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作者： Gadelha Jr., Luiz M.R. Clifford, Ben Mattoso, Marta Wilde, Michael Foster, Ian Computer and Systems Engineering Program Federal University of Rio de Janeiro Brazil National Laboratory for Scientific Computing Brazil Computation Institute University of Chicago United States Mathematics and Computer Science Division Argonne National Laboratory United States

The Swift parallel scripting language allows for the specification, execution and analysis of large-scale computations in parallel and distributed environments. It incorporates a data model for recording and querying provenance information. In this article we describe these capabilities and evaluate the interoperability with other systems through the use of the Open Provenance Model. We describe Swift's provenance data model and compare it to the Open Provenance Model. We also describe and evaluate activities performed within the Third Provenance Challenge, which consisted of implementing a specific scientific workflow, capturing and recording provenance information of its execution, performing provenance queries, and exchanging provenance information with other systems. Finally, we propose improvements to both the Open Provenance Model and Swift's provenance system. © 2011 Elsevier B.V. All rights reserved.

关键词： Interoperability

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Exploring provenance in high performance scientific computing

Exploring provenance in high performance scientific computin...

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1st Annual 2011 Workshop on High-Performance Computing Meets Databases, HPCDB'11, Co-located with Supercomputing, SC'11

作者： Gadelha Jr., Luiz M.R. Wilde, Michael Mattoso, Marta Foster, Ian Computer and Systems Engineering Program Federal University of Rio de Janeiro Brazil National Laboratory for Scientific Computing Brazil Mathematics and Computer Science Division Argonne National Laboratory United States Computation Institute Argonne National Laboratory University of Chicago United States Department of Computer Science University of Chicago United States

ISBN: (纸本)9781450311571

Large-scale scientific computations are often organized as a composition of many computational tasks linked through data flow. After the completion of a computational scientific experiment, a scientist has to analyze its outcome, for instance, by checking inputs and outputs of computational tasks that are part of the experiment. This analysis can be automated using provenance management systems that describe, for instance, the production and consumption relationships between data artifacts, such as files, and the computational tasks that compose the scientific application. In this article, we explore the relationship between high performance computing and provenance management systems, observing that storing provenance as structured data enriched with information about the runtime behavior of computational tasks in high performance computing environments can enable interesting and useful queries to correlate computational resource usage, scientific parameters, and data set derivation. We briefly describe how provenance of many-task scientific computations specified and coordinated by the Swift parallel scripting system is gathered and queried. © 2011 ACM.

关键词： Information management

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Estimating functional agent-based models: An application to bid shading in online markets format 11

Estimating functional agent-based models: An application to ...

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13th Annual Genetic and Evolutionary computation Conference - Companion Publication, GECCO 2011 Companion

作者： Guo, Wei Jank, Wolfgang Rand, William Applied Mathematics and Statistics and Scientific Computation Program Department of Mathematics University of Maryland College Park MD United States Department of Decision Operations and Information Technology Robert H. Smith School of Business University of Maryland College Park MD United States Department of Marketing Robert H. Smith School of Business University of Maryland College Park MD United States

ISBN: (纸本)9781450306904

Bid shading is a common strategy in online auctions to avoid the "winner's curse". While almost all bidders shade their bids, at least to some degree, it is impossible to infer the degree and volume of shaded bids directly from observed bidding data. In fact, most bidding data only allows us to observe the resulting price process, i.e. whether prices increase fast (due to little shading) or whether they slow down (when all bidders shade their bids). In this work, we propose an agent-based model that simulates bidders with different bidding strategies and their interaction with one another. We calibrate that model (and hence estimate properties about the propensity and degree of shaded bids) by matching the emerging simulated price process with that of the observed auction data using genetic algorithms. From a statistical point of view, this is challenging because we match functional draws from simulated and real price processes. We propose several competing fitness functions and explore how the choice alters the resulting ABM calibration. We apply our model to the context of eBay auctions for digital cameras and show that a balanced fitness function yields the best results. © 2011 ACM.

关键词： Calibration

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Parsimonious reconstruction of network evolution

Parsimonious reconstruction of network evolution

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Lecture Notes in Computer Science

作者： Patro, Rob Sefer, Emre Malin, Justin Marçais, Guillaume Navlakha, Saket Kingsford, Carl Center for Bioinformatics and Computational Biology University of Maryland College Park MD 20742 United States Department of Computer Science University of Maryland College Park MD 20742 United States Computational Biology Bioinformatics and Genomics Concentration Biological Sciences Graduate Program University of Maryland College Park MD 20742 United States Program in Applied Mathematics Statistics and Scientific Computation University of Maryland College Park MD 20742 United States School of Computer Science Carnegie Mellon University Pittsburgh PA 15213 United States

ISBN: (纸本)9783642230370

We consider the problem of reconstructing a maximally parsimonious history of network evolution under models that support gene duplication and loss and independent interaction gain and loss. We introduce a combinatorial framework for encoding network histories, and we give a fast procedure that, given a set of duplication histories, in practice finds network histories with close to the minimum number of interaction gain or loss events. In contrast to previous studies, our method does not require knowing the relative ordering of unrelated duplication events. Results on simulated histories suggest that common ancestral networks can be accurately reconstructed using this parsimony approach. © 2011 Springer-Verlag.

关键词： Genes

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Representing GASPEC with the world gas model

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Energy Journal 2009年第SPECIAL ISSUE 1期30卷 97-118页

作者： Egging, Ruud Holz, Franziska Von Hirschhausen, Christian Gabriel, Steven A. 1143 Glenn L. Martin Hall Dept of Civil and Environmental Engineering University of Maryland College Park MD 20742-3021 United States DIW Berlin 10117 Berlin Mohrenstr. 58 Germany Chair of Energy Economics and Public Sector Management TU Dresden 01062 Dresden Germany Applied Mathematics and Scientific Computation Program University of Maryland College Park MD 20742 United States

This paper presents results of simulating a more collusive behavior of a group of natural gas producing and exporting countries, sometimes called GASPEC. We use the World Gas Model, a dynamic, strategic representation of world gas production, trade, and consumption between 2005 and 2030. In particular, we simulate a closer cooperation of the GASPEC countries when exporting pipeline gas and liquefied natural gas;we also run a more drastic scenario where GASPEC countries deliberately hold back production. The results show that compared to our Base Case, a gas cartel would reduce total supplied quantities and induce price increases in gas importing countries up to 22%. There is evidence that the natural gas markets in Europe and North America would be affected more than other parts of the world. Lastly, the vulnerability of gas importers worldwide is further illustrated by the results of a sensitivity case in which price levels are up to 87% higher in Europe and North America. Copyright © 2009 by the IAEE. All rights reserved.

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The Broad Institute-Six Years Later

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CHEMISTRY & BIOLOGY 2010年第4期17卷 311-312页

作者： McCarthy, Alice Main Text “In June 2003 the scientific and medical communities at MIT Harvard University and its affiliated hospitals and the Whitehead Institute banded together as collaborating partners to form the Eli and Edythe L. Broad Institute based in Cambridge MA. The Broad Institute established with initial funding from a $100 million philanthropic donation from the Los Angeles-based Broad family was primarily viewed as a marriage between the Whitehead Institute's Center for Genome Research (WICGR) and the Harvard Institute of Chemistry and Cell Biology (ICCB). Eli Broad founder and chairman of AIG SunAmerica Inc. explained “the purpose of the Broad Institute is to create a new type of research institute to build on the accomplishments of the human genome project and to move to clinical applications to both prevent and cure diseases.” Every Thursday morning we meet with perhaps 20 faculty members and 100 other researchers to discuss what we're all doing and should be doing next. -David Altschuler This paragraph was written five years ago when the Broad Institute was in its very earliest days as a life science research community (McCarthy 2005). Since that time “the Broad” as it's known has kept true to Eli Broad's vision having attracted a talented group of researchers faculty trainees and professional staff. This 1600 person research community known internally as “Broadies” includes faculty staff and students from throughout the MIT and Harvard biomedical research communities and beyond with collaborations spanning over a hundred private and public institutions in more than 40 countries worldwide. “What is special about the Broad is that we have people from Harvard MIT and the Harvard hospitals come together and work on problems of shared interest that could not be solved in their own individuals labs” explains David Altshuler M.D. Ph.D. Deputy Director and one of the Broad's six core faculty members. “These problems require expertise beyond any one principal investigator and in

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On the relationship between forecast accuracy and detection performance: An application to biosurveillance

On the relationship between forecast accuracy and detection ...

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IEEE Conference on Technologies for Homeland Security

作者： Thomas Lotze Galit Shmueli Applied Mathematics and Scientific Computation Program University of Maryland College Park MD USA Department of Decision Operations & Information Technologies and Center for Health and Information Decision Systems University of Maryland College Park MD USA

While many methods have been proposed for detecting disease outbreaks from pre-diagnostic data, their performance is usually not well understood. In this paper, we describe the relationship between forecast accuracy and the detection accuracy of a method. We argue that most existing temporal detection methods for biosurveillance can be characterized as a forecasting component coupled with a monitoring/detection component. We show that improved forecasting results in improved detection and we quantify the relationship between forecast accuracy and detection metrics under different scenarios. The forecast accuracy can then be used to rate an algorithm's expected performance in detecting outbreaks. Simulation is used to compare empirical performance with theoretical results; we also show examples with authentic biosurveillance data.

关键词： Control charts Yttrium Educational institutions Diseases Signal generators Bioinformatics Probability Condition monitoring Error correction Statistics

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A family of growth models for representing the price process in online auctions 07

A family of growth models for representing the price process...

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Proceedings of the ninth international conference

作者： Hyde, Valerie Jank, Wolfgang Shmueli, Galit Applied Mathematics and Scientific Computation Program University of Maryland College Park MD 20742 Decision and Information Technologies Department Robert H. Smith School of Business University of Maryland College Park MD 20742

ISBN: (纸本)1595937005

Bids during an online auction arrive at unequally-spaced discrete time points. Our goal is to capture the entire continuous price-evolution function by representing it as a functional object. Various nonparametric smoothing methods exist to recover the functional object from the observed discrete bid data. Previous studies use penalized polynomial and monotone smoothing splines;however, these require the determination and storage of a large number of coefficients and often lengthy computational time. We present a family of parametric growth curves that describe the price-evolution during online auctions. This approach is parsimonious and has an appealing interpretation in the online auction context. We also provide an automated fitting algorithm that is computationally fast. Methods are illustrated using eBay data. Copyright 2007 ACM.

关键词： Cost accounting

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Resonant responses to variance modulation in stochastic integrate-and-fire neurons

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BMC Neuroscience 2007年第2期8卷 1-1页

作者： Joanna Pressley Todd W Troyer Applied Mathematics and Scientific Computation Program University of Maryland College Park MD 20742 USA Neuroscience and Cognitive Science Program University of Maryland College Park MD 20742 USA Department of Psychology University of Maryland College Park MD 20742 USA

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A multiobjective optimization approach to smart growth in land development

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Socio-Economic Planning Sciences 2006年第3期40卷 212-248页

作者： Gabriel, Steven A. Faria, José A. Moglen, Glenn E. Department of Civil and Environmental Engineering University of Maryland College Park MD 20742 United States Applied Mathematics and Scientific Computation Program University of Maryland College Park MD 20742 United States

In this paper we apply a multiobjective optimization model of Smart Growth to land development. The term Smart Growth is meant to describe development strategies-that do not promote urban sprawl. However, the term is somewhat open to interpretation. The multiobjective aspects arise when considering the conflicting interests of the various stakeholders involved in land development decisions: the government planner, the environmentalist, the conservationist, and the land developer. We present a formulation-employing linear and convex quadratic objective functions subject to polyhedral and binary constraints for the stakeholders. The resulting optimization problems are convex, quadratic mixed integer programs that are NP-complete. We report numerical results with this model for Montgomery County, Maryland, and present them using a geographic information system (GIS). © 2005 Elsevier Ltd. All rights reserved.

关键词： Geographic Information System Integer programming Land use planning Large Scale Optimization Multiple objective programming Quadratic programming Smart Growth

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