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7th International Conference on Learning Representations, ICLR 2019

作者： Luo, Liangchen Xiong, Yuanhao Liu, Yan Sun, Xu MOE Key Lab of Computational Linguistics School of EECS Peking University China College of Information Science and Electronic Engineering Zhejiang University China Department of Computer Science University of Southern California United States Center for Data Science Beijing Institute of Big Data Research Peking University China

Adaptive optimization methods such as ADAGRAD, RMSPROP and ADAM have been proposed to achieve a rapid training process with an element-wise scaling term on learning rates. Though prevailing, they are observed to generalize poorly compared with SGD or even fail to converge due to unstable and extreme learning rates. Recent work has put forward some algorithms such as AMSGRAD to tackle this issue but they failed to achieve considerable improvement over existing methods. In our paper, we demonstrate that extreme learning rates can lead to poor performance. We provide new variants of ADAM and AMSGRAD, called ADABOUND and AMSBOUND respectively, which employ dynamic bounds on learning rates to achieve a gradual and smooth transition from adaptive methods to SGD and give a theoretical proof of convergence. We further conduct experiments on various popular tasks and models, which is often insufficient in previous work. Experimental results show that new variants can eliminate the generalization gap between adaptive methods and SGD and maintain higher learning speed early in training at the same time. Moreover, they can bring significant improvement over their prototypes, especially on complex deep networks. The implementation of the algorithm can be found at https://***/Luolc/AdaBound. © 7th International Conference on Learning Representations, ICLR 2019. All Rights Reserved.

关键词： Gradient methods

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Translation dysregulation in cancer as a source for targetable antigens

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Cancer Cell 2025年第5期43卷 823-840.e18,20页

作者： Weller, Chen Bartok, Osnat McGinnis, Christopher S. Palashati, Heyilimu Chang, Tian-Gen Malko, Dmitry Shmueli, Merav D. Nagao, Asuteka Hayoun, Deborah Murayama, Ayaka Sakaguchi, Yuriko Poulis, Panagiotis Khatib, Aseel Erlanger Avigdor, Bracha Gordon, Sagi Cohen Shvefel, Sapir Zemanek, Marie J. Nielsen, Morten M. Boura-Halfon, Sigalit Sagie, Shira Gumpert, Nofar Yang, Weiwen Alexeev, Dmitry Kyriakidou, Pelgia Yao, Winnie Zerbib, Mirie Greenberg, Polina Benedek, Gil Litchfield, Kevin Petrovich-Kopitman, Ekaterina Nagler, Adi Oren, Roni Ben-Dor, Shifra Levin, Yishai Pilpel, Yitzhak Rodnina, Marina Cox, Jürgen Merbl, Yifat Satpathy, Ansuman T. Carmi, Yaron Erhard, Florian Suzuki, Tsutomu Buskirk, Allen R. Olweus, Johanna Ruppin, Eytan Schlosser, Andreas Samuels, Yardena Department of Molecular Cell Biology Weizmann Institute of Science Rehovot 7610001 Israel Department of Pathology Stanford University Stanford 94305 CA United States Parker Institute for Cancer Immunotherapy San Francisco 94129 CA United States Department of Cancer Immunology Institute for Cancer Research Oslo University Hospital Oslo 0379 Norway Precision Immunotherapy Alliance University of Oslo Oslo Norway Cancer Data Science Laboratory Center for Cancer Research National Cancer Institute National Institutes of Health Bethesda 20892 MD United States Department of Systems Immunology Weizmann Institute of Science Rehovot 7610001 Israel Department of Chemistry and Biotechnology of Engineering The University of Tokyo Tokyo 113-8656 Japan Department of Physical Biochemistry Max Planck Institute for Multidisciplinary Sciences Göttingen 37077 Germany Department of Pathology Sackler School of Medicine Tel Aviv University Tel Aviv 69978 Israel Department of Immunology and Regenerative Biology Weizmann Institute of Science Rehovot 7610001 Israel Computational Systems Biochemistry Research Group Max-Planck Institute of Biochemistry Martinsried 82152 Germany Department of Veterinary Resources Weizmann Institute of Science Rehovot 7610001 Israel Tissue Typing and Immunogenetics Unit Hadassah Hebrew University Hospital Jerusalem 9112102 Israel CRUK Lung Cancer Centre of Excellence University College London Cancer Institute London WC1E 6DD United Kingdom Tumour Immunogenomics and Immunosurveillance Laboratory University College London Cancer Institute London WC1E 6DD United Kingdom Department of Life Science Core Facilities Weizmann Institute of Science Rehovot 7610001 Israel Bioinformatics Unit Department of Life Sciences Core Facilities Weizmann Institute of Science Rehovot 7610001 Israel de Botton Institute for Protein Profiling the Nancy and Stephen Grand Israel National Center for Personalized Medicine Weizmann Institute of Science Rehovot

Aberrant peptides presented by major histocompatibility complex (MHC) molecules are targets for tumor eradication, as these peptides can be recognized as foreign by T cells. Protein synthesis in malignant cells is dysregulated, which may result in the generation and presentation of aberrant peptides that can be exploited for T cell-based therapies. To investigate the role of translational dysregulation in immunological tumor control, we disrupt translation fidelity by deleting tRNA wybutosine (yW)-synthesizing protein 2 (TYW2) in tumor cells and characterize the downstream impact on translation fidelity and immunogenicity using immunopeptidomics, genomics, and functional assays. These analyses reveal that TYW2 knockout (KO) cells generate immunogenic out-of-frame peptides. Furthermore, Tyw2 loss increases tumor immunogenicity and leads to anti-programmed cell death 1 (PD-1) checkpoint blockade sensitivity in vivo. Importantly, reduced TYW2 expression is associated with increased response to checkpoint blockade in patients. Together, we demonstrate that defects in translation fidelity drive tumor immunogenicity and may be leveraged for cancer immunotherapy. © 2025 The Author(s)

关键词： cancer immunopeptidome immune checkpoint blockade neoantigens non-canonical peptides translation fidelity

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Perceptual and technical barriers in sharing and formatting metadata accompanying omics studies

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Cell Genomics 2025年第5期5卷 100845-100845页

作者： Huang, Yu-Ning Munteanu, Viorel Love, Michael I. Ronkowski, Cynthia Flaire Deshpande, Dhrithi Wong-Beringer, Annie Corbett-Detig, Russell Dimian, Mihai Moore, Jason H. Garmire, Lana X. Reddy, T.B.K. Butte, Atul J. Robinson, Mark D. Eskin, Eleazar Abedalthagafi, Malak S. Mangul, Serghei Department of Clinical Pharmacy Alfred E. Mann School of Pharmacy and Pharmaceutical Sciences University of Southern California Los Angeles 90089 CA United States Department of Computers Informatics and Microelectronics Technical University of Moldova Chisinau 2045 Moldova Department of Biological and Morphofunctional Sciences College of Medicine and Biological Sciences Stefan cel Mare University of Suceava Suceava 720229 Romania Department of Genetics University of North Carolina at Chapel Hill Chapel Hill 27514 NC United States Department of Biostatistics University of North Carolina at Chapel Hill Chapel Hill 27514 NC United States Department of Biomolecular Engineering University of California Santa Cruz Santa Cruz 95064 CA United States Genomics Institute University of California Santa Cruz Santa Cruz 95064 CA United States Department of Computers Electronics and Automation Stefan cel Mare University of Suceava Suceava 720229 Romania Department of Computational Biomedicine Cedars-Sinai Medical Center Los Angeles 90069 CA United States Department of Computational Medicine and Bioinformatics University of Michigan Medical School Ann Arbor 48105 MI United States US Department of Energy Joint Genome Institute Lawrence Berkeley National Laboratory Berkeley 94720 CA United States Bakar Computational Health Sciences Institute University of California San Francisco (UCSF) San Francisco 94143 CA United States Center for Data-Driven Insights and Innovation University of California Oakland Oakland 94607 CA United States SIB Swiss Institute of Bioinformatics and Department of Molecular Life Sciences University of Zurich Zurich 8057 Switzerland Department of Computer Science University of California Los Angeles Los Angeles CA United States Department of Computational Medicine University of California Los Angeles Los Angeles CA United States Department of Human Genetics University of California Los Angeles Los Angeles CA United Stat

Metadata, or “data about data,” is essential for organizing, understanding, and managing large-scale omics datasets. It enhances data discovery, integration, and interpretation, enabling reproducibility, reusability, and secondary analysis. However, metadata sharing remains hindered by perceptual and technical barriers, including the lack of uniform standards, privacy concerns, study design limitations, insufficient incentives, inadequate infrastructure, and a shortage of trained personnel. These challenges compromise data reliability and obstruct integrative meta-analyses. Addressing these issues requires standardization, education, stronger roles for journals and funding agencies, and improved incentives and infrastructure. Looking ahead, emerging technologies such as artificial intelligence and machine learning may offer promising solutions to automate metadata processes, increasing accuracy and scalability. Fostering a collaborative culture of metadata sharing will maximize the value of omics data, accelerating innovation and scientific discovery. © 2025 The Authors

关键词： barriers in metadata sharing practices data metadata metadata completeness

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One-dimensional deep low-rank and sparse network for accelerated MRI

arXiv

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arXiv 2021年

作者： Wang, Zi Qian, Chen Guo, Di Sun, Hongwei Li, Rushuai Zhao, Bo Qu, Xiaobo Department of Electronic Science Biomedical Intelligent Cloud R&D Center Fujian Provincial Key Laboratory of Plasma and Magnetic Resonance National Institute for Data Science in Health and Medicine Xiamen University China School of Computer and Information Engineering Xiamen University of Technology Xiamen China United Imaging Research Institute of Intelligent Imaging Beijing China Department of Nuclear Medicine Nanjing First Hospital Nanjing Medical University Nanjing China Department of Biomedical Engineering Oden Institute for Computational Engineering and Sciences University of Texas at Austin Austin United States

Deep learning has shown astonishing performance in accelerated magnetic resonance imaging (MRI). Most state-of-the-art deep learning reconstructions adopt the powerful convolutional neural network and perform 2D convolution since many magnetic resonance images or their corresponding k-space are in 2D. In this work, we present a new approach that explores the 1D convolution, making the deep network much easier to be trained and generalized. We further integrate the 1D convolution into the proposed deep network, named as One-dimensional Deep Low-rank and Sparse network (ODLS), which unrolls the iteration procedure of a low-rank and sparse reconstruction model. Extensive results on in vivo knee and brain datasets demonstrate that, the proposed ODLS is very suitable for the case of limited training subjects and provides improved reconstruction performance than state-of-the-art methods both visually and quantitatively. Additionally, ODLS also shows nice robustness to different undersampling scenarios and some mismatches between the training and test data. In summary, our work demonstrates that the 1D deep learning scheme is memory-efficient and robust in fast MRI. Copyright © 2021, The Authors. All rights reserved.

关键词： Magnetic resonance imaging

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Multi-armed Bandit Experimental Design: Online Decision-Making and Adaptive Inference

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Management science 2024年第6期71卷 iv-vi, 4533-5418页

作者： David Simchi-Levi Chonghuan Wang Institute for Data Systems and Society Massachusetts Institute of Technology CambridgeMA02139 United States Department of Civil and Environmental Engineering Massachusetts Institute of Technology CambridgeMA02139 United States Operations Research Center Massachusetts Institute of Technology CambridgeMA02139 United States Center for Computational Science and Engineering Massachusetts Institute of Technology CambridgeMA02139 United States

Multi-armed bandit has been well known for its efficiency in online decision-making in terms of minimizing the loss of the participants’ welfare during experiments (i.e., the regret). In clinical trials and many other scenarios, the statistical power of inferring the treatment effects (i.e., the gaps between the mean outcomes of different arms) is also crucial. Nevertheless, minimizing the regret entails harming the statistical power of estimating the treatment effect because the observations from some arms can be limited. In this paper, we investigate the trade-off between efficiency and statistical power by casting the multi-armed bandit experimental design into a minimax multi-objective optimization problem . We introduce the concept of Pareto optimality to mathematically characterize the situation in which neither the statistical power nor the efficiency can be improved without degrading the other. We derive a useful sufficient and necessary condition for the Pareto optimal solutions to the minimax multi-objective optimization problem. Additionally, we design an effective Pareto optimal multi-armed bandit experiment that can be tailored to different levels of the trade-off between the two objectives. Moreover, we extend the design and analysis to the setting where the outcome of each arm consists of an adversarial baseline reward and a stochastic treatment effect, demonstrating the robustness of our design. Finally, motivated by clinical trials, we examine the setting where the employed experiment must split the experimental units into a small number of batches, and we propose a flexible Pareto optimal design. This paper was accepted by George Shanthikumar, data science. Funding: The authors thank the Massachusetts Institute of Technology (MIT)-IBM partnership in Artificial Intelligence and the MIT data science Laboratory for support. Supplemental Material: The online appendix and data files are available at https://***/10.1287/mnsc.2023.00492

关键词： adaptive experimental design multi-armed bandit minimax multi-objective optimization Pareto optimality

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Complex diffusion-based kinetics of photoluminescence in semiconductor nanoplatelets

arXiv

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arXiv 2021年

作者： Kurilovich, Aleksandr A. Mantsevich, Vladimir N. Stevenson, Keith J. Chechkin, Aleksei V. Palyulin, Vladimir V. Center for Energy Science and Technology Skolkovo Institute of Science and Technology Moscow121205 Russia Semiconductors and Cryoelectronics & Quantum Technology Center Physics department Lomonosov Moscow State University Moscow119991 Russia Institute for Physics & Astronomy University of Potsdam Potsdam-GolmD-14476 Germany Akhiezer Institute for Theoretical Physics National Science Center Kharkov Institute of Physics and Technology Kharkov61108 Ukraine Center for Computational and Data-Intensive Science and Engineering Skolkovo Institute of Science and Technology Moscow121205 Russia

We present a diffusion-based simulation and theoretical models for explanation of photoluminescence (PL) emission intensity in semiconductor nanoplatelets. It is shown that the shape of PL intensity curves can be reproduced by the interplay of recombination, diffusion and trapping of excitons. The emission intensity at short times is purely exponential and is defined by recombination. At long times it is governed by the release of excitons from surface traps and is characterized by a power-law tail. We show that the crossover from one limit to another is controlled by diffusion properties. This intermediate region exhibits a rich behaviour depending on the value of diffusivity. Proposed approach reproduces all the features of experimental curves measured for different nanoplatelet systems. Copyright © 2021, The Authors. All rights reserved.

关键词： Diffusion

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Towards a widespread usage of computational fluid dynamics simulations for automated virtual nasal surgery planning

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Future Generation Computer Systems 2026年 174卷

作者： Mario Rüttgers Moritz Waldmann Fabian Hübenthal Klaus Vogt Makoto Tsubokura Sangseung Lee Andreas Lintermann Data-Driven Fluid Engineering (DDFE) Laboratory Inha University Incheon South Korea Institute of Aerodynamics and Chair of Fluid Mechanics (AIA) RWTH Aachen University Germany Faculty of Medicine Center of Experimental Surgery University of Latvia 1586 Riga Latvia Department of Computational Science Graduate School of System Informatics Kobe University Japan Complex Phenomena Unified Simulation Research Team RIKEN Center for Computational Science Kobe Japan Jülich Supercomputing Centre (JSC) Forschungszentrum Jülich GmbH Germany

Efficient computational approaches are crucial for advancing computational fluid dynamics (CFD)-based automated planning in nasal surgeries, such as septoplasties and turbinectomies. This study introduces a hybrid lattice-Boltzmann and level-set method to address the trade-off between computational cost and automation. By interpolating geometry variations in discrete steps between pre-surgical and target states, the approach achieves computational efficiency with only 21 surface variations per intervention. Previous methods rely on more costly coupling strategies, such as reinforcement learning or thermal modeling, which may still be appropriate for complex planning scenarios involving multiple intervention sites or thermal flow analysis. In contrast, the presented method reduces complexity while retaining key predictive capabilities, making it particularly suitable for widespread, time-sensitive clinical use focused on a single surgical intervention. Fluid mechanical metrics, including pressure loss and volume flow rate balance, are evaluated alongside tissue removal volume to recommend optimized surgical plans. Case studies on three patients demonstrate tissue savings of 12–25% without compromising key flow parameters. Additionally, a non-linear regression model trained on as few as 11 CFD simulations predicts pressure loss and flow rates with errors below 4%, and reduces computational costs by 50%. The proposed framework represents a significant step toward making CFD-based virtual nasal surgery planning more accessible and practical.

关键词： Septoplasty Turbinectomy Non-linear regression

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Meta-analysis of computational methods for breast cancer classification

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International Journal of Intelligent Information and database Systems 2020年第1期13卷 89-111页

作者： Pham, Tri-Cong Luong, Chi-Mai Doucet, Antoine Hoang, Van-Dung Tran, Diem-Phuc Le, Duc-Hau School of Computer Science and Engineering Thu-yloi University 175 Tay Son Dong Da Hanoi Viet Nam Department of Informatics and Communication Technology University of Science and Technology of Hanoi Hanoi Viet Nam Vietnam Academy of Science and Technology 18 Hoang Quoc Viet Cau Giay Hanoi Viet Nam Institute of Information Technology Vietnam Academy of Science and Technology 18 Hoang Quoc Viet Cau Giay Hanoi Viet Nam Laboratory L3i University of La Rochelle France QuangBinh University Dong Hoi Quang Binh Viet Nam DuyTan University Da Nang Viet Nam Department of Computational Biomedicine Vingroup Big Data Institute No 7 Bang Lang 1 Street Viet Hung Ward Hanoi Viet Nam

Millions of women are suffering from breast cancer pressing burden on their shoulders and the global economy. Meanwhile, general treatment methods are applied without considering personalised health and genetic features. Artificial intelligence appears to be a robust method for breast cancer sub-typing. Most of researches have been implemented on binary classification with limited number of data samples. Multi-classification is much more difficult especially on large number of samples. The study aims to use machine learning to find better ways to subtype breast cancer as well as find new disease causative genes which help facilitate more personalised treatment with limited side effect in the future. This study compares the accuracy of three classification methods in combination with eight feature selection methods on a dataset of 2,682 samples. The study shows that the highest accuracy was 83.96% with the SVM-C005 classifier and percentile feature selection (800 genes). Additionally, our method can predict causative disease genes of breast cancer with four of them known to be associated with breast cancer and 29 promising ones with supporting evidence from the literature. This shows the effectiveness of our research. Copyright © 2020 Inderscience Enterprises Ltd.

关键词： Gene expression

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DeePMD-kit v2: A software package for Deep Potential models

arXiv

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arXiv 2023年

作者： Zeng, Jinzhe Zhang, Duo Lu, Denghui Mo, Pinghui Li, Zeyu Chen, Yixiao Rynik, Marián Huang, Li'ang Li, Ziyao Shi, Shaochen Wang, Yingze Ye, Haotian Tuo, Ping Yang, Jiabin Ding, Ye Li, Yifan Tisi, Davide Zeng, Qiyu Bao, Han Xia, Yu Huang, Jiameng Muraoka, Koki Wang, Yibo Chang, Junhan Yuan, Fengbo Bore, Sigbjørn Løland Cai, Chun Lin, Yinnian Wang, Bo Xu, Jiayan Zhu, Jia-Xin Luo, Chenxing Zhang, Yuzhi Goodall, Rhys E.A. Liang, Wenshuo Singh, Anurag Kumar Yao, Sikai Zhang, Jingchao Wentzcovitch, Renata Han, Jiequn Liu, Jie Jia, Weile York, Darrin M. Weinan, E. Car, Roberto Zhang, Linfeng Wang, Han Laboratory for Biomolecular Simulation Research Institute for Quantitative Biomedicine Department of Chemistry and Chemical Biology Rutgers University PiscatawayNJ08854 United States AI for Science Institute Beijing100080 China DP Technology Beijing100080 China Academy for Advanced Interdisciplinary Studies Peking University Beijing100871 China HEDPS CAPT College of Engineering Peking University Beijing100871 China College of Electrical and Information Engineering Hunan University Changsha China Yuanpei College Peking University Beijing100871 China Program in Applied and Computational Mathematics Princeton University PrincetonNJ08540 United States Department of Experimental Physics Comenius University Mlynská Dolina F2 Bratislava842 48 Slovakia Center for Quantum Information Institute for Interdisciplinary Information Sciences Tsinghua University Beijing100084 China Center for Data Science Peking University Beijing100871 China ByteDance Research Zhonghang Plaza No. 43 North 3rd Ring West Road Haidian District Beijing China College of Chemistry and Molecular Engineering Peking University Beijing100871 China Baidu Inc. Beijing China Key Laboratory of Structural Biology of Zhejiang Province School of Life Sciences Westlake University Zhejiang Hangzhou China Westlake AI Therapeutics Lab Westlake Laboratory of Life Sciences and Biomedicine Zhejiang Hangzhou China Department of Chemistry Princeton University PrincetonNJ08544 United States SISSA Scuola Internazionale Superiore di Studi Avanzati Trieste34136 Italy Laboratory of Computational Science and Modeling Institute of Materials École Polytechnique Fédérale de Lausanne Lausanne1015 Switzerland Department of Physics National University of Defense Technology Hunan Changsha410073 China State Key Lab of Processors Institute of Computing Technology Chinese Academy of Sciences Beijing China University of Chinese Academy of Sciences Beijing China School of Electronics Engineerin

DeePMD-kit is a powerful open-source software package that facilitates molecular dynamics simulations using machine learning potentials (MLP) known as Deep Potential (DP) models. This package, which was released in 2017, has been widely used in the fields of physics, chemistry, biology, and material science for studying atomistic systems. The current version of DeePMD-kit offers numerous advanced features such as DeepPot-SE, attention-based and hybrid descriptors, the ability to fit tensile properties, type embedding, model deviation, Deep Potential - Range Correction (DPRc), Deep Potential Long Range (DPLR), GPU support for customized operators, model compression, non-von Neumann molecular dynamics (NVNMD), and improved usability, including documentation, compiled binary packages, graphical user interfaces (GUI), and application programming interfaces (API). This article presents an overview of the current major version of the DeePMD-kit package, highlighting its features and technical details. Additionally, the article benchmarks the accuracy and efficiency of different models and discusses ongoing developments. © 2023, CC BY-NC-ND.

关键词： Molecular dynamics

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Redefining pandemic preparedness:Multidisciplinary insights from the CERP modelling workshop in infectious diseases,workshop report

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Infectious Disease Modelling 2024年第2期9卷 501-518页

作者： Marta C.Nunes Edward Thommes Holger Fröhlich Antoine Flahault Julien Arino Marc Baguelin Matthew Biggerstaff Gaston Bizel-Bizellot Rebecca Borchering Giacomo Cacciapaglia Simon Cauchemez Alex Barbier-Chebbah Carsten Claussen Christine Choirat Monica Cojocaru Catherine Commaille-Chapus Chitin Hon Jude Kong Nicolas Lambert Katharina B.Lauer Thorsten Lehr Cédric Mahe Vincent Marechal Adel Mebarki Seyed Moghadas Rene Niehus Lulla Opatowski Francesco Parino Gery Pruvost Andreas Schuppert Rodolphe Thiébaut Andrea Thomas-Bachli Cecile Viboud Jianhong Wu Pascal Crépey Laurent Coudeville Center of Excellence in Respiratory Pathogens(CERP) Hospices Civils de Lyon(HCL)and Centre International de Recherche en Infectiologie(CIRI)Équipe SantéPubliqueÉpidémiologie etÉcologieÉvolutive des Maladies Infectieuses(PHE3ID)Inserm U1111CNRS UMR5308ENS de LyonUniversitéClaude Bernard Lyon 1LyonFrance South African Medical Research Council Vaccines&Infectious Diseases Analytics Research UnitFaculty of Health SciencesUniversity of the WitwatersrandJohannesburgSouth Africa New Products and Innovation(NPI) Sanofi Vaccines(Global)TorontoOntarioCanada Department of Mathematics and Statistics University of GuelphGuelphOntarioCanada Fraunhofer Institute for Algorithms and Scientific Computing(SCAI) Department of BioinformaticsSchloss BirlinghovenSankt AugustinGermany University of Bonn Bonn-Aachen International Center for IT(b-it)BonnGermany Institute of Global Health Faculty of MedicineUniversity of GenevaGenevaSwitzerland and Swiss School of Public HealthZürichSwitzerland Department of Mathematics University of ManitobaWinnipegManitobaCanada MRC Centre for Global Infectious Disease Analysis School of Public HealthImperial College LondonLondonUK Centre for Mathematical Modelling of Infectious Diseases Department of Infectious Disease EpidemiologyLondon School of Hygiene&Tropical MedicineLondonUK National Center for Immunization and Respiratory Diseases(NCIRD) US Centers for Disease Control and Prevention(CDC)AtlantaGAUSA Departement of Computational Biology Departement of Global HealthInstitut PasteurParisFrance Institut de Physique des Deux Infinis de Lyon(IP2I) UMR5822IN2P3/CNRSUniversitéClaude Bernard Lyon 1VilleurbanneFrance Mathematical Modelling of Infectious Diseases Unit Institut PasteurUniversitéParis CitéUMR2000 CNRSParisFrance Decision and Bayesian Computation Institut PasteurUniversitéParis CitéCNRS UMR 3571France Fraunhofer-Institute for Translational Medicine and Pharmacology HamburgGermany Institute of Global Health Faculty of MedicineUniversity of

In July 2023,the Center of Excellence in Respiratory Pathogens organized a two-day workshop on infectious diseases modelling and the lessons learnt from the Covid-19 *** report summarizes the rich discussions that occurred during the *** workshop participants discussed multisource data integration and highlighted the benefits of combining traditional surveillance with more novel data sources like mobility data,social media,and wastewater *** advancements were noted in the development of predictive models,with examples from various countries showcasing the use of machine learning and artificial intelligence in detecting and monitoring disease *** role of open collaboration between various stakeholders in modelling was stressed,advocating for the continuation of such partnerships beyond the pandemic.A major gap identified was the absence of a common international framework for data sharing,which is crucial for global pandemic ***,the workshop underscored the need for robust,adaptable modelling frameworks and the integration of different data sources and collaboration across sectors,as key elements in enhancing future pandemic response and preparedness.

关键词： Modelling Covid-19 Infectious diseases Pandemic preparedness Workshop

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