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KLF2 maintains lineage fidelity and suppresses CD8 T cell exhaustion during acute LCMV infection

science (New York, N.Y.) 2025年第6735期387卷 eadn2337页

作者： Fagerberg, Eric Attanasio, John Dien, Christine Singh, Jaiveer Kessler, Emily A. Abdullah, Leena Shen, Jian Hunt, Brian G. Connolly, Kelli A. De Brouwer, Edward He, Jiaming Iyer, Nivedita R. Buck, Jessica Borr, Emily R. Damo, Martina Foster, Gena G. Giles, Josephine R. Huang, Yina H. Tsang, John S. Krishnaswamy, Smita Cui, Weiguo Joshi, Nikhil S. Department of Immunobiology Yale University School of Medicine New Haven CT United States Program in Computational Biology & Bioinformatics Yale University New Haven CT United States Department of Microbiology and Immunology Geisel School of Medicine at Dartmouth NH United States Department of Pathology Feinberg School of Medicine at Northwestern University Chicago IL United States Department of Genetics and Computer Science Yale University School of Medicine New Haven CT United States Department of Medicine University of Chicago Chicago IL United States Section of Hematology Department of Internal Medicine Yale University School of Medicine New Haven CT United States Department of Systems Pharmacology and Translational Therapeutics University of Pennsylvania Philadelphia PA United States Institute for Immunology Perelman School of Medicine University of Pennsylvania Philadelphia PA United States Parker Institute for Cancer Immunotherapy Perelman School of Medicine University of Pennsylvania Philadelphia PA United States Yale Center for Systems and Engineering Immunology Yale University School of Medicine New Haven CT United States New Haven CT United States Department of Biomedical Engineering Yale University New Haven CT United States Computational Biology and Bioinformatics Program Yale University CT USA New Haven United States Applied Math Program Yale University New Haven CT United States

Naïve CD8 T cells have the potential to differentiate into a spectrum of functional states during an immune response. How these developmental decisions are made and what mechanisms exist to suppress differentiation toward alternative fates remains unclear. We employed in vivo CRISPR-Cas9-based perturbation sequencing to assess the role of ~40 transcription factors (TFs) and epigenetic modulators in T cell fate decisions. Unexpectedly, we found that knockout of the TF Klf2 resulted in aberrant differentiation to exhausted-like CD8 T cells during acute infection. KLF2 was required to suppress the exhaustion-promoting TF TOX and to enable the TF TBET to drive effector differentiation. KLF2 was also necessary to maintain a polyfunctional tumor-specific progenitor state. Thus, KLF2 provides effector CD8 T cell lineage fidelity and suppresses the exhaustion program.

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Scientific discovery in the age of artificial intelligence

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NATURE 2023年第7978期621卷 E33-E33页

作者： Wang, Hanchen Fu, Tianfan Du, Yuanqi Gao, Wenhao Huang, Kexin Liu, Ziming Chandak, Payal Liu, Shengchao Van Katwyk, Peter Deac, Andreea Anandkumar, Anima Bergen, Karianne Gomes, Carla P. Ho, Shirley Kohli, Pushmeet Lasenby, Joan Leskovec, Jure Liu, Tie-Yan Manrai, Arjun Marks, Debora Ramsundar, Bharath Song, Le Sun, Jimeng Tang, Jian Velickovic, Petar Welling, Max Zhang, Linfeng Coley, Connor W. Bengio, Yoshua Zitnik, Marinka Department of Engineering University of Cambridge Cambridge UK Department of Computing and Mathematical Sciences California Institute of Technology Pasadena CA USA NVIDIA Santa Clara CA USA Department of Computational Science and Engineering Georgia Institute of Technology Atlanta GA USA Department of Computer Science Cornell University Ithaca NY USA Department of Chemical Engineering Massachusetts Institute of Technology Cambridge MA USA Department of Electrical Engineering and Computer Science Massachusetts Institute of Technology Cambridge MA USA Department of Computer Science Stanford University Stanford CA USA Department of Physics Massachusetts Institute of Technology Cambridge MA USA Harvard-MIT Program in Health Sciences and Technology Cambridge MA USA Mila – Quebec AI Institute Montreal Quebec Canada Université de Montréal Montreal Quebec Canada HEC Montréal Montreal Quebec Canada CIFAR AI Chair Toronto Ontario Canada Department of Earth Environmental and Planetary Sciences Brown University Providence RI USA Data Science Institute Brown University Providence RI USA Center for Computational Astrophysics Flatiron Institute New York NY USA Department of Astrophysical Sciences Princeton University Princeton NJ USA Department of Physics Carnegie Mellon University Pittsburgh PA USA Department of Physics and Center for Data Science New York University New York NY USA Google DeepMind London UK Department of Computer Science and Technology University of Cambridge Cambridge UK Microsoft Research Beijing China Department of Biomedical Informatics Harvard Medical School Boston MA USA Broad Institute of MIT and Harvard Cambridge MA USA Harvard Data Science Initiative Cambridge MA USA Kempner Institute for the Study of Natural and Artificial Intelligence Harvard University Cambridge MA USA Department of Systems Biology Harvard Medical School Boston MA USA Deep Forest Sciences Palo Alto CA USA BioMap Beijing China Mo

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Mine-to-client planning with Markov Decision Process

Mine-to-client planning with Markov Decision Process

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European Control Conference (ECC)

作者： João Marcelo Leal Gomes Leite Edilson F. Arruda Laura Bahiense Lino G. Marujo Industrial Engineering Program Alberto Luiz Coimbra Institute – Graduate School and Research in Engineering Federal University of Rio de Janeiro Rio de Janeiro Brazil Systems Engineer and Computer Science Program Alberto Luiz Coimbra Institute – Graduate School and Research in Engineering Federal University of Rio de Janeiro Rio de Janeiro Brazil

ISBN: (数字)9783907144022

ISBN: (纸本)9781728188133

This works presents an innovative application of Markov Decision Process (MDP) to a medium-term mining logistics planning problem considering the mine-to-client supply chain. We implemented three distinct algorithms based on state-of-the-art approaches to solve large-scale problems, and compared their results. Furthermore, we combined all three variants in a single novel algorithm that attained fast convergence and may be an alternative to circumvent the curse of dimensionality underlying large scale problems.

关键词： Supply chains Planning Uncertainty Markov processes Computational modeling

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Bio-inspired Butterfly-shaped Patch Antenna Array for 2.4 GHz WLAN Applications

Bio-inspired Butterfly-shaped Patch Antenna Array for 2.4 GH...

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Antennas and Propagation Society International Symposium

作者： M. A. Oliveira S. M. A. Morais J. I. L. Araujo G. K. F. Serres A. J. R. Serres P. F. Silva P. H. F. Silva A. G. D'Assunção Graduation Program in Electrical Engineering Federal University of Campina Grande Campina Grande Brazil Graduation Program in Computer Engineering and Systems State University of Maranhão São Luís Brazil Graduation Program in Electrical Engineering Federal Institute of Education Science and Technology of Paraíba João Pessoa Brazil Federal University of Rio Grande do Norte Natal Brazil

ISBN: (数字)9781728166704

ISBN: (纸本)9781728166711

The design of a bio-inspired butterfly-shaped patch antenna array, generated by polar transformations, covering the wireless local area network (WLAN) band at 2.4 GHz (2.400-2.483 GHz), with similar and dissimilar elements is presented in this paper. The dissimilar bio-inspired antenna presented a bandwidth of 96MHz covering the IEEE802.11b, g band, maximum gain of 8.64dBi, concentrated half power beamwidth of 52 degrees and front-to-back ratio of 15.21dB.

关键词： Wireless LAN Protocols Shape Patch antennas Meetings Bandwidth Antenna arrays

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Haptic display for virtual reality: progress and challenges

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Virtual Reality & Intelligent Hardware 2019年第2期1卷 136-162页

作者： Dangxiao WANG Yuan GUO Shiyi LIU Yuru ZHANG Weiliang XU Jing XIAO State Key Laboratory of Virtual Reality Technology and Systems Beihang UniversityBeijing 100083China Beijing Advanced Innovation Center for Biomedical Engineering Beihang UniversityBeijing 100083China Peng Cheng Laboratory Shenzhen 518055China Department of Mechanical Engineering University of AucklandAuckland 1142New Zealand School of Computer Science and the Robotics Engineering Program Worcester Polytechnic InstituteWorcesterMA 01609-2280USA

Immersion, interaction, and imagination are three features of virtual reality (VR). Existing VR systems possess fairly realistic visual and auditory feedbacks, and however, are poor with haptic feedback, by means of which human can perceive the physical world via abundant haptic properties. Haptic display is an interface aiming to enable bilateral signal communications between human and computer, and thus to greatly enhance the immersion and interaction of VR systems. This paper surveys the paradigm shift of haptic display occurred in the past 30 years, which is classified into three stages, including desktop haptics, surface haptics, and wearable haptics. The driving forces, key technologies and typical applications in each stage are critically reviewed. Toward the future high-fidelity VR interaction, research challenges are highlighted concerning handheld haptic device, multimodal haptic device, and high fidelity haptic rendering. In the end, the importance of understanding human haptic perception for designing effective haptic devices is addressed.

关键词： Haptic display Virtual reality Desktop haptics Surface haptics Wearable haptics Multimodal haptics

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An Open-Source Knowledge Graph Ecosystem for the Life sciences

arXiv

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arXiv 2023年

作者： Callahan, Tiffany J. Tripodi, Ignacio J. Stefanski, Adrianne L. Cappelletti, Luca Taneja, Sanya B. Wyrwa, Jordan M. Casiraghi, Elena Matentzoglu, Nicolas A. Reese, Justin Silverstein, Jonathan C. Hoyt, Charles Tapley Boyce, Richard D. Malec, Scott A. Unni, Deepak R. Joachimiak, Marcin P. Robinson, Peter N. Mungall, Christopher J. Cavalleri, Emanuele Fontana, Tommaso Valentini, Giorgio Mesiti, Marco Gillenwater, Lucas A. Santangelo, Brook Vasilevsky, Nicole A. Hoehndorf, Robert Bennett, Tellen D. Ryan, Patrick B. Hripcsak, George Kahn, Michael G. Bada, Michael Baumgartner, William A. Hunter, Lawrence E. Computational Bioscience Program University of Colorado Anschutz Medical Campus AuroraCO80045 United States Department of Biomedical Informatics Columbia University Irving Medical Center New YorkNY10032 United States Computer Science Department Interdisciplinary Quantitative Biology University of Colorado Boulder BoulderCO80301 United States AnacletoLab Computer Science Department University of Milan 20122 Italy Intelligent Systems Program University of Pittsburgh PittsburghPA15260 United States Department of Physical Medicine and Rehabilitation School of Medicine University of Colorado Anschutz Medical Campus AuroraCO80045 United States Division of Environmental Genomics and Systems Biology Lawrence Berkeley National Laboratory BerkeleyCA94720 United States Semanticly Ltd Athens Greece Department of Biomedical Informatics University of Pittsburgh School of Medicine PittsburghPA15206 United States Laboratory of Systems Pharmacology Harvard Medical School BostonMA02115 United States Division of Translational Informatics University of New Mexico School of Medicine AlbuquerqueNM87131 United States SIB Swiss Institute of Bioinformatics Basel Switzerland Berlin Institute of Health at Charité-Universitatsmedizin Berlin10117 Germany ELLIS European Laboratory for Learning and Intelligent Systems Germany Department of Biomedical Informatics University of Colorado School of Medicine AuroraCO80045 United States Data Collaboration Center Critical Path Institute 1840 E River Rd. Suite 100 TucsonAZ85718 United States Computer Electrical and Mathematical Sciences & Engineering Division Computational Bioscience Research Center King Abdullah University of Science and Technology Thuwal23955-6900 Saudi Arabia Department of Pediatrics University of Colorado School of Medicine AuroraCO80045 United States Janssen Research and Development RaritanNJ08869 United States Division of General Internal Medicine University of Colorado School of Medicine A

Translational research requires data at multiple scales of biological organization. Advancements in sequencing and multi-omics technologies have increased the availability of these data, but researchers face significant integration challenges. Knowledge graphs (KGs) are used to model complex phenomena, and methods exist to construct them automatically. However, tackling complex biomedical integration problems requires flexibility in the way knowledge is modeled. Moreover, existing KG construction methods provide robust tooling at the cost of fixed or limited choices among knowledge representation models. PheKnowLator (Phenotype Knowledge Translator) is a semantic ecosystem for automating the FAIR (Findable, Accessible, Interoperable, and Reusable) construction of ontologically grounded KGs with fully customizable knowledge representation. The ecosystem includes KG construction resources (e.g., data preparation APIs), analysis tools (e.g., SPARQL endpoints and abstraction algorithms), and benchmarks (e.g., prebuilt KGs and embeddings). We evaluated the ecosystem by systematically comparing it to existing open-source KG construction methods and by analyzing its computational performance when used to construct 12 large-scale KGs. With flexible knowledge representation, PheKnowLator enables fully customizable KGs without compromising performance or usability. © 2023, CC BY.

关键词： Ecosystems

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Implementation of Mobile game for Religion Learning

Implementation of Mobile game for Religion Learning

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2019 IEEE International Conference on engineering, Technology and Education, TALE 2019

作者： Sulistiyo, Edy Vindy Anwar, Nizirwan Warnars, Diana Teresia Spits Wibawa, Setya Chendra Brotosaputro, Goenawan Kristiadi, Dedy Prasetya Warnars, Harco Leslie Hendric Spits Hashimoto, Kiyota Universitas Negeri Surabaya Electrical Engineering Department Jawa Timur60213 Indonesia School of Computer Science Bina Nusantara University Game Application Technology Program Jakarta11480 Indonesia Esa Unggul University Faculty of Computer Science Jakarta11510 Indonesia Bina Nusantara University Information Systems Department Jakarta11480 Indonesia Universitas Budi Luhur Information System Department Jakarta12260 Indonesia Raharja University Computer Science Department Tangerang15117 Indonesia Binus Graduate Program - Doctor of Computer Science Bina Nusantara University Computer Science Department Jakarta11480 Indonesia Prince Songkla University Faculty of Technology and Environment Phuket Campus Thailand

ISBN: (纸本)9781728126654

Currently, the growth of information and technology is rapid. It makes a lot of things in various fields including education becoming more effective and efficient. In education, one of its implementation which is a game is proven to be a useful tool to support conventional teaching methods and bring a more natural understanding of learning materials. Moreover, as a product of the popular culture in modern society, video game mirrors the general culture practice in real life and reflects it via its own culture inside the game. This makes a video game can give a contribution to the social construction of reality as it affects the player's view towards learning in real life and vice versa. From there, we see that there is an opportunity for learning about religion to be supported by its utilization to provide an interactive and fun learning experience. In this paper, we discuss how a video game is implemented to support religious learning. The game was developed with the scrum method where we surveyed to gather the user requirements before the design step. The game design was made by using the use case diagram and storyboard, and it was built using Unity version 2017.3.0f3. © 2019 IEEE.

关键词： Serious games

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Direct Comparison of RT-ddPCR and Targeted Amplicon Sequencing for SARS-CoV-2 Mutation Monitoring in Wastewater

SSRN

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SSRN 2022年

作者： Lou, Esther G. Sapoval, Nicolae McCall, Camille Bauhs, Lauren Carlson-Stadler, Russell Kalvapalle, Prashant Lai, Yanlai Palmer, Kyle Penn, Ryker Rich, Whitney Wolken, Madeline Ensor, Katherine B. Hopkins, Loren Treangen, Todd J. Stadler, Lauren B. Department of Civil and Environmental Engineering Rice University 6100 Main Street MS 519 HoustonTX77005 United States Department of Computer Science Rice University 6100 Main Street HoustonTX77005 United States Systems Synthetic and Physical Biology Graduate Program Rice University 6100 Main Street HoustonTX77005 United States Houston Health Department 8000 N. Stadium Dr. HoustonTX77054 United States Department of Statistics Rice University 6100 Main Street MS 138 HoustonTX77005 United States

Over the course of the COVID-19 pandemic, variants of SARS-CoV-2 have emerged that are more contagious and more likely to cause breakthrough infections. Targeted amplicon sequencing approach is a gold standard for identification and analysis of variants. However, when applied to environmental samples such as wastewater, it remains unclear how sensitive this method is for detecting variant-associated mutations in environmental samples. Here we directly compare a targeted amplicon sequencing approach (using ARTIC v3;hereafter referred to as sequencing) with RT-ddPCR quantification for the detection of five mutations that are characteristic of variants of concern (VoCs) in wastewater samples. In total, 547 wastewater samples were analyzed using both methods in parallel. When we observed positive mutation detections by RT-ddPCR, 42.6% of the detection events were missed by sequencing, due to negative detection or the limited read coverage at the mutation position. Further, when sequencing reported negative or depth-limited mutation detections, 26.7% of those events were instead positive detections by RT-ddPCR, highlighting the relatively poor sensitivity of sequencing. No or weak associations were observed between quantitative measurements of target mutations determined by RT-ddPCR and sequencing. These findings caution the use of quantitative measurements of SARS-CoV-2 variants in wastewater samples determined solely based on sequencing. © 2022, The Authors. All rights reserved.

关键词： SARS

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Spatio-temporal assessment of whole-body center of mass coordination on standard maximum vertical jump

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Gait & Posture 2022年 97卷 S208-S209页

作者： Rodrigues, C. Correia, M. Abrantes, J. Rodrigues, B. Nadal, J. Faculty of Engineering- University of Porto Biomedical Engineering Program Porto Portugal INESC TEC - Institute for Systems and Computer Engineering- Technology and Science C-BER - Centre for Biomedical Engineering Research Porto Portugal University of Porto Faculty of Engineering Porto Portugal Lusófona University- CICANT - Centre for Research in Applied Communication- Culture and New Technologies MovLab Laboratory of Technologies for Interactions and Interfaces Lisbon Portugal Federal University of Pernambuco Department of Electronic and Systems Recife Brazil Federal University of Rio de Janeiro Biomedical Engineering Program Rio de Janeiro Brazil

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Feasibility study of Information Technology Investment (a case study of ODOO ERP: Project Management Module Implementation in Indonesia Based Company)

Feasibility study of Information Technology Investment (a ca...

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International Conference on ICT For Smart Society (ICISS)

作者： Fredy Jingga Raymond Kosala Suhono Harso Supangkat Benny Ranti Computer Science Department BINUS Graduate Program - Doctor of Computer Science Information Systems Department School of Information Systems Bina Nusantara University Jakarta Indonesia Computer Science Department BINUS Graduate Program - Doctor of Computer Science Bina Nusantara University Jakarta Indonesia School of Electrical Engineering and Informatics Bandung Institute of Technology Bandung Indonesia

IT Governance are one of the needs in managing Enterprise Level IT. This study shows part of the decision domain of IT Governance Help, which are IT Investment and Prioritization. The purpose of this study is to determine feasibility of implementation open source ERP system Odoo project management module that replaces current system based on operational, economic, and technical aspects. The method used are Fit / Gap Analysis and Cost Benefit model using economic impact worksheet. The analysis is done by comparing the requirement with features owned by current system and Odoo ERP system. This research resulted that Odoo ERP System is feasible in the 3 aspects, the operational feasibility Odoo reaching 72% Fit, the economic feasibility with ROI of 84%, and technical feasibility indicating the technical requirement can be fulfilled by leasing AWS server. The conclusion is the open source ERP system Odoo project management module is feasible to be applied in terms of 3 aspects that have been studied, those are operational, economic, and technical.

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