia PA USA. Cancer Signaling and Microenvironment Research Program Fox Chase Cancer Center Philadelphia PA USA. Department of Biochemistry and Molecular Biology Johns Hopkins School of Public Health Baltimore MD USA. Sidney Kimmel Cancer Center Johns Hopkins School of Medicine Baltimore MD USA. Department of Cell and Developmental Biology Perelman School of Medicine University of Pennsylvania Philadelphia PA USA. Department of Bioengineering School of Engineering and Applied Sciences University of Pennsylvania Philadelphia PA USA. sydshaffer@***. Department of Pathology Perelman School of Medicine University of Pennsylvania Philadelphia PA USA. sydshaffer@***.

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Neuromatch academy: Teaching computational neuroscience with global accessibility

arXiv

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arXiv 2020年

作者： van Viegen, Tara Akrami, Athena Bonnen, Kate DeWitt, Eric Hyafil, Alexandre Ledmyr, Helena Lindsay, Grace W. Mineault, Patrick Murray, John D. Pitkow, Xaq Puce, Aina Sedigh-Sarvestani, Madineh Stringer, Carsen Achakulvisut, Titipat Alikarami, Elnaz Atay, Melvin Selim Batty, Eleanor Erlich, Jeffrey C. Galbraith, Byron V. Guo, Yueqi Juavinett, Ashley L. Krause, Matthew R. Li, Songting Pachitariu, Marius Straley, Elizabeth Valeriani, Davide Vaughan, Emma Vaziri-Pashkam, Maryam Waskom, Michael L. Blohm, Gunnar Kording, Konrad Schrater, Paul Wyble, Brad Escola, Sean Peters, Megan A.K. Princeton Neuroscience Institute Princeton University PrincetonNJ United States Sainsbury Wellcome Centre University College London London United Kingdom Center for Neural Science New York University New York CityNY United States Champalimaud Research Champalimaud Foundation Lisbon Portugal Centre de Recerca Matemàtica Bellaterra Universitat Autònoma de Barcelona Barcelona Spain International Neuroinformatics Coordinating Facility Sweden Gatsby Computational Neuroscience Unit Sainsbury Wellcome Centre University College London London United Kingdom Department of Psychiatry Yale University New HavenCT United States Baylor College of Medicine Dept. of Neuroscience HoustonTX United States Baylor College of Medicine Center for Neuroscience and Artificial Intelligence HoustonTX United States Rice University Dept of Electrical and Computer Engineering HoustonTX United States Psychological & Brain Sciences Indiana University BloomingtonIN United States Max Planck Florida Institute for Neuroscience JupiterFL United States HHMI Janelia Research Campus AshburnVA United States University of Pennsylvania Dept of Neuroscience and Bioengineering PhiladelphiaPA United States Faculty of dentistry McGill University MontrealQB Canada Middle East Technical University Ankara Turkey Department of Neurobiology Harvard University CambridgeMA United States New York University Shanghai Shanghai China Talla Inc BostonMA United States Johns Hopkins University Department of Biomedical Engineering BaltimoreMD United States Division of Biological Sciences UC San Diego San diegoCA United States Montreal Neurological Institute McGill University MontrealQB Canada School of Mathematical Sciences MOE-LSC Institute of Natural Sciences Shanghai Jiao Tong University Shanghai China Department of Otolaryngology - Head & Neck Surgery Massachusetts Eye and Ear BostonMA United States Department of Otolaryngology - Head & Neck Surgery Harvard Medical School BostonM

Neuromatch Academy designed and ran a fully online 3-week Computational Neuroscience summer school for 1757 students with 191 teaching assistants working in virtual inverted (or flipped) classrooms and on small group projects. Fourteen languages, active community management, and low cost allowed for an unprecedented level of inclusivity and universal accessibility. © 2020, CC BY.

关键词： Python

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International Society for Therapeutic Ultrasound Conference 2016

引用

Journal of Therapeutic Ultrasound 2017年第1期5卷 1-114页

作者： Brian Fowlkes Pejman Ghanouni Narendra Sanghvi Constantin Coussios Paul C. Lyon Michael Gray Christophoros Mannaris Marie de Saint Victor Eleanor Stride Robin Cleveland Robert Carlisle Feng Wu Mark Middleton Fergus Gleeson Jean-Franҫois Aubry Kim Butts Pauly Chrit Moonen Jacob Vortman Shirley Sharabi Dianne Daniels David Last David Guez Yoav Levy Alexander Volovick Javier Grinfeld Itay Rachmilevich Talia Amar Zion Zibly Yael Mardor Sagi Harnof Michael Plaksin Yoni Weissler Shy Shoham Eitan Kimmel Omer Naor Nairouz Farah Dong-Guk Paeng Zhiyuan Xu John Snell Anders H. Quigg Matthew Eames Changzhu Jin Ashli C. Everstine Jason P. Sheehan Beatriz S. Lopes Neal Kassell Thomas Looi Vera Khokhlova Charles Mougenot Kullervo Hynynen James Drake Michael Slayton Richard C. Amodei Keegan Compton Ashley McNelly Daniel Latt John Kearney David Melodelima Aurelien Dupre Yao Chen David Perol Jeremy Vincenot Jean-Yves Chapelon Michel Rivoire Wei Guo Guoxin Ren Guofeng Shen Michael Neidrauer Leonid Zubkov Michael S. Weingarten David J. Margolis Peter A. Lewin Nathan McDannold Jonathan Sutton Natalia Vykhodtseva Margaret Livingstone Thiele Kobus Yong-Zhi Zhang Michael Schwartz Yuexi Huang Nir Lipsman Jennifer Jain Martin Chapman Tejas Sankar Andres Lozano Robert Yeung Christakis Damianou Nikolaos Papadopoulos Omer Brokman Eyal Zadicario Ori Brenner David Castel Shih-Ying Wu Julien Grondin Wenlan Zheng Marc Heidmann Maria Eleni Karakatsani Carlos J. Sierra Sánchez Vincent Ferrera Elisa E. Konofagou Marinos Yiannakou HongSeok Cho Hwayoun Lee Mun Han Jong-Ryul Choi Taekwan Lee Sanghyun Ahn Yongmin Chang Juyoung Park Nicholas Ellens Ari Partanen Keyvan Farahani Raag Airan Alexandre Carpentier Michael Canney Alexandre Vignot Cyril Lafon Jean-yves Delattre Ahmed Idbaih Henrik Odéen Bradley Bolster Eun Kee Jeong Dennis L. Parker Pooja Gaur Xue Feng Samuel Fielden Craig Meyer Beat Werner William Grissom Michael Marx Hans Weber Valentina Taviani Brian Hargreaves Jun Tanaka Kentaro Kikuchi Ayumu Ishijima Takashi Azuma Kosuke Minamihata Satoshi Basic Radiological Sciences Division Department of Radiology University of Michigan Ann Arbor USA Stanford School of Medicine Stanford USA SonaCare Medical Indianapolis USA Institute of Biomedical Engineering University of Oxford Oxford UK HIFU Unit Churchill Hospital Oxford UK Department of Oncology University of Oxford Oxford UK Department of Radiology Churchill Hospital Oxford UK Institut Langevin Paris France Center for Imaging Sciences Imaging Division University Medical Center Utrecht The Netherlands InSighTec Haifa Israel Sheba Medical Center Ramat-Gan Israel Tel-Aviv University Tel-Aviv Israel Faculty of Biomedical Engineering & Russell Berrie Nanotechnology Institute Technion – Israel Institute of Technology Haifa Israel ELSC Center for Brain Sciences Hebrew University Jerusalem Israel Biomedical Engineering Technion- Israel Institute of Technology Haifa Israel Faculty of Life Sciences Bar Ilan University Ramat Gan Israel Focused Ultrasound Foundation Charlottesville USA Ocean System Engineering Jeju National University Jeju Republic of Korea Neurosurgery University of Virginia Charlottesville USA Biology University of Virginia Charlottesville USA Pathology University of Virginia Charlottesville USA Hospital for Sick Children Toronto Canada University of Toronto Toronto Canada University of Washington Seattle USA Philips Healthcare Markham Canada Sunnybrook Research Institute Toronto Canada Guided Therapy Systems LLC Mesa USA School of Medicine University of Arizona Tucson USA The CORE Institute Phoenix USA LabTAU - U1032 INSERM Lyon France Centre Leon Berard Lyon France Department of Oral Maxillofacial and Head Neck Oncology Shanghai 9th People’s Hospital Shanghai China The School of Biomedical Engineering Science and Health Systems Drexel University Philadelphia USA Department of Surgery College of Medicine Drexel University Philadelphia USA Biostatistics and Epidemiology University of Pennsylvania Philadelphi

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Forecasting: theory and practice

arXiv

引用

arXiv 2020年

作者： Petropoulos, Fotios Apiletti, Daniele Assimakopoulos, Vassilios Babai, Mohamed Zied Barrow, Devon K. Taieb, Souhaib Ben Bergmeir, Christoph Bessa, Ricardo J. Bijak, Jakub Boylan, John E. Browell, Jethro Carnevale, Claudio Castle, Jennifer L. Cirillo, Pasquale Clements, Michael P. Cordeiro, Clara Oliveira, Fernando Luiz Cyrino de Baets, Shari Dokumentov, Alexander Ellison, Joanne Fiszeder, Piotr Franses, Philip Hans Frazier, David T. Gilliland, Michael Gönül, M. Sinan Goodwin, Paul Grossi, Luigi Grushka-Cockayne, Yael Guidolin, Mariangela Guidolin, Massimo Gunter, Ulrich Guo, Xiaojia Guseo, Renato Harvey, Nigel Hendry, David F. Hollyman, Ross Januschowski, Tim Jeon, Jooyoung Jose, Victor Richmond R. Kang, Yanfei Koehler, Anne B. Kolassa, Stephan Kourentzes, Nikolaos Leva, Sonia Li, Feng Litsiou, Konstantia Makridakis, Spyros Martin, Gael M. Martinez, Andrew B. Meeran, Sheik Modis, Theodore Nikolopoulos, Konstantinos Önkal, Dilek Paccagnini, Alessia Panagiotelis, Anastasios Panapakidis, Ioannis Pavía, Jose M. Pedio, Manuela Pedregal, Diego J. Pinson, Pierre Ramos, Patrícia Rapach, David E. Reade, J. James Rostami-Tabar, Bahman Rubaszek, Michal Sermpinis, Georgios Shang, Han Lin Spiliotis, Evangelos Syntetos, Aris A. Talagala, Priyanga Dilini Talagala, Thiyanga S. Tashman, Len Thomakos, Dimitrios Thorarinsdottir, Thordis Todini, Ezio Arenas, Juan Ramón Trapero Wang, Xiaoqian Winkler, Robert L. Yusupova, Alisa Ziel, Florian School of Management University of Bath United Kingdom Politecnico di Torino Turin Italy Forecasting and Strategy Unit School of Electrical and Computer Engineering National Technical University of Athens Greece Kedge Business School France Department of Management Birmingham Business School University of Birmingham United Kingdom Belgium Faculty of Information Technology Monash University Melbourne Australia INESC TEC – Institute for Systems and Computer Engineering Technology and Science Porto Portugal Department of Social Statistics and Demography University of Southampton United Kingdom Centre for Marketing Analytics and Forecasting Lancaster University Management School Lancaster University United Kingdom School of Mathematics and Statistics University of Glasgow United Kingdom Department of Mechanical and Industrial Engineering University of Brescia Italy Magdalen College University of Oxford United Kingdom ZHAW School of Management and Law Zurich University of Applied Sciences Switzerland ICMA Centre Henley Business School University of Reading United Kingdom Faculdade de Ciências e Tecnologia Universidade do Algarve Portugal CEAUL Faculdade de Ciências Universidade de Lisboa Portugal Brazil Department of Business Informatics and Operations Management Faculty of Economics and Business Administration Universiteit Gent Belgium Let’s Forecast Australia Faculty of Economic Sciences and Management Nicolaus Copernicus University in Torun Poland Econometric Institute Erasmus School of Economics Rotterdam Netherlands Department of Econometrics and Business Statistics Monash University Melbourne Australia SAS United States Newcastle Business School Northumbria University Newcastle upon Tyne United Kingdom Department of Statistical Sciences University of Padua Italy Darden School of Business University of Virginia United States Finance Department Bocconi University Baffi-CAREFIN Centre Milan Italy Department of Tourism and Service Management MODUL Un

Forecasting has always been at the forefront of decision making and planning. The uncertainty that surrounds the future is both exciting and challenging, with individuals and organisations seeking to minimise risks and maximise utilities. The large number of forecasting applications calls for a diverse set of forecasting methods to tackle real-life challenges. This article provides a non-systematic review of the theory and the practice of forecasting. We provide an overview of a wide range of theoretical, state-of-the-art models, methods, principles, and approaches to prepare, produce, organise, and evaluate forecasts. We then demonstrate how such theoretical concepts are applied in a variety of real-life contexts. We do not claim that this review is an exhaustive list of methods and applications. However, we wish that our encyclopedic presentation will offer a point of reference for the rich work that has been undertaken over the last decades, with some key insights for the future of forecasting theory and practice. Given its encyclopedic nature, the intended mode of reading is non-linear. We offer cross-references to allow the readers to navigate through the various topics. We complement the theoretical concepts and applications covered by large lists of free or open-source software implementations and publicly-available databases. © 2020, CC BY.

关键词： Forecasting

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THz generation by exchange-coupled spintronic emitters

npj Spintronics

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npj Spintronics 2024年第1期2卷 1-8页

作者： Roman Adam Derang Cao Daniel E. Bürgler Sarah Heidtfeld Fangzhou Wang Christian Greb Markus Büscher Claus M. Schneider Jing Cheng Debamitra Chakraborty Ivan Komissarov Roman Sobolewski Martin Mikulics Hilde Hardtdegen Peter Grünberg Institute Research Centre Jülich Jülich Germany College of Physics Qingdao University Qingdao China Faculty of Physics University Duisburg-Essen Duisburg Germany Institut für Laser- und Plasmaphysik Heinrich-Heine Universität Düsseldorf Düsseldorf Germany Materials Science Graduate Program University of Rochester Rochester NY USA Laboratory for Laser Energetics University of Rochester Rochester NY USA Department of Electrical and Computer Engineering University of Rochester Rochester NY USA Ernst Ruska Centre Research Centre Jülich Jülich Germany

The mechanism of THz generation in ferromagnet/metal (F/M) bilayers has been typically ascribed to the inverse spin Hall effect (ISHE). Here, we fabricated Pt/Fe/Cr/Fe/Pt multilayers containing two back-to-back spintronic THz emitters separated by a thin (tCr≤ 3nm) wedge-shaped Cr spacer. In such an arrangement, magnetization alignment of the two Fe films can be controlled by the interplay between Cr-mediated interlayer exchange coupling (IEC) and an external magnetic field. This in turn results in a strong variation of the THz amplitudeA, withA↑↓reaching up to 14 timesA↑↑(arrows indicate the relative alignment of the magnetization of the two magnetic layers). This observed functionality is ascribed to the interference of THz transients generated by two closely spaced THz emitters. Moreover, the magnetic field dependenceA(H) shows a strong asymmetry that points to an additional performance modulation of the THz emitter via IEC and multilayer design.

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Editor-in-Chief

引用

IEEE Access 2024年 12卷 i-xi页

作者： Derek Abbott Sonia Aissa Anuradha Annaswamy Nirwan Ansari Jun Cai Kun-Shan Chen Yixin Chen J.-C. Chiao Ayman El-Baz Shaikh Fattah Hoay Gooi Maya Gokhale Chih-Lin Ⅰ Giuseppe Iannaccone Yumi Iwashita Bruce Jacob Abbas Jamalipour Bahram Javidi Weihua Jiang Okyay Kaynak Hulya Kirkici Germano Lambert-Torres Shengtao Li Michal Mrozowski Michele Nappi Dalma Novak Hugo Proença Yi Qian Zhihua Qu Susanto Rahardja Mehrdad Saif Ali Serpengüzel Peter H. Siegel Ashitey Trebi-Ollennu Daniela Tuninetti Ge Wang Keith A. Wear Andreas Weisshaar C. Patrick Yue Enrico Zio School of Electrical and Electronic Engineering University of Adelaide Adelaide SA Australia Institut National de la Recherche Scientifique (INRS) Québec City Canada Department of Mechanical Engineering Massachusetts Institute of Technology Cambridge MA USA Department of Electrical and Computer Engineering New Jersey Institute of Technology Newark NJ USA Concordia University Montreal Canada Guilin University of Technology Guilin China Washington University St. Louis MO USA Southern Methodist University Dallas TX USA University of Louisville/Bioengineering Department Louisville KY USA Department of Electrical and Electronic Engineering Bangladesh University of Engineering and Technology Dhaka Bangladesh Nanyang Technological University Jurong West Singapore Lawrence Livermore National Laboratory Livermore CA USA China Mobile Research Institute Beijing China University of Pisa Pisa Italy NASA-JPL California Institute of Technology Pasadena CA USA Florida Polytechnic University Lakeland FL USA The University of Sydney Sydney NSW Australia University of Connecticut Storrs CT USA Nagaoka University of Technology Nagaoka Niigata Japan Department of Electrical and Electronic Engineering Boğaziçi University Istanbul Turkey University of South Alabama Mobile AL USA Gnarus Institute Itajuba Brazil Xi’an Jiaotong University Xi’an China Gdansk University of Technology Gdansk Poland University of Salerno Fisciano Italy Octane Wireless Hanover MD USA University of Beira Interior Covilhã Portugal Department of Electrical and Computer Engineering University of NebraskaLincoln Lincoln NE USA University of Central Florida Orlando Florida USA Singapore Institute of Technology 10 Dover Dr Singapore Infocomm Technology Cluster 10 Dover Dr Singapore University of Windsor Windsor Canada Department of Physics Koç University Istanbul Turkey California Institute of Technology (CalTech) Pasadena California USA NASA-JPL Mobility and Robotics Systems S

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The need to implement FAIR principles in biomolecular simulations

arXiv

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arXiv 2024年

作者： Amaro, R. Åqvist, J. Bahar, I. Battistini, F. Bellaiche, A. Beltran, D. Biggin, P.C. Bonomi, M. Bowman, G.R. Bryce, R. Bussi, G. Carloni, P. Case, D. Cavalli, A. Chang, C.A. Cheatham, T.E. Cheung, M.S. Chipot, C. Chong, L.T. Choudhary, P. Cisneros, G.A. Clementi, C. Collepardo-Guevara, R. Coveney, P. Covino, R. Crawford, T.D. Dal Peraro, M. de Groot, B. Delemotte, L. De Vivo, M. Essex, J. Fraternali, F. Gao, J. Gelpí, J.L. Gervasio, F.L. Gonzalez-Nilo, F.D. Grubmüller, H. Guenza, M.G. Guzman, H.V. Harris, S. Head-Gordon, T. Hernandez, R. Hospital, A. Huang, N. Huang, X. Hummer, G. Iglesias-Fernández, J. Jensen, J.H. Jha, S. Jiao, W. Jorgensen, W.L. Kamerlin, S.C.L. Khalid, S. Laughton, C. Levitt, M. Limongelli, V. Lindahl, E. Lindorff-Larsen, K. Loverde, S. Lundborg, M. Luo, Y.L. Luque, F.J. Lynch, C.I. MacKerell, A. Magistrato, A. Marrink, S.J. Martin, H. McCammon, J.A. Merz, K. Moliner, V. Mulholland, A. Murad, S. Naganathan, A.N. Nangia, S. Noe, F. Noy, A. Oláh, J. O'Mara, M. Ondrechen, M.J. Onuchic, J.N. Onufriev, A. Osuna, S. Palermo, G. Panchenko, A.R. Pantano, S. Parish, C. Parrinello, M. Perez, A. Perez-Acle, T. Perilla, J.R. Pettitt, B.M. Pietropaolo, A. Piquemal, J.-P. Poma, A. Praprotnik, M. Ramos, M.J. Ren, P. Reuter, N. Roitberg, A. Rosta, E. Rovira, C. Roux, B. Röthlisberger, U. Sanbonmatsu, K. Schlick, T. Shaytan, A.K. Simmerling, C. Smith, J.C. Sugita, Y. Świderek, K. Taiji, M. Tao, P. Tikhonova, I.G. Tirado-Rives, J. Tuñón, I. Van Der Kamp, M.W. Van der Spoel, D. Velankar, S. Voth, G.A. Wade, R. Warshel, A. Welborn, V.V. Wetmore, S. Wong, C.F. Yang, L.-W. Zacharias, M. Orozco, M. Department of Molecular Biology University of California San DiegoCA United States Department of Cell and Molecular Biology Uppsala University Uppsala Sweden Laufer Center for Physical and Quantitative Biology Renaissance School of Medicine Stony Brook University Stony BrookNY United States Department of Biochemistry and Cell Biology Renaissance School of Medicine Stony Brook University Stony BrookNY United States Barcelona Spain European Molecular Biology Laboratory European Bioinformatics Institute Hinxton United Kingdom Structural Bioinformatics and Computational Biochemistry Department of Biochemistry University of Oxford Oxford United Kingdom Institut Pasteur Université Paris Cité CNRS UMR 3528 Computational Structural Biology Unit Paris France Department of Biochemistry and Biophysics University of Pennsylvania PhiladelphiaPA United States Division of Pharmacy and Optometry University of Manchester Manchester United Kingdom Scuola Internazionale Superiore di Studi Avanzati-SISSA Trieste Italy Computational Biomedicine Institute of Advanced Simulations IAS-5 Institute for Neuroscience and Medicine INM-9 Forschungszentrum Jülich GmbH Jülich Germany Department of Physics and Universitätsklinikum RWTH Aachen University Aachen Germany Department of Chemistry & Chemical Biology Rutgers University PiscatawayNJ United States Istituto Italiano di Tecnologia Drug Discovery and Development Bologna Italy Lausanne Switzerland Department of Chemistry University of California RiversideCA United States Department of Medicinal Chemistry College of Pharmacy University of Utah Salt Lake CityUT United States Department of Physics University of Washington SeattleWA United States Pacific Northwest National Laboratory RichlandWA United States LIA CNRS-UIUC UMR n°7019 Université de Lorraine Vandœuvre-lès-Nancy France Department of Physics University of Illinois at Urbana-Champaign UrbanaIL United States Department of Biochemistry and Molecular Biol

The communities that embraced data archiving efforts decades ago are now, in the era of data-driven biology, those gaining the most from the AI revolution. The structural biology community was a pioneer in this regard by establishing the Protein Data Bank (PDB) in 1971 and making data accessible using the FAIR (Findable, Accessible, Interoperable and Reusable) principles even before these were articulated [1, 2]. The genomics/bioinformatics community has followed the example, establishing many widely used databases [3, 4]. By contrast, molecular simulation has been anchored in usage paradigms dating back to the seventies, when molecular dynamics (MD) simulation was first applied to study biomacromolecules [5]. At that time, MD was used by theoretical physicists and chemists in "proof of concept" simulations. Still, fifty years later, MD has evolved into a cornerstone molecular biology technique that can provide accurate quantitative analysis and property prediction. MD is now employed by tens of thousands of researchers worldwide, accounting for roughly 15% of global supercomputer usage. Unfortunately, these rich and costly data are not systematically maintained, and when further analyses are required, simulations have to be rerun-an unacceptable situation from scientific, environmental and sustainability standpoints. In this letter, we argue for a collaborative endeavor to archive MD simulation data and describe ongoing efforts to establish cost-effective and sustainable data archiving strategies. © 2024, CC BY-NC-SA.

关键词： Biotic

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Author Correction: General feature selection technique supporting sex-debiasing in chronic illness algorithms validated using wearable device data

npj Women's Health

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npj Women's Health 2024年第1期2卷 1页

作者： Jamison H. Burks Patrick Kasl Benjamin L. Smarr Lauryn Keeler Bruce Severine Soltani Varun Viswanath Wendy Hartogensis Frederick M. Hecht Ashley E. Mason Stephan Dilchert Subhasis Dasgupta Ilkay Altintas Amarnath Gupta Shu Chien-Gene Lay Department of Bioengineering University of California San Diego San Diego CA USA Halıcıoğlu Data Science Institute University of California San Diego San Diego CA USA UC San Diego Health Department of Biomedical Informatics University of California San Diego San Diego CA USA Bioinformatics and Systems Biology University of California San Diego San Diego CA USA Department of Electrical and Computer Engineering University of California San Diego La Jolla CA USA Osher Center for Integrative Health University of California San Francisco San Francisco CA USA Department of Management Zicklin School of Business Baruch College The City University of New York New York NY USA San Diego Supercomputer Center University of California San Diego San Diego CA USA

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General feature selection technique supporting sex-debiasing in chronic illness algorithms validated using wearable device data

npj Women's Health

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npj Women's Health 2024年第1期2卷 1-11页

In tasks involving human health condition data, feature selection is heavily affected by data types, the complexity of the condition manifestation, and the variability in physiological presentation. One type of variability often overlooked or oversimplified is the effect of biological sex. As females have been chronically underrepresented in clinical research, we know less about how conditions manifest in females. Innovations in wearable technology have enabled individuals to generate high temporal resolution data for extended periods of time. With millions of days of data now available, additional feature selection pipelines should be developed to systematically identify sex-dependent variability in data, along with the effects of how many per-person data are included in analysis. Here we present a set of statistical approaches as a technique for identifying sex-dependent physiological and behavioral manifestations of complex diseases starting from longitudinal data, which are evaluated on diabetes, hypertension, and their comorbidity.

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AIRR community curation and standardised representation for immunoglobulin and T cell receptor germline sets

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Immunoinformatics (Amsterdam, Netherlands) 2023年 10卷 100025页

作者： William D Lees Scott Christley Ayelet Peres Justin T Kos Brian Corrie Duncan Ralph Felix Breden Lindsay G Cowell Gur Yaari Martin Corcoran Gunilla B Karlsson Hedestam Mats Ohlin Andrew M Collins Corey T Watson Christian E Busse Institute of Structural and Molecular Biology Birkbeck College London England. Human-Centered Computing and Information Science Institute for Systems and Computer Engineering Technology and Science Porto Portugal. Peter O'Donnell Jr. School of Public Health UT Southwestern Medical Center Dallas TX USA. Bioengineering Program Faculty of Engineering Bar-Ilan University Ramat Gan Israel. Department of Biochemistry and Molecular Genetics School of Medicine University of Louisville KY USA. Department of Biological Sciences Simon Fraser University Burnaby BC Canada. Fred Hutchinson Cancer Research Center Seattle WA USA. Peter O'Donnell Jr. School of Public Health Department of Immunology School of Biomedical Sciences UT Southwestern Medical Center Dallas TX USA. Department of Microbiology Tumor and Cell Biology Karolinska Institutet Stockholm Swede. Department of Immunotechnology and SciLifeLab Lund University Lund Sweden. School of Biotechnology and Biomolecular Sciences University of New South Wales Sydney NSW Australia. Division of B Cell Immunology German Cancer Research Center Heidelberg Germany.

Analysis of an individual's immunoglobulin or T cell receptor gene repertoire can provide important insights into immune function. High-quality analysis of adaptive immune receptor repertoire sequencing data depends upon accurate and relatively complete germline sets, but current sets are known to be incomplete. Established processes for the review and systematic naming of receptor germline genes and alleles require specific evidence and data types, but the discovery landscape is rapidly changing. To exploit the potential of emerging data, and to provide the field with improved state-of-the-art germline sets, an intermediate approach is needed that will allow the rapid publication of consolidated sets derived from these emerging sources. These sets must use a consistent naming scheme and allow refinement and consolidation into genes as new information emerges. Name changes should be minimised, but, where changes occur, the naming history of a sequence must be traceable. Here we outline the current issues and opportunities for the curation of germline IG/TR genes and present a forward-looking data model for building out more robust germline sets that can dovetail with current established processes. We describe interoperability standards for germline sets, and an approach to transparency based on principles of findability, accessibility, interoperability, and reusability.

关键词： AIRR-seq Immune receptor Immune receptor germline Immune receptor repertoire Rep-seq

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