Toward Crowdsourced Drug Discovery: Start-Up of the Volunteer Computing Project Sidock@Home
Total Page:16
File Type:pdf, Size:1020Kb
Load more
Recommended publications
-
BRINGING RESEARCH INTO the CLASSROOM T H E C I T I Z E N S C I E N C E a P P R O a C H I N S C H O O L S a SCIENTIX OBSERVATORY REPORT - APRIL 2019
BRINGING RESEARCH INTO THE CLASSROOM THE CITIZEN SCIENCE APPROACH IN SCHOOLS A SCIENTIX OBSERVATORY REPORT - APRIL 2019 B R T E C Scientix, the community for science education in Europe, facilitates regular dissemination and sharing of know-how and best practices in science education across the European Union (http://scientix.eu). In order to help the development and dissemination of different science education projects Scientix has set up the Scientix observatory which provides overviews on the state of play of different topics related to science education (http://www.scientix.eu/observatory). Publisher: European Schoolnet Please cite this publication as: Nistor, A. et al. (2019). Bringing Research into the Classroom – The Citizen Science approach in schools. Scientix Observatory report. April 2019, European Schoolnet, Brussels Keywords: Science, Technology, Engineering and Mathematics (STEM); Citizen Science; Participatory Science; School Education Authors: Nistor, A., Clemente-Gallardo, J., Angelopoulos, T., Chodzinska, K., Clemente-Gallardo, M., Gozdzik, A. , Gras-Velazquez, A., Grizelj, A., Kolenberg, K., Mitropoulou, D., Micallef Gatt, A. D., Tasiopoulou, E., Brunello, A., Echard, P., Arvaniti, V., Carroll, S., Cindea, N., Diamantopoulos, N., Duquenne, N. , Edrisy, S., Ferguson, E., Galani, L., Glezou, K., Kameas, A., Kirmaci, H., Koliakou, I., Konomi, E., Kontopidi, E., Kulic, S., Lefkos, I., Nikoletakis, G., Siotou, E., Šimac, A., Sormani, F., Tramonti, M., Tsapara, M., Tsourlidaki, E., Vojinovic, M. Design/DTP: Vanessa James Picture credit: Shutterstock, Pixabay Print run: 500 ISBN: 9789492913852 Published in April 2019. The views expressed in this publication are those of the authors and not necessarily those of EUN Partnership AISBL or the European Commission. The work presented in this document is supported by the European Commission’s Erasmus+ programme – project BRITEC, coordinated by the Institute of Geophysics, PAS and by the European Union’s H2020 research and innovation programme – project Scientix 3 (Grant agreement N. -
Volunteer Computing Different Grids for Different Needs
From the Web to the Grid How did the Grid start? • Name “Grid” chosen by analogy with electric power grid (Foster and Kesselman 1997) • Vision: plug-in computer for processing power just like plugging in toaster for electricity. • Concept has been around for decades (distributed computing, metacomputing) • Key difference with the Grid is to realise the vision on a global scale. From the Web to the Grid – 2007 HST 2011: Grids and Volunteer Computing Different Grids for different needs There is as yet no unified Grid, like there is a single web. Rather there are many Grids for many applications: • Enterprise Grids link together PCs within one company. • Volunteer computing links together public computers. • Scientific Grids link together major computing centres. • Latest trend federates national Grids into global Grid infrastructure. • High Energy Physics is a driving force for this. HST 2011: Grids and Volunteer Computing The LHC data challenge 1 Megabyte (1MB) • 40 million bunch collisions per second A digital photo 1 Gigabyte (1GB) = 1000MB • After filtering, ~100 collisions of 5GB = A DVD movie interest per second per detector 1 Terabyte (1TB) = 1000GB World annual book production • > 1 Megabyte of data per collision 1 Petabyte (1PB) recording rate > 1 Gigabyte/sec = 1000TB Annual production of one LHC experiment 10 • 10 collisions recorded each year 1 Exabyte (1EB) stored data ~15 Petabytes/year = 1000 PB 3EB = World annual information production …for more than 10 years HST 2011: Grids and Volunteer Computing Data Storage for the LHC Balloon (30 Km) • LHC data correspond to about 20 million CDs each year! CD stack with 1 year LHC data! (~ 20 Km) Concorde Where will the (15 Km) experiments store all of these data? Mt. -
Analysis and Predictions of DNA Sequence Transformations on Grids
Analysis and Predictions of DNA Sequence Transformations on Grids A Thesis Submitted for the Degree of Master of Science (Engineering) in the Faculty of Engineering By Yadnyesh R. Joshi Supercomputer Education and Research Centre INDIAN INSTITUTE OF SCIENCE BANGALORE – 560 012, INDIA August 2007 Acknowledgments First of all I would like to extend my sincere thanks to my research supervisor Dr. Sathish Vadhiyar for his constant guidance and support during the entire period of my post-graduation at IISc. He was always approachable, supportive and ready to help in any sort of problem. I am very thankful to him for being extremely patient and understanding about the silly mistakes that I had made. Under his guidance I learned to approach problems in an organized manner and set realistic goals for my research. I thank him for his extreme patience and excellent technical guidance in writing and presenting research. Finally, he was and continues to be my role model for his hard work and passion for research. I am also thankful to Dr. Nagasuma Chandra, Dr. Debnath Pal from S.E.R.C. and Dr. Narendra Dixit from Chemical Engineering department for their very useful and interesting insights into the biological domain of our research. I am also thankful to all the faculty of S.E.R.C. for always inspiring us with their motivational talks. I would like to mention the names of my colleagues Sandip, Sanjay, Rakhi, Sundari, Antoine and Roshan for making their technical and emotional support. Special thanks to vatyaa kya group members for the adventures and the routines inside and outside the institute. -
"Challenges and Formal Aspects of Volunteer Computing"
BUDAPEST UNIVERSITY OF TECHNOLOGY AND ECONOMICS FACULTY OF ELECTRICAL ENGINEERING AND INFORMATICS DEPARTMENT OF AUTOMATION AND APPLIED INFORMATICS Attila Csaba Marosi Önkéntes Számítási Rendszerek Kihívásai és Formális Aspektusai Challenges and Formal Aspects of Volunteer Computing Ph.D. Thesis Thesis Advisors: Péter Kacsuk MTA SZTAKI, LPDS Sándor Juhász BME, AUT Budapest, 2016. ‘‘The important thing is not to stop questioning. Curiosity has its own reason for existing. One cannot help but be in awe when he contemplates the mysteries of eternity, of life, of the marvelous structure of reality. It is enough if one tries merely to comprehend a little of this mystery every day. Never lose a holy curiosity.’’ -- Albert Einstein Abstract Volunteer Computing (VC) and Desktop Grid (DG) systems collect and make available the donated the resources from non-dedicated computers like office and home desktops. VC systems are usually deployed to solve a grand compute intensive problem by researchers who either don’t have access to or don’t have the resources to buy a dedicated infrastruc- ture; or simply don’t want to maintain such an infrastructure. VC and DG paradigms seem similar, however they target different use cases and environments: DG systems operate within the boundaries of institutes, while VC systems collect resources from the publicly accessible internet. Evidently VC resembles DGs whereas DGs are not fully equivalent to VC. Contrary to “traditional grids” [1,2] there is no formal definition for the relationship of DG and VC that could be used to categorize existing systems. There are informal at- tempts to categorize them and compare with grid systems [3,4,5]. -
Analyzing Daily Computing Runtimes on the World Community Grid
https://doi.org/10.48009/3_iis_2020_289-297 Issues in Information Systems Volume 21, Issue 3, pp. 289-297, 2020 EXPLORING GRID COMPUTING & VOLUNTEER COMPUTING: ANALYZING DAILY COMPUTING RUNTIMES ON THE WORLD COMMUNITY GRID Kieran Raabe, Bloomsburg University of Pennsylvania, [email protected] Loreen M. Powell, Bloomsburg University of Pennsylvania, [email protected] ABSTRACT In the early 1990s, the concept of grid computing was little more than a simple comparison which stated that making computing power as accessible as electricity from a power grid. Today, grid computing is far more complex. Grid computing involves utilizing unused computing power from devices across the globe to run calculations and simulations and submit the results to move a project closer to its goal. Some projects, such as World Community Grid, work to achieve numerous goals, herein referred to as subprojects. The goal of this research is to explore grid computing and volunteer computing. Specifically, this research involved a daily collection of statistics on daily results returned to World Community Grid and daily computing runtimes for three subprojects named Africa Rainfall Project, Microbiome Immunity Project, and Help Stop TB. The data collection lasted four weeks and resulted in five graphs for each subproject being created with the collected data. Results revealed a correlation between daily results returned and daily runtimes, with each data point for results returned being slightly lower than the runtime data point from the same day. Keywords: Grid Computing, Volunteer Computing, BOINC, World Community Grid INTRODUCTION The concept of grid computing has existed since the early 1990s. Originally “a metaphor for making computer power as easy to access by the user as electricity from a power grid” (Dutton & Jeffreys, 2010). -
The Social Cloud for Public Eresearch
The Social Cloud for Public eResearch by Koshy John A thesis submitted to the Victoria University of Wellington in fulfilment of the requirements for the degree of Master of Engineering in Network Engineering. Victoria University of Wellington 2012 Abstract Scientific researchers faced with extremely large computations or the re- quirement of storing vast quantities of data have come to rely on dis- tributed computational models like grid and cloud computing. However, distributed computation is typically complex and expensive. The Social Cloud for Public eResearch aims to provide researchers with a platform to exploit social networks to reach out to users who would otherwise be unlikely to donate computational time for scientific and other research ori- ented projects. This thesis explores the motivations of users to contribute computational time and examines the various ways these motivations can be catered to through established social networks. We specifically look at integrating Facebook and BOINC, and discuss the architecture of the functional system and the novel social engineering algorithms that power it. ii Acknowledgments I would first like to thank my parents, John Koshy and Susan John, for their unwavering love and support in all my endeavours. I would like to thank my supervisor, Kris Bubendorfer, for his valuable guidance and support throughout my thesis. Kyle Chard and Ben Palmer have my thanks for their contributions and feedback in the course of au- thoring the IEEE e-Science paper on the Social Cloud for Public eResearch. Many thanks are also due to Andy Linton for his help with managing the development and test server for the Social Cloud for Public eResearch. -
EDGES Project Meeting
International Desktop Grid Federation - Support Project Contract number: FP7-312297 Desktop Grids for e-Science Road Map Project deliverable: D5.5.1 Due date of deliverable: 2013-10-31 Actual submission date: 2013-12-27 Lead beneficiary: AlmereGrid Workpackage: WP5 Dissemination Level: PU Version: 1.2 (Final) IDGF-SP is supported by the FP7 Capacities Programme under contract nr FP7-312297. D5.5.1 – Desktop Grids for e-Science Road Map CopyriGht (c) 2013. MemBers of IDGF-SP consortium, see http://IDGF-SP.eu for details on the copyriGht holders. You are permitted to copy and distriBute verBatim copies of this document containinG this copyriGht notice But modifyinG this document is not allowed. You are permitted to copy this document in whole or in part into other documents if you attach the followinG reference to the copied elements: ‘Copyright (c) 2013. Members of IDGF-SP consortium - http://IDGF-SP.eu’. The commercial use of any information contained in this document may require a license from the proprietor of that information. The IDGF-SP consortium memBers do not warrant that the information contained in the deliveraBle is capaBle of use, or that use of the information is free from risk, and accept no liaBility for loss or damaGe suffered By any person and orGanisation usinG this information. WP3 © 2013. Members of IDGF-SP consortium - http://IDGF-SP.eu 2/8 D5.5.1 – Desktop Grids for e-Science Road Map Table of Contents 1 Status and ChanGe History ................................................................................................. -
Citizen Science for Environmental Policy: Development of an EU-Wide Inventory and Analysis of Selected Practices
Citizen science for environmental policy: Development of an EU-wide inventory and analysis of selected practices Bio Innovation Service, in collaboration with Fundación Ibercivis and The Natural History Museum Citizen science for environmental policy Disclaimer The information and views set out in this report are those of the authors and do not necessarily reflect the official opinion of the Commission. The Commission does not guarantee the accuracy of the data included in this study. Neither the Commission nor any person acting on the Commission’s behalf may be held responsible for the use which may be made of the information contained therein. Project team Shailendra Mugdal (BIO Innovation Service) Anne Turbe (BIO Innovation Service) Francisco Sanz (Ibercivis) Jorge Barba (Ibercivis) Maite Pelacho (Ibercivis) Fermin Serrano-Sanz (Ibercivis) Lucy Robinson (Natural History Museum) Margaret Gold (Natural History Museum) Acknowledgments We would like to express our sincere thanks to all citizen science projects that invested their precious time in answering our questions, this study would not have been possible without their support. We also thank the colleagues at the European Commission: Sven Schade and Chrysi Tsinarki (JRC), José Miguel Rubio Iglesias (EEA); Marjan Van Merloo (DG RTD); Izabela Freytag (EASME); Liam Cashman (DG ENV); for their support and comments and Elena Montani (DG ENV) for overall guidance. Citation Bio Innovation Service (2018) Citizen science for environmental policy: development of an EU-wide inventory and analysis of selected practices. Final report for the European Commission, DG Environment under the contract 070203/2017/768879/ETU/ENV.A.3, in collaboration with Fundacion Ibercivis and The Natural History Museum, November 2018. -
Cell Spotting – Let’S Fight Cancer Together!
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Repositorio Universidad de Zaragoza Image courtesy of the National Institutes Health (NIH) Scanning electron micrograph of an apoptotic HeLa cell Cell spotting – let’s fight cancer together! “Tell me and I forget, teach me and I HeLa cells may remember, involve me and I learn,” HeLa cells are a special hu- Benjamin Franklin once said. Make that man cell line. They originate from a woman called Hen- quote yours and involve your students in a rietta Lacks, who died from cervical cancer in 1951. Her real cancer-research project that will teach doctor took some cells from them more than just genetics and cell death. her tumour and managed to grow them in a culture me- dium, developing the first human cell line. HeLa cells By António J Monteiro, Cândida cells without harming healthy cells. are the most widely used G Silva and José C Villar Existing chemotherapy treatments human cells in biology labs have failed to reach that ideal level of BACKGROUND across the world. fficient cancer drugs need to selectivity, but many research teams E selectively destroy tumour continue to look for compounds that 46 I Science in School I Issue 31 : Spring 2015 www.scienceinschool.org Teach could become the effective and side- the response of HeLa cells to different Biology effect-free drugs of tomorrow. chemical compounds. Biology The search for suitable compounds The Cell Spotting project Technology is performed primarily by robotic Ages 14–18 The Cell Spotting team is testing systems that quickly test and identify This article describes a stu- more than 14 000 chemical com- millions of candidate chemical com- dent-centred activity that pounds in HeLa cells and observing pounds: they put cancer cells together introduces the concept of their reaction using advanced optical with potential drugs and observe efficient cancer drugs and microscopy techniques. -
Multiagent Social Computing
56 International Journal of Web Portals, 3(4), 56-68, October-December 2011 Multiagent Social Computing Ben Choi, Louisiana Tech University, USA ABSTRACT This article provides a framework for extending social networks to social computing. When people join social networks, such as Facebook and discussion groups, their personal computers can also join the social networks. This framework facilitates sharing of computing resources among friends and groups. Computers of friends and groups act autonomously to help each other perform various tasks. The framework combines many key technologies, including intelligent agents, multi-agent system, object space, and parallel and distributed computing, into a new computing platform, which has been successfully implemented and tested. With this framework, any person will have access to not only the computing power of his or her own personal computer but also the vast computing power of a community of computers. The collective capabilities of humans and computers working in communities will create complementary capabilities of computing to achieve behaviors that transcend those of people and computers in isolation. The future of computing is moving from personal computers to societies of computers. Keywords: Cloud Computing, Intelligent Agents, Multi-Agent System, Parallel Distributed Processing, Social Computing, Social Network INTRODUCTION Internet can join computing communities and so does any networked computers, creating social This article extends the concept of socially computing systems ranging -
Volunteer Down: How COVID-19 Created the Largest Idling Supercomputer on Earth
future internet Perspective Volunteer Down: How COVID-19 Created the Largest Idling Supercomputer on Earth Nane Kratzke Department for Electrical Engineering and Computer Science, Lübeck University of Applied Sciences, 23562 Lübeck, Germany; [email protected] Received: 25 May 2020; Accepted: 3 June 2020; Published: 6 June 2020 Abstract: From close to scratch, the COVID-19 pandemic created the largest volunteer supercomputer on earth. Sadly, processing resources assigned to the corresponding Folding@home project cannot be shared with other volunteer computing projects efficiently. Consequently, the largest supercomputer had significant idle times. This perspective paper investigates how the resource sharing of future volunteer computing projects could be improved. Notably, efficient resource sharing has been optimized throughout the last ten years in cloud computing. Therefore, this perspective paper reviews the current state of volunteer and cloud computing to analyze what both domains could learn from each other. It turns out that the disclosed resource sharing shortcomings of volunteer computing could be addressed by technologies that have been invented, optimized, and adapted for entirely different purposes by cloud-native companies like Uber, Airbnb, Google, or Facebook. Promising technologies might be containers, serverless architectures, image registries, distributed service registries, and all have one thing in common: They already exist and are all tried and tested in large web-scale deployments. Keywords: volunteer computing; cloud computing; grid computing; HPC; supercomputing; microservice; nanoservice; container; cloud-native; serverless; platform; lessons-learned; COVID-19 1. Introduction On 28 April 2020, Greg Bowman—director of the volunteer computing (VC) project Folding@home— posted this on Twitter https://twitter.com/drGregBowman/status/1255142727760543744: @Folding@home is continuing its growth spurt! There are now 3.5 M devices participating, including 2.8 M CPUs (19 M cores!) and 700 K GPUs. -
Desktop Grids for Escience
Produced by the IDGF-SP project for the International Desktop Grid Federation A Road Map Desktop Grids for eScience Technical part – December 2013 IDGF/IDGF-SP International Desktop Grid federation http://desktopgridfederation.org Edited by Ad Emmen Leslie Versweyveld Contributions Robert Lovas Bernhard Schott Erika Swiderski Peter Hannape Graphics are produced by the projects. version 4.2 2013-12-27 © 2013 IDGF-SP Consortium: http://idgf-sp.eu IDGF-SP is supported by the FP7 Capacities Programme under contract nr RI-312297. Copyright (c) 2013. Members of IDGF-SP consortium, see http://degisco.eu/partners for details on the copyright holders. You are permitted to copy and distribute verbatim copies of this document containing this copyright notice but modifying this document is not allowed. You are permitted to copy this document in whole or in part into other documents if you attach the following reference to the copied elements: ‘Copyright (c) 2013. Members of IDGF-SP consortium - http://idgf-sp.eu’. The commercial use of any information contained in this document may require a license from the proprietor of that information. The IDGF-SP consortium members do not warrant that the information contained in the deliverable is capable of use, or that use of the information is free from risk, and accept no liability for loss or damage suffered by any person and organisation using this information. – 2 – Preface This document is produced by the IDGF-SP project for the International Desktop Grid Fe- deration. Please note that there are some links in this document pointing to the Desktop Grid Federation portal, that requires you to be signed in first.