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arXiv 2017年

作者： Heirendt, Laurent Arreckx, Sylvain Pfau, Thomas Mendoza, Sebastián N. Richelle, Anne Heinken, Almut Haraldsdóttir, Hulda S. Wachowiak, Jacek Keating, Sarah M. Vlasov, Vanja Magnusdóttir, Stefania Ng, Chiam Yu Preciat, German Žagare, Alise Chan, Siu H.J. Aurich, Maike K. Clancy, Catherine M. Modamio, Jennifer Sauls, John T. Noronha, Alberto Bordbar, Aarash Cousins, Benjamin El Assal, Diana C. Valcarcel, Luis V. Apaolaza, Iñigo Ghaderi, Susan Ahookhosh, Masoud Guebila, Marouen Ben Kostromins, Andrejs Sompairac, Nicolas Le, Hoai M. Ma, Ding Sun, Yuekai Wang, Lin Yurkovich, James T. Oliveira, Miguel A.P. Vuong, Phan T. El Assal, Lemmer P. Kuperstein, Inna Zinovyev, Andrei Scott Hinton, H. Bryant, William A. Aragón Artacho, Francisco J. Planes, Francisco J. Stalidzans, Egils Maass, Alejandro Vempala, Santosh Hucka, Michael Saunders, Michael A. Maranas, Costas D. Lewis, Nathan E. Sauter, Thomas Palsson, Bernhard Ø. Thiele, Ines Fleming, Ronan M.T. Luxembourg Centre for Systems Biomedicine University of Luxembourg 6 avenue du Swing BelvauxL-4367 Luxembourg Life Sciences Research Unit University of Luxembourg 6 avenue du Swing BelvauxL-4367 Luxembourg University of Chile Blanco Encalada 2085 Santiago Chile Department of Pediatrics University of California San Diego School of Medicine San DiegoCA92093 United States Hinxton CambridgeCB10 1SD United Kingdom Department of Chemical Engineering Pennsylvania State University University University ParkPA16802 United States Department of Physics University of California San Diego 9500 Gilman Dr. San DiegoCA92093 United States Bioinformatics and Systems Biology Program University of California San Diego San DiegoCA United States Sinopia Biosciences San DiegoCA United States School of Computer Science Algorithms and Randomness Center Georgia Institute of Technology AtlantaGA United States Biomedical Engineering and Sciences Department TECNUN University of Navarra Paseo de Manuel Lardizabal 13 San Sebastian20018 Spain Institute of Microbiology and Biotechnology University of Latvia Jelgavas iela 1 RigaLV-1004 Latvia Department of Management Science and Engineering Stanford University StanfordCA94305-4026 United States Bioengineering Department University of California San Diego San DiegoCA United States Utah State University Research Foundation 1695 North Research Park Way North LoganUT84341 United States Centre for Integrative Systems Biology and Bioinformatics Department of Life Sciences Imperial College London London United Kingdom Department of Mathematics University of Alicante Spain California Institute of Technology Computing and Mathematical Sciences MC 305-16 1200 E. California Blvd. PasadenaCA91125 United States Mathomics Center for Mathematical Modeling University of Chile Beauchef 851 Santiago Chile Novo Nordisk Foundation Center for Biosustainability University of California San Diego San DiegoCA92093 Uni

COnstraint-Based Reconstruction and Analysis (COBRA) provides a molecular mechanistic framework for integrative analysis of experimental data and quantitative prediction of physicochemically and biochemically feasible phenotypic states. The COBRA Toolbox is a comprehensive software suite of interoperable COBRA methods. It has found widespread applications in biology, biomedicine, and biotechnology because its functions can be flexibly combined to implement tailored COBRA protocols for any biochemical network. Version 3.0 includes new methods for quality controlled reconstruction, modelling, topological analysis, strain and experimental design, network visualisation as well as network integration of chemoinformatic, metabolomic, transcriptomic, proteomic, and thermochemical data. New multi-lingual code integration also enables an expansion in COBRA application scope via high-precision, high-performance, and nonlinear numerical optimisation solvers for multi-scale, multi-cellular and reaction kinetic modelling, respectively. This protocol can be adapted for the generation and analysis of a constraint-based model in a wide variety of molecular systems biology scenarios. This protocol is an update to the COBRA Toolbox 1.0 and 2.0. The COBRA Toolbox 3.0 provides an unparalleled depth of constraint-based reconstruction and analysis methods. Copyright © 2017, The Authors. All rights reserved.

关键词： Data integration

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Stratifying vascular disease patients into homogeneous subgroups using machine learning and FLAIR MRI biomarkers

Npj imaging

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Npj imaging 2024年第1期2卷 56页

作者： Karissa Chan Corinne Fischer Pejman Jabehdar Maralani Sandra E Black Alan R Moody April Khademi Department of Electrical Computer and Biomedical Engineering Toronto Metropolitan University Toronto ON Canada. Institute for Biomedical Engineering Science Tech (iBEST) a Partnership between St. Michael's Hospital and Toronto Metropolitan University Toronto ON Canada. Keenan Research Center for Biomedical Science St. Michael's Hospital Unity Health Network Toronto ON Canada. Department of Medical Imaging University of Toronto Toronto ON Canada. Institute of Medical Science University of Toronto Toronto ON Canada. Horvitz Brain Sciences Research Program Sunnybrook Research Institute Toronto ON Canada. Division of Neurology Department of Medicine Sunnybrook Health Sciences Centre Toronto ON Canada. L.C. Campbell Cognitive Neurology Research Unit Sunnybrook Health Sciences Centre Toronto ON Canada. Vector Institute for Artificial Intelligence Toronto ON Canada.

This study proposes a framework to stratify vascular disease patients based on brain health and cerebrovascular disease (CVD) risk using regional FLAIR biomarkers. Intensity and texture biomarkers were extracted from FLAIR volumes of 379 atherosclerosis patients. K-Means clustering identified five homogeneous subgroups. The 15 most important biomarkers for subgroup differentiation, identified via Random Forest classification, were used to generate biomarker profiles. ANOVA tests showed age and white matter lesion volume were significantly ( < 0.05) different across subgroups, while Fisher's tests revealed significant ( < 0.05) differences in the prevalence of several vascular risk factors across subgroup. Based on biomarker and clinical profiles, Subgroup 4 was characterized with neurodegeneration unrelated to CVD, Subgroup 3 identified patients with high CVD risk requiring aggressive intervention, and Subgroups 1, 2, and 5 identified patients with varying levels of moderate risk, suitable for long-term lifestyle interventions. This study supports personalized treatment and risk stratification based on FLAIR biomarkers.

关键词： Brain imaging Image processing

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PERFORMANCE OF A PRIORITIZED ON-BOARD BASEBAND SWITCH FOR A MULTISERVICE MULTIBEAM SATELLITE

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INTERNATIONAL JOURNAL OF SATELLITE COMMUNICATIONS 1994年第3期12卷 283-297页

作者： BOHM, S ELHAKEEM, AK HACHICHA, M Department of Electrical and Computer Engineering Concordia University 1455 De Maisonneuve Blvd. West Montreal H3A 1M8 Canada Was born in Montreal Canada on 14 September 1966. He received the B. Eng. degree in electrical engineering from Concordia University Montreal Canada in 1989. He is at present completing the M.A.Sc. degree in electrical engineering at Concordia University. (S'75–S'79–M'79–SM'86) received the Ph.D. degree from Southern Methodist University Dallas TX in 1979. He spent the next two years working as a Visiting Professor in Egypt after which he moved to Ottawa Canada in 1982. He assumed teaching and research positions in Carleton and Manitoba Univerities and later moved to Concordia University Montreal Canada in 1983 where he is now a Professor in the Electrical and Computer Engineering Department. He has published numerous papers in IEEE and international journals in the areas of spread spectrum and networking. He is a well-known expert in these areas and serves as a consultant to many companies. His current research interests include wide-band metropolitan networks switching architectures and performance of on-board multibeam satellites acquisitionless CDMA networks code distribution and orthogonalization of CDMA signals responsive congestion control for ATM-based networks ARQ techniques and investigation of the novel SUGAR CDMA systems in fading channels. Dr. Elhakeem is a Senior Member of the Canadian Electrical Engineering Society and Armed Forces Association. He has chaired numerous technical sessions in IEEE Conferences was the Technical Program Chairman for IEEE Montech 1986 Montreal Canada. Dr. Elhakeem is the key guest editor of theIEEE Journal of Selected Areas in Communicationsfor the May June issues 1993 covering CDMA networks. Advanced Technology & Networks VISTAR Telecommunications Inc. Ottawa Ontario K1G 3J4 Canada An Associate Director of Advanced Technology & Networks Group VISTAR Telecommunications Inc. Ottawa Canada. He is also an Adjunct Pr

In this paper, we study the performance of a prioritized on-board baseband switch in conjunction with a multibeam satellite handling integrated services. The services considered for the analysis include voice, video, file transfer and interactive data. The prioritized switch uses both input and output buffering, switch speed-up as well as a two-phase head-of-line resolution algorithm, in order to reduce the buffer loss while maintaining acceptable user delays. The minimum required buffer capacity and switch speed-up for each service in a prioritized environment are found under uniform traffic conditions. It is shown that under uniform traffic conditions, only minimal buffering and switch speed-up are needed even for the lowest priority users. The performance dependence on the switch size is also substantially reduced with head of line resolution and buffering even in a prioritized environment.

关键词： SWITCH ON-BOARD BASEBAND MULTIBEAM PRIORITIZED HEAD-OF-LINE UNIFORM LOAD SPEED-UP

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Abstracts

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JOURNAL OF SPINAL CORD MEDICINE 2021年第SUPPL 1期44卷 S278-S324页

作者： [Anonymous] Department of Medicine Division of Physical Medicine and Rehabilitation University of Toronto Toronto ON CA KITE - Toronto Rehabilitation Institute University Health Network Toronto ON CA Institute for Health Policy Management and Evaluation University of Toronto Toronto ON CA Rehabilitation Sciences Institute University of Toronto Toronto ON CA Institute of Medical Sciences University of Toronto Toronto ON CA. Rehabilitation Sciences Institute University of Toronto ON CA KITE Research Institute-Toronto Rehab-University Health Network Toronto ON CA Physical Therapy Department University of Toronto ON CA Praxis Spinal Cord Institute Vancouver BC Université de Montréal (École de réadaptation) Montreal QC CA Institut de réadaptation Gingras-Linsay-de-Montréal Montreal QC CA Division of Physical Medicine & Rehabilitation Department of Medicine Faculty of Medicine & Dentistry University of Alberta Edmonton AB CA University of Calgary Calgary AB CA Alberta Health Services Centre for Family Medicine Kitchener ON CA McMaster University Department of Family Medicine Hamilton ON CA Dept. of Physical Therapy University of Toronto Toronto ON CA KITE-University Health Network Toronto ON CA Praxis Spinal Cord Institute Vancouver BC CA Center for Interdisciplinary Research in Rehabilitation and Social Integration (CIRRIS) Quebec City QC CA Dept. of Rehabilitation Laval University Quebec City QC CA Institute of Health Policy Management and Evaluation University of Toronto Toronto ON CA School of Rehabilitation Science University of Saskatchewan Saskatoon SK CA Ontario Neurotrauma Foundation Toronto ON CA Canadian Spinal Research Organization Toronto ON CA CIUSSS du Centre-Sud-de-l ‘Île-de-Montréal (Installation Gingras-Lindsay) Montréal QC CA École de réadaptation Université de Montréal Montréal QC CA First Steps Wellness Centre Regina SK CA Stan Cassidy Centre for Rehabilitation Horizon Health Network Fredericton NB CA Departmen

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FLAIR MRI biomarkers of the Normal-Appearing Brain Matter (NABM) are related to APOE-4 status and CSF markers Aβ42 and Tau

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Alzheimer's & Dementia 2023年第S3期19卷

作者： Karissa Chan Corinne E. Fischer Houman Khosravani Sandra E. Black Pascal Tyrrell Pejman Jabehdar Maralani Alan R. Moody April Khademi Electrical Computer and Biomedical Engineering Department Ryerson University Toronto ON Canada St. Michael’s Hospital Toronto ON Canada University of Toronto Toronto ON Canada Keenan Research Centre for Biomedical Science St. Michael’s Hospital Toronto ON Canada Faculty of Medicine Department of Psychiatry University of Toronto Toronto ON Canada Institute of Medical Sciences University of Toronto Toronto ON Canada Keenan Research Centre for Biomedical Science the Li Ka Shing Knowledge Institute St. Michael’s Hospital Toronto ON Canada Division of Neurology Department of Medicine University of Toronto Toronto ON Canada Heart and Stroke Foundation Canadian Partnership for Stroke Recovery Toronto ON Canada Sunnybrook Research Institute Toronto ON Canada Hurvitz Brain Sciences Program Sunnybrook Research Institute Toronto ON Canada Toronto Dementia Research Alliance Toronto ON Canada LC Campbell Cognitive Neurology Research Unit Sunnybrook Research Institute Toronto ON Canada Department of Statistical Science University of Toronto Toronto ON Canada Department of Medical Imaging University of Toronto Toronto ON Canada Keenan Research Centre for Biomedical Research the Li Ka Shing Knowledge Institute St. Michael’s Hospital Toronto ON Canada Ryerson University IAMLAB Department of Electrical Computer and Biomedical Engineering Toronto ON Canada

Background Reduced amyloid-beta-42 (Aβ42) and elevated total tau (t-tau) protein concentrations in the CSF are characteristic of Alzheimer’s disease (AD) pathology [1]. Aβ42 contributes to extracellular plaque formation between neurons [2]. The total level of tau, a microtubule-stabilizer in neuron axons [3], is associated with neuronal death [1]. Additionally, presence of ApoE4 (ε4) alleles is an established identifier for increased risk of AD [4]. Non-invasive imaging-based correlates of the CSF markers are lacking. This study examines correlations of novel FLAIR texture, intensity, and volume biomarkers, along with white matter lesion (WML) burden, with Aβ42, t-tau, and ε4 status. Method FLAIR volumes (n = 4044) from the ADNI database were used for analysis with CSF biomarkers. A subset (n = 921) was used for ε4 analysis based on available data. Normal-appearing brain matter (NABM) was obtained by removing CSF and WML. Macrostructural damage (MAD), microstructural damage (MID), and integrity (MII) texture biomarkers [5] were extracted from each NABM volume (Fig. 1), along with median intensity, NABM/ICV ratio, and normalized WML volume [5]. Relationships between FLAIR biomarkers and AD markers were described using parametric statistical analyses. Statistical significance was set at p<0.05. Result All FLAIR biomarkers were statistically significantly correlated with CSF Aβ42 levels. All features except MID and WML burden were significantly correlated with CSF t-tau levels (Table 1). MAD, MID, and WML burden showed negative correlations with Aβ42, while MAD showed a positive correlation with t-tau. Opposite trends were seen with MII, intensity, and NABM/ICV (Fig. 2). Significant differences between groups without and with one ε4 allele were found in all FLAIR biomarkers except WML burden. Significant differences in MAD, MII and NABM/ICV were found between groups with one and two ε4 alleles (Table 2). Conclusion FLAIR biomarkers were inversely associated with CSF Aβ

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A molecular single-cell lung atlas of lethal COVID-19 (vol 595, pg 114, 2021)

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NATURE 2021年第7882期598卷 E2-E2页

作者： Melms, Johannes C. Biermann, Jana Huang, Huachao Wang, Yiping Nair, Ajay Tagore, Somnath Katsyv, Igor Rendeiro, Andre F. Amin, Amit Dipak Schapiro, Denis Frangieh, Chris J. Luoma, Adrienne M. Filliol, Aveline Fang, Yinshan Ravichandran, Hiranmayi Clausi, Mariano G. Alba, George A. Rogava, Meri Chen, Sean W. Ho, Patricia Montoro, Daniel T. Kornberg, Adam E. Han, Arnold S. Bakhoum, Mathieu F. Anandasabapathy, Niroshana Suarez-Farinas, Mayte Bakhoum, Samuel F. Bram, Yaron Borczuk, Alain Guo, Xinzheng V. Lefkowitch, Jay H. Marboe, Charles Lagana, Stephen M. Del Portillo, Armando Tsai, Emily J. Zorn, Emmanuel Markowitz, Glen S. Schwabe, Robert F. Schwartz, Robert E. Elemento, Olivier Saqi, Anjali Hibshoosh, Hanina Que, Jianwen Izar, Benjamin Department of Medicine Division of Hematology/Oncology Columbia University Irving Medical Center New York NY USA Columbia Center for Translational Immunology Columbia University Irving Medical Center New York NY USA Herbert Irving Comprehensive Cancer Center Columbia University Irving Medical Center New York NY USA Program for Mathematical Genomics Columbia University New York NY USA Columbia Center for Human Development Columbia University Irving Medical Center New York NY USA Division of Digestive and Liver Diseases Columbia University Irving Medical Center New York NY USA Department of Medicine Columbia University Irving Medical Center New York NY USA Institute of Human Nutrition Columbia University New York NY USA Department of Systems Biology Columbia University Irving Medical Center New York NY USA Department of Pathology and Cell Biology Columbia University Irving Medical Center New York NY USA Institute for Computational Biomedicine Weill Cornell Medicine New York NY USA Caryl and Israel Englander Institute for Precision Medicine Weill Cornell Medicine New York NY USA WorldQuant Initiative for Quantitative Prediction Weill Cornell Medicine New York NY USA Department of Physiology and Biophysics Weill Cornell Medical College New York NY USA Department of Dermatology Weill Cornell Medical College New York NY USA Meyer Cancer Center Weill Cornell Medical College New York NY USA Laboratory of Systems Pharmacology Harvard Medical School Boston MA USA Klarman Cell Observatory Broad Institute of MIT and Harvard Cambridge MA USA Department of Electrical Engineering and Computer Science Massachusetts Institute of Technology Cambridge MA USA Department of Cancer Immunology and Virology Dana-Farber Cancer Center Boston MA USA Human Immune Monitoring Core Columbia University Irving Medical Center New York NY USA Department of Medicine Division of Pulmonary and Critical Care Massachusetts General Hospital Boston MA USA Cell Circu

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Erratum to: An approach to the research on ion and water properties in the interphase between the plasma membrane and bulk extracellular solution

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The journal of physiological sciences : JPS 2018年第1期68卷 101页

作者： Hiroshi Hibino Madoka Takai Hidenori Noguchi Seishiro Sawamura Yasufumi Takahashi Hideki Sakai Hitoshi Shiku Department of Molecular Physiology Niigata University School of Medicine 1-757 Asahimachi-dori Chuo-ku Niigata Niigata 951-8510 Japan. hibinoh@med.niigata-u.ac.jp. Center for Transdisciplinary Research Niigata University Niigata Niigata 950-2181 Japan. hibinoh@med.niigata-u.ac.jp. AMED-CREST AMED Niigata Japan. hibinoh@med.niigata-u.ac.jp. Department of Bioengineering School of Engineering The University of Tokyo Tokyo Japan. International Center for Materials Nanoarchitectonics and Global Research Center for Environment and Energy Based on Nanomaterials Science National Institute for Materials Science Tsukuba Ibaraki Japan. Department of Molecular Physiology Niigata University School of Medicine 1-757 Asahimachi-dori Chuo-ku Niigata Niigata 951-8510 Japan. Division of Electrical Engineering and Computer Science Kanazawa University Kakuma-machi Kanazawa 920-1192 Japan. Precursory Research for Embryonic Science and Technology (PRESTO) Japan Science and Technology Agency (JST) Saitama 332-0012 Japan. Department of Pharmaceutical Physiology Graduate School of Medicine and Pharmaceutical Sciences University of Toyama Toyama Japan. Graduate School of Engineering Tohoku University Sendai 980-8579 Japan.

The article An approach to the research on ion and water properties in the interphase between the plasma membrane and bulk extracellular solution, written by Hiroshi Hibino, Madoka Takai, Hidenori Noguchi, Seishiro Sawamura, Yasufumi Takahashi, Hideki Sakai and Hitoshi Shiku, was originally published Online First without open access.

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Reference Data Based Insights Expand Understanding of Human Metabolomes

SSRN

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SSRN 2020年

作者： Gauglitz, Julia M. Bittremieux, Wout Williams, Candace L. Weldon, Kelly C. Panitchpakdi, Morgan Di Ottavio, Francesca Aceves, Christine M. Brown, Elizabeth Sikora, Nicole C. Jarmusch, Alan K. Martino, Cameron Tripathi, Anupriya Sayyari, Erfan Shaffer, Justin P. Coras, Roxana Vargas, Fernando DeRight Goldasich, Lindsay Schwartz, Tara Bryant, MacKenzie Humphrey, Gregory Johnson, Abigail J. Spengler, Katharina Belda-Ferre, Pedro Diaz, Edgar McDonald, Daniel Zhu, Qiyun Nguyen, Dominic S. Elijah, Emmanuel O. Wang, Mingxun Marotz, Clarisse Sprecher, Kate E. Robles, Daniela Vargas Withrow, Dana Ackermann, Gail Herrera, Lourdes Bradford, Barry J. Marques, Lucas Maciel Mauriz Amaral, Juliano Geraldo Silva, Rodrigo Moreira Veras, Flávio Protaso Cunha, Thiago Mattar Oliveira, Rene Donizeti Ribeiro Louzada-Junior, Paulo Mills, Robert H. Galasko, Douglas Dulai, Parambir S. Wittenberg, Curt Gonzalez, David J. Terkeltaub, Robert Doty, Megan M. Kim, Jae H. Rhee, Kyung E. Beauchamp-Walters, Julia Wright, Kenneth P. Dominguez-Bello, Maria Gloria Manary, Mark Oliveira, Michelli F. Boland, Brigid S. Lopes, Norberto Peporine Guma, Monica Swafford, Austin D. Dutton, Rachel J. Knight, Rob Dorrestein, Pieter C. Collaborative Mass Spectrometry Innovation Center University of California San Diego San DiegoCA92093 United States Skaggs School of Pharmacy and Pharmaceutical Sciences University of California San Diego San DiegoCA92093 United States Department of Computer Science University of Antwerp Antwerpen2020 Belgium Reproductive Sciences Institute for Conservation Research San Diego Zoo Global EscondidoCA92027 United States Center for Microbiome Innovation Joan and Irwin Jacobs School of Engineering University of California San Diego San DiegoCA92093 United States Division of Biological Sciences University of California San Diego San DiegoCA92093 United States Department of Pediatrics School of Medicine University of California San Diego San DiegoCA92093 United States Bioinformatics and Systems Biology Program University of California San Diego San DiegoCA92093 United States Division of Rheumatology Allergy & Immunology Department of Medicine University of California San Diego San DiegoCA92093 United States BioTechnology Institute University of Minnesota Saint PaulMN55108 United States Department of Integrative Physiology University of Colorado Boulder BoulderCO80309 United States Department of Population Health Sciences University of Wisconsin-Madison MadisonWI53726 United States Servicio Autónomo Centro Amazónico de Investigación y Control de Enfermedades Tropicales Simón Bolívar Amazonas Puerto Ayacucho7101 Venezuela Department of Pediatrics Wake Forest School of Medicine Winston-SalemNC27101 United States Department of Animal Science Michigan State University East LansingMI48824 United States Department of Pharmacology School of Medicine of Ribeirao Preto Center of Research in Inflammatory Diseases University of Sao Paulo SP Ribeirao PretoCEP 14049-900 - Brazil Multidisciplinary Health Institute Federal University of Bahia BA Vitória da Conquista45029094 Brazil NPPNS Department of Biomolecular Sciences School of Pharmaceutica

The human metabolome has remained largely unknown, with most studies annotating ~10% of features. In nucleic acid sequencing, annotating transcripts by source has proven essential for understanding gene function. Here we generalize this concept to stool, plasma, urine and other human metabolomes, discovering that food-based annotations increase the interpreted fraction of molecular features 7-fold, providing a general framework for expanding the interpretability of human metabolomic "dark matter." © 2020, The Authors. All rights reserved.

关键词： Nucleic acids

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Author Correction: Predicting the efficiency of prime editing guide RNAs in human cells

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Nature biotechnology 2024年第3期42卷 529页

作者： Hui Kwon Kim Goosang Yu Jinman Park Seonwoo Min Sungtae Lee Sungroh Yoon Hyongbum Henry Kim Department of Pharmacology Yonsei University College of Medicine Seoul Republic of Korea. Brain Korea 21 Plus Project for Medical Sciences Yonsei University College of Medicine Seoul Republic of Korea. Center for Nanomedicine Institute for Basic Science (IBS) Seoul Republic of Korea. Graduate Program of Nano Biomedical Engineering (NanoBME) Advanced Science Institute Yonsei University Seoul Republic of Korea. Electrical and Computer Engineering Seoul National University Seoul Republic of Korea. Interdisciplinary Program in Bioinformatics Seoul National University Seoul Republic of Korea. Graduate School of Data Science Seoul National University Seoul Republic of Korea. Department of Pharmacology Yonsei University College of Medicine Seoul Republic of Korea. hkim1@yuhs.ac. Brain Korea 21 Plus Project for Medical Sciences Yonsei University College of Medicine Seoul Republic of Korea. hkim1@yuhs.ac. Center for Nanomedicine Institute for Basic Science (IBS) Seoul Republic of Korea. hkim1@yuhs.ac. Graduate Program of Nano Biomedical Engineering (NanoBME) Advanced Science Institute Yonsei University Seoul Republic of Korea. hkim1@yuhs.ac. Severance Biomedical Science Institute Yonsei University College of Medicine Seoul Republic of Korea. hkim1@yuhs.ac. Graduate Program of NanoScience and Technology Yonsei University Seoul Republic of Korea. hkim1@yuhs.ac.

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Assessing the Potential of GPT-4 to Annotate Medical Notes Across Different Languages and Countries: A Model Evaluation Study

SSRN

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SSRN 2024年

作者： Saad Menezes, Maria Clara Hoffman, Alexander F. Tan, Amelia L.M. Nalbandyan, Mariné Omenn, Gilbert S. Mazzotti, Diego R. Hernández-Arango, Alejandro Visweswaran, Shyam Venkatesh, Shruthi Mandl, Kenneth D. Bourgeois, Florence T. Lee, James W.K. Makmur, Andrew Hanauer, David A. Semanik, Michael G. Kerivan, Lauren T. Hill, Terra Forero, Julian Restrepo Castro, Carlos Andrés C.R. Vigna, Matteo Ceriana, Piero Abu-El-rub, Noor Avillach, Paul Bellazzi, Riccardo Callaci, Thomas Gutiérrez-Sacristán, Alba Malovini, Alberto Mathew, Jomol P. Morris, Michele Murthy, Venkatesh Parimbelli, Enea Patel, Lav P. Sáez, Carlos Samayamuthu, Malarkodi Jebathilagam Thompson, Jeffrey A. Tibollo, Valentina Xia, Zongqi Kohane, Isaac S. Harvard Medical School Department of Biomedical Informatics 10 Shattuck Street BostonMA02115 United States School of Medicine and Public Health University of Wisconsin-Madison Office of Informatics and Information Technology 750 Highland Ave MadisonWI53705 United States University of Michigan Department of Computational Medicine & Bioinformatics Internal Medicine Human Genetics Environmental Health 100 Washtenaw Avenue Ann ArborMI48109 United States University of Kansas Medical Center Division of Medical Informatics Division of Pulmonary Critical Care and Sleep Medicine Department of Internal Medicine 3901 Rainbow Blvd Kansas CityKS66160 United States University of Antioquia Hospital Alma Máter de Antioquia Department of Internal Medicine Calle 64 N°51 D - 154 Medellín Colombia University of Pittsburgh Department of Biomedical Informatics 5607 Baum Blvd PittsburghPA15206 United States University of Pittsburgh Department of Neurology 3501 5th Avenue PittsburghPA15206 United States Boston Children's Hospital Computational Health Informatics Program 300 Longwood Avenue BostonMA02115 United States Boston Children's Hospital Department of Pediatrics 300 Longwood Avenue BostonMA02115 United States National University Health System Department of Surgery 1E Kent Ridge Rd Singapore119228 Singapore National University Health System Department of Diagnostic Imaging 1E Kent Ridge Rd Singapore119228 Singapore University of Michigan Department of Learning Health Sciences NCRC 100 2800 Plymouth Road Ann ArborMI48109 United States University of Kansas Medical Center Department of Surgery 3901 Rainbow Blvd Kansas CityKS66160 United States Istituti Clinici Scientifici Maugeri IRCCS Respiratory rehabilitation unit Via Maugeri 10 Pavia27100 Italy University of Kansas Medical Center 3901 Rainbow Blvd Kansas CityKS66160 United States University of Pavia Department of Electrical Computer and Biomedical Engineering via Ferrata 5 Pavia2710

Background: Physicians invest hours creating patient notes, which are rich in information but difficult for computers to analyze due to their unstructured format. GPT-4 reshaped our ability to process text, yet it is unknown how well this model can handle medical notes. This project aims to compare GPT-4’s ability to annotate medical notes against experienced physicians across three different languages at multiple institutions and countries. Methods: This study included eight sites from four countries - the United States, Colombia, Singapore, and Italy. Each site contributed seven de-identified notes (admission, progress, or consult) from hospitalized patients. GPT-4 assessed each note by answering 14 questions, including demographic information, clinical judgments, data quality, and patients’ eligibility for a hypothetical study enrollment. For validation, two physicians from each site independently evaluated GPT-4's responses. Findings: Overall, 56 medical notes, written in English, Italian, and Spanish, were analyzed. A total of 784 responses from GPT-4 were generated. Both physicians agreed with GPT-4’s response 79% of the time (622/784, 95%CI 76-82%). Only one of the two physicians agreed with GPT-4’s response 10% of the time (82/784, 95%CI 8-13%). Neither physician agreed with GPT-4’s response 10% of the time (80/784, 95%CI 8-13%). Both physicians agreed with GPT-4 more often in notes written in Spanish and Italian than in English, with agreement rates of 88% (86/98, 95%CI 79-93%), 84% (82/98, 95%CI 75-90%), and 77% (454/588, 95%CI 74-80%), respectively. Hallucinations were rare (10/784, 95%CI 0-2%). GPT-4 correctly selected patients for a hypothetical study enrollment based on three criteria 90% of the time (95%CI 81-98%). Interpretation: The findings indicate that GPT-4 annotations demonstrated a high agreement rate with physicians across all languages. We also demonstrate GPT-4's potential to assist in patient selection for studies. Funding: None. Declarati

关键词： Medical computing

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