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Parallelization in Scientific Workflow Management Systems [article]

Marc Bux, Ulf Leser
2013 arXiv   pre-print
Over the last two decades, scientific workflow management systems (SWfMS) have emerged as a means to facilitate the design, execution, and monitoring of reusable scientific data processing pipelines.  ...  This trend requires current SWfMS to adapt: Native support for parallel workflow execution must be provided to increase performance; dynamically scalable "pay-per-use" compute infrastructures have to be  ...  Acknowledgements We thank Astrid Rheinländer, Matthias Sax, Steffen Zeuch, and Jörgen Brandt for helpful comments on the manuscript.  ... 
arXiv:1303.7195v1 fatcat:3dkrhygau5c5dagphvg4fo3jjq

Enabling scalable scientific workflow management in the Cloud

Yong Zhao, Youfu Li, Ioan Raicu, Shiyong Lu, Wenhong Tian, Heng Liu
2015 Future generations computer systems  
Then, we present the key challenges in supporting Cloud workflows, and present our reference framework for scientific workflow management in the Cloud.  ...  We devise autonomous methods to integrate scientific workflow management systems with Cloud platforms and also provision resources for large scale workflows, which can facilitate scientists to easily manage  ...  Based on the service framework, we present our early effort in designing an integration framework for scientific workflow management in the Cloud, of which a Cloud workflow management service, a Cloud  ... 
doi:10.1016/j.future.2014.10.023 fatcat:myqbnunkk5dmdml4stdgvedk2y

FAIR Data Pipeline: provenance-driven data management for traceable scientific workflows [article]

Sonia Natalie Mitchell, Andrew Lahiff, Nathan Cummings, Jonathan Hollocombe, Bram Boskamp, Ryan Field, Dennis Reddyhoff, Kristian Zarebski, Antony Wilson, Bruno Viola, Martin Burke, Blair Archibald (+26 others)
2022 arXiv   pre-print
Such a tool provides a mechanism for the public, and fellow scientists, to better assess the trust that should be placed in scientific evidence, while allowing scientists to support policy-makers in openly  ...  Data management is further complicated by data being imprecisely identified when used.  ...  the volunteers in the Scottish COVID-19 Response Consortium formed as part of that initiative -https://www.gla.ac.uk/scrc -who contributed to this project, and in particular to the team at Man Group for  ... 
arXiv:2110.07117v2 fatcat:xoxyycp5uvhp7lwqb7uozxg6o4

Collaborative scientific workflows supporting collaborative science

Shiyong Lu, Jia Zhang
2011 International Journal of Business Process Integration and Management  
Recently, scientific workflows have emerged for scientists to integrate distributed computations, datasets, and analysis tools to enable and accelerate scientific discovery.  ...  This paper presents a disciplinary definition of this term, discusses the opportunities, requirements, and challenges of collaborative scientific workflows for the enablement of scientific collaboration  ...  Moreover, provenance management has become a critical functionality for scientific workflows [12] .  ... 
doi:10.1504/ijbpim.2011.040209 fatcat:5op5on2xgffhjabh7wgjrfuhai

Provenance and scientific workflows

Susan B. Davidson, Juliana Freire
2008 Proceedings of the 2008 ACM SIGMOD international conference on Management of data - SIGMOD '08  
We will (1) provide a general overview of scientific workflows, (2) describe research on provenance for scientific workflows and show in detail how provenance is supported in existing systems; (3) discuss  ...  Provenance in the context of workflows, both for the data they derive and for their specification, is an essential component to allow for result reproducibility, sharing, and knowledge re-use in the scientific  ...  Managing Provenance We first describe different kinds of provenance that can be captured for scientific workflows.  ... 
doi:10.1145/1376616.1376772 dblp:conf/sigmod/DavidsonF08 fatcat:amyv5b4rjbcthjlanmqfwd2wdy

Impact for whom? Mapping the users of public research with lexicon-based text mining

Andrea Bonaccorsi, Filippo Chiarello, Gualtiero Fantoni
2020 Scientometrics  
These maps might be a nice counterpart of university scientific research profiles, addressing the "for whom" question of the institution. Maps can be generated at various levels of granularity.  ...  Substantive and methodological challenges in the assessment of societal impact Impact for whom A promising perspective to address the issue of societal impact is opened by asking "impact for whom", or  ...  Patent text pre-processing: application of NLP tools on the patents with the aim of preparing them for the automatic analysis process. 4.  ... 
doi:10.1007/s11192-020-03803-z fatcat:2dduftt7wvfxpipdntpdvbwz4y

Explainable AI, but explainable to whom? [article]

Julie Gerlings, Millie Søndergaard Jensen, Arisa Shollo
2021 arXiv   pre-print
Our research explores the differing explanation needs amongst stakeholders during the development of an AI-system for classifying COVID-19 patients for the ICU.  ...  Yet, we still have a limited understanding of how xAI addresses the need for explainable AI in the context of healthcare.  ...  Instead, they may require more scientific explanations entailing more complexity [85] .  ... 
arXiv:2106.05568v1 fatcat:tinpmghy3jct3heichei6oqdna

Research Data: Who Will Share What, with Whom, When, and Why?

Christine L. Borgman
2010 Social Science Research Network  
Workflow and pipeline systems that call various other programs are used for managing data and analysis in some fields, but even these programs provide less than perfect records of data provenance, i.e.  ...  One aspect of this approach is that the design of systems should be driven by scientific needs rather than by data management per se.  ... 
doi:10.2139/ssrn.1714427 fatcat:7oe4cviom5fo7lbhqkz422spu4

Challenging the universality of job resources: Why, when, and for whom are they beneficial?

Marc Van Veldhoven, Anja Van den Broeck, Kevin Daniels, Arnold B. Bakker, Susana M. Tavares, Chidiebere Ogbonnaya
2019 Applied Psychology  
Scientific Management Early approaches such as Taylor's (1911) Scientific Management theory proposed that employees would perform well if their work is highly specialized and simplified, and their working  ...  Scientific Management theory (Taylor, 1911) Focuses on the analysis, synthesis, and efficiency of work processes.  ... 
doi:10.1111/apps.12211 fatcat:iq7gzrttjrat3lcsxe7lslsuji

Improving Diagnostic Performance for Thyroid Nodules Classified as Bethesda Category III or IV: How and by Whom Ultrasonography Should be Performed

Gregorio Scerrino, Gianfranco Cocorullo, Sergio Mazzola, Giuseppina Melfa, Giuseppina Orlando, Iole Laise, Alessandro Corigliano, Daniela Lo Brutto, Calogero Cipolla, Giuseppa Graceffa
2021 Journal of Surgical Research  
The mean age was 52 years for the malignancy group and 58 y for the benign group (P < 0.001).  ...  Fisher's exact test was used for the univariate analysis; Odd's ratios were calculated for the multivariate analysis. 248 patients had malignancy at histology, 322 were benign.  ...  In addition, it could be assumed that patients in the Bethesda III cytopathologic category, not all of whom have undergone surgery, were preselected as per some risk factors generally accepted by the scientific  ... 
doi:10.1016/j.jss.2020.12.009 pmid:33610055 fatcat:xl3mcwjo3bhqppkspowg2mxtva

A Wireless Health Outcomes Monitoring System (WHOMS): development and field testing with cancer patients using mobile phones

Emilia Bielli, Fabio Carminati, Stella La Capra, Micaela Lina, Cinzia Brunelli, Marcello Tamburini
2004 BMC Medical Informatics and Decision Making  
Methods: We have developed a prototype of a Wireless Health Outcomes Monitoring System, which allows structured questionnaires to be sent to the patient by their medical management team.  ...  The aim of this study was to develop a new system for transmitting patients' self-reported outcomes using mobile phones or the internet, and to test whether patients can and will use the system via a mobile  ...  Atkinson for reviewing the manuscript and providing invaluable suggestions.  ... 
doi:10.1186/1472-6947-4-7 pmid:15196308 pmcid:PMC441394 fatcat:hqszhk6oeffcrhcx6mdzjhpb2e

By Whom and When Is Women's Expertise Recognized? The Interactive Effects of Gender and Education in Science and Engineering Teams

Aparna Joshi
2014 Administrative Science Quarterly  
Acknowledgments Funding for this research was provided by a National Science Foundation Grant (#1307353).  ...  I am grateful for feedback from ASQ Associate Editor Katherine Klein and three anonymous reviewers.  ...  and for the team's scientific productivity.  ... 
doi:10.1177/0001839214528331 fatcat:7h2dzbjpuffedbhcdef4q2v6n4

Scientific workflows for bibliometrics

Arzu Tugce Guler, Cathelijn J. F. Waaijer, Magnus Palmblad
2016 Scientometrics  
Scientific workflows organize the assembly of specialized software into an overall data flow and are particularly well suited for multi-step analyses using different types of software tools.  ...  We here illustrate how scientific workflows and the Taverna workbench in particular can be used in bibliometrics.  ...  Yassene Mohammed (LUMC) for technical assistance with Taverna workbench.  ... 
doi:10.1007/s11192-016-1885-6 pmid:27122644 pmcid:PMC4833826 fatcat:u6dfuik24zapln7h4hvm57ldma

Digital libraries for the preservation of research methods and associated artifacts

Raúl Palma, Oscar Corcho, Piotr Hotubowicz, Sara Pérez, Kevin Page, Cezary Mazurek
2013 Proceedings of the 1st International Workshop on Digital Preservation of Research Methods and Artefacts - DPRMA '13  
For example, scientific workflows are executable descriptions of scientific procedures that define the sequence of computational steps in an automated data analysis, supporting reproducible research and  ...  together practices in digital libraries, preservation systems, workflow management, social networking and Semantic Web technologies.  ...  We acknowledge Gema Bueno for her early contributions on the compliance with preservation standards, and Graham Klyne and Stian Soiland-Reyes for their contributions to APIs.  ... 
doi:10.1145/2499583.2499589 fatcat:c6kcsug6i5bxnifbcflidow6rq

Lineage retrieval for scientific data processing: a survey

Rajendra Bose, James Frew
2005 ACM Computing Surveys  
lineage retrieval and a poor fit between current data management tools and scientific software.  ...  Accurately tracking the lineage (origin and subsequent processing history) of scientific data sets is thus imperative for the complete documentation of scientific work.  ...  The history file, which maintains a log of "what files have changed when, how, and by whom" [Date 2000 ] is available for browsing.  ... 
doi:10.1145/1057977.1057978 fatcat:glbarziup5eqpmqak3gw2uxdhu
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