10th International Conference on Practical Applications of Computational Biology & Bioinformatics

CERN Document Server

Rocha, Miguel; Fdez-Riverola, Florentino; Mayo, Francisco; Paz, Juan

2016-01-01

Biological and biomedical research are increasingly driven by experimental techniques that challenge our ability to analyse, process and extract meaningful knowledge from the underlying data. The impressive capabilities of next generation sequencing technologies, together with novel and ever evolving distinct types of omics data technologies, have put an increasingly complex set of challenges for the growing fields of Bioinformatics and Computational Biology. The analysis of the datasets produced and their integration call for new algorithms and approaches from fields such as Databases, Statistics, Data Mining, Machine Learning, Optimization, Computer Science and Artificial Intelligence. Clearly, Biology is more and more a science of information requiring tools from the computational sciences. In the last few years, we have seen the surge of a new generation of interdisciplinary scientists that have a strong background in the biological and computational sciences. In this context, the interaction of researche...

Computational biology and bioinformatics in Nigeria.

Science.gov (United States)

Fatumo, Segun A; Adoga, Moses P; Ojo, Opeolu O; Oluwagbemi, Olugbenga; Adeoye, Tolulope; Ewejobi, Itunuoluwa; Adebiyi, Marion; Adebiyi, Ezekiel; Bewaji, Clement; Nashiru, Oyekanmi

2014-04-01

Over the past few decades, major advances in the field of molecular biology, coupled with advances in genomic technologies, have led to an explosive growth in the biological data generated by the scientific community. The critical need to process and analyze such a deluge of data and turn it into useful knowledge has caused bioinformatics to gain prominence and importance. Bioinformatics is an interdisciplinary research area that applies techniques, methodologies, and tools in computer and information science to solve biological problems. In Nigeria, bioinformatics has recently played a vital role in the advancement of biological sciences. As a developing country, the importance of bioinformatics is rapidly gaining acceptance, and bioinformatics groups comprised of biologists, computer scientists, and computer engineers are being constituted at Nigerian universities and research institutes. In this article, we present an overview of bioinformatics education and research in Nigeria. We also discuss professional societies and academic and research institutions that play central roles in advancing the discipline in Nigeria. Finally, we propose strategies that can bolster bioinformatics education and support from policy makers in Nigeria, with potential positive implications for other developing countries.

Computational biology and bioinformatics in Nigeria.

Directory of Open Access Journals (Sweden)

Segun A Fatumo

2014-04-01

Full Text Available Over the past few decades, major advances in the field of molecular biology, coupled with advances in genomic technologies, have led to an explosive growth in the biological data generated by the scientific community. The critical need to process and analyze such a deluge of data and turn it into useful knowledge has caused bioinformatics to gain prominence and importance. Bioinformatics is an interdisciplinary research area that applies techniques, methodologies, and tools in computer and information science to solve biological problems. In Nigeria, bioinformatics has recently played a vital role in the advancement of biological sciences. As a developing country, the importance of bioinformatics is rapidly gaining acceptance, and bioinformatics groups comprised of biologists, computer scientists, and computer engineers are being constituted at Nigerian universities and research institutes. In this article, we present an overview of bioinformatics education and research in Nigeria. We also discuss professional societies and academic and research institutions that play central roles in advancing the discipline in Nigeria. Finally, we propose strategies that can bolster bioinformatics education and support from policy makers in Nigeria, with potential positive implications for other developing countries.

Integrating interactive computational modeling in biology curricula.

Directory of Open Access Journals (Sweden)

Tomáš Helikar

2015-03-01

Full Text Available While the use of computer tools to simulate complex processes such as computer circuits is normal practice in fields like engineering, the majority of life sciences/biological sciences courses continue to rely on the traditional textbook and memorization approach. To address this issue, we explored the use of the Cell Collective platform as a novel, interactive, and evolving pedagogical tool to foster student engagement, creativity, and higher-level thinking. Cell Collective is a Web-based platform used to create and simulate dynamical models of various biological processes. Students can create models of cells, diseases, or pathways themselves or explore existing models. This technology was implemented in both undergraduate and graduate courses as a pilot study to determine the feasibility of such software at the university level. First, a new (In Silico Biology class was developed to enable students to learn biology by "building and breaking it" via computer models and their simulations. This class and technology also provide a non-intimidating way to incorporate mathematical and computational concepts into a class with students who have a limited mathematical background. Second, we used the technology to mediate the use of simulations and modeling modules as a learning tool for traditional biological concepts, such as T cell differentiation or cell cycle regulation, in existing biology courses. Results of this pilot application suggest that there is promise in the use of computational modeling and software tools such as Cell Collective to provide new teaching methods in biology and contribute to the implementation of the "Vision and Change" call to action in undergraduate biology education by providing a hands-on approach to biology.

Integrating interactive computational modeling in biology curricula.

Science.gov (United States)

Helikar, Tomáš; Cutucache, Christine E; Dahlquist, Lauren M; Herek, Tyler A; Larson, Joshua J; Rogers, Jim A

2015-03-01

While the use of computer tools to simulate complex processes such as computer circuits is normal practice in fields like engineering, the majority of life sciences/biological sciences courses continue to rely on the traditional textbook and memorization approach. To address this issue, we explored the use of the Cell Collective platform as a novel, interactive, and evolving pedagogical tool to foster student engagement, creativity, and higher-level thinking. Cell Collective is a Web-based platform used to create and simulate dynamical models of various biological processes. Students can create models of cells, diseases, or pathways themselves or explore existing models. This technology was implemented in both undergraduate and graduate courses as a pilot study to determine the feasibility of such software at the university level. First, a new (In Silico Biology) class was developed to enable students to learn biology by "building and breaking it" via computer models and their simulations. This class and technology also provide a non-intimidating way to incorporate mathematical and computational concepts into a class with students who have a limited mathematical background. Second, we used the technology to mediate the use of simulations and modeling modules as a learning tool for traditional biological concepts, such as T cell differentiation or cell cycle regulation, in existing biology courses. Results of this pilot application suggest that there is promise in the use of computational modeling and software tools such as Cell Collective to provide new teaching methods in biology and contribute to the implementation of the "Vision and Change" call to action in undergraduate biology education by providing a hands-on approach to biology.

6th International Conference on Practical Applications of Computational Biology & Bioinformatics

CERN Document Server

Luscombe, Nicholas; Fdez-Riverola, Florentino; Rodríguez, Juan; Practical Applications of Computational Biology & Bioinformatics

2012-01-01

The growth in the Bioinformatics and Computational Biology fields over the last few years has been remarkable.. The analysis of the datasets of Next Generation Sequencing needs new algorithms and approaches from fields such as Databases, Statistics, Data Mining, Machine Learning, Optimization, Computer Science and Artificial Intelligence. Also Systems Biology has also been emerging as an alternative to the reductionist view that dominated biological research in the last decades. This book presents the results of the  6th International Conference on Practical Applications of Computational Biology & Bioinformatics held at University of Salamanca, Spain, 28-30th March, 2012 which brought together interdisciplinary scientists that have a strong background in the biological and computational sciences.

COMPUTATIONAL SCIENCE CENTER

Energy Technology Data Exchange (ETDEWEB)

DAVENPORT, J.

2006-11-01

Computational Science is an integral component of Brookhaven's multi science mission, and is a reflection of the increased role of computation across all of science. Brookhaven currently has major efforts in data storage and analysis for the Relativistic Heavy Ion Collider (RHIC) and the ATLAS detector at CERN, and in quantum chromodynamics. The Laboratory is host for the QCDOC machines (quantum chromodynamics on a chip), 10 teraflop/s computers which boast 12,288 processors each. There are two here, one for the Riken/BNL Research Center and the other supported by DOE for the US Lattice Gauge Community and other scientific users. A 100 teraflop/s supercomputer will be installed at Brookhaven in the coming year, managed jointly by Brookhaven and Stony Brook, and funded by a grant from New York State. This machine will be used for computational science across Brookhaven's entire research program, and also by researchers at Stony Brook and across New York State. With Stony Brook, Brookhaven has formed the New York Center for Computational Science (NYCCS) as a focal point for interdisciplinary computational science, which is closely linked to Brookhaven's Computational Science Center (CSC). The CSC has established a strong program in computational science, with an emphasis on nanoscale electronic structure and molecular dynamics, accelerator design, computational fluid dynamics, medical imaging, parallel computing and numerical algorithms. We have been an active participant in DOES SciDAC program (Scientific Discovery through Advanced Computing). We are also planning a major expansion in computational biology in keeping with Laboratory initiatives. Additional laboratory initiatives with a dependence on a high level of computation include the development of hydrodynamics models for the interpretation of RHIC data, computational models for the atmospheric transport of aerosols, and models for combustion and for energy utilization. The CSC was formed to

7th International Conference on Practical Applications of Computational Biology & Bioinformatics

CERN Document Server

Nanni, Loris; Rocha, Miguel; Fdez-Riverola, Florentino

2013-01-01

The growth in the Bioinformatics and Computational Biology fields over the last few years has been remarkable and the trend is to increase its pace. In fact, the need for computational techniques that can efficiently handle the huge amounts of data produced by the new experimental techniques in Biology is still increasing driven by new advances in Next Generation Sequencing, several types of the so called omics data and image acquisition, just to name a few. The analysis of the datasets that produces and its integration call for new algorithms and approaches from fields such as Databases, Statistics, Data Mining, Machine Learning, Optimization, Computer Science and Artificial Intelligence. Within this scenario of increasing data availability, Systems Biology has also been emerging as an alternative to the reductionist view that dominated biological research in the last decades. Indeed, Biology is more and more a science of information requiring tools from the computational sciences. In the last few years, we ...

Biological and Environmental Research Exascale Requirements Review. An Office of Science review sponsored jointly by Advanced Scientific Computing Research and Biological and Environmental Research, March 28-31, 2016, Rockville, Maryland

Energy Technology Data Exchange (ETDEWEB)

Arkin, Adam [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Bader, David C. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Coffey, Richard [Argonne National Lab. (ANL), Argonne, IL (United States); Antypas, Katie [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Bard, Deborah [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). National Energy Research Scientific Computing Center (NERSC); Dart, Eli [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Esnet; Dosanjh, Sudip [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Gerber, Richard [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Hack, James [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Monga, Inder [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Esnet; Papka, Michael E. [Argonne National Lab. (ANL), Argonne, IL (United States); Riley, Katherine [Argonne National Lab. (ANL), Argonne, IL (United States); Rotman, Lauren [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Esnet; Straatsma, Tjerk [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Wells, Jack [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Aluru, Srinivas [Georgia Inst. of Technology, Atlanta, GA (United States); Andersen, Amity [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Aprá, Edoardo [Pacific Northwest National Lab. (PNNL), Richland, WA (United States). EMSL; Azad, Ariful [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Bates, Susan [National Center for Atmospheric Research, Boulder, CO (United States); Blaby, Ian [Brookhaven National Lab. (BNL), Upton, NY (United States); Blaby-Haas, Crysten [Brookhaven National Lab. (BNL), Upton, NY (United States); Bonneau, Rich [New York Univ. (NYU), NY (United States); Bowen, Ben [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Bradford, Mark A. [Yale Univ., New Haven, CT (United States); Brodie, Eoin [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Brown, James (Ben) [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Buluc, Aydin [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Bernholdt, David [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Bylaska, Eric [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Calvin, Kate [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Cannon, Bill [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Chen, Xingyuan [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Cheng, Xiaolin [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Cheung, Margaret [Univ. of Houston, Houston, TX (United States); Chowdhary, Kenny [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Colella, Phillip [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Collins, Bill [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Compo, Gil [National Oceanic and Atmospheric Administration (NOAA), Boulder, CO (United States); Crowley, Mike [National Renewable Energy Lab. (NREL), Golden, CO (United States); Debusschere, Bert [Sandia National Lab. (SNL-CA), Livermore, CA (United States); D’Imperio, Nicholas [Brookhaven National Lab. (BNL), Upton, NY (United States); Dror, Ron [Stanford Univ., Stanford, CA (United States); Egan, Rob [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Evans, Katherine [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Friedberg, Iddo [Iowa State Univ., Ames, IA (United States); Fyke, Jeremy [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Gao, Zheng [Stony Brook Univ., Stony Brook, NY (United States); Georganas, Evangelos [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Giraldo, Frank [Naval Postgraduate School, Monterey, CA (United States); Gnanakaran, Gnana [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Govind, Niri [Pacific Northwest National Lab. (PNNL), Richland, WA (United States). EMSL; Grandy, Stuart [Univ. of New Hampshire, Durham, NH (United States); Gustafson, Bill [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Hammond, Glenn [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Hargrove, William [USDA Forest Service, Washington, D.C. (United States); Heroux, Michael [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Hoffman, Forrest [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Hofmeyr, Steven [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Hunke, Elizabeth [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Jackson, Charles [Univ. of Texas-Austin, Austin, TX (United States); Jacob, Rob [Argonne National Lab. (ANL), Argonne, IL (United States); Jacobson, Dan [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Jacobson, Matt [Univ. of California, San Francisco, CA (United States); Jain, Chirag [Georgia Inst. of Technology, Atlanta, GA (United States); Johansen, Hans [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Johnson, Jeff [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Jones, Andy [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Jones, Phil [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Kalyanaraman, Ananth [Washington State Univ., Pullman, WA (United States); Kang, Senghwa [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); King, Eric [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Koanantakool, Penporn [Univ. of California, Berkeley, CA (United States); Kollias, Pavlos [Stony Brook Univ., Stony Brook, NY (United States); Kopera, Michal [Univ. of California, Santa Cruz, CA (United States); Kotamarthi, Rao [Argonne National Lab. (ANL), Argonne, IL (United States); Kowalski, Karol [Pacific Northwest National Lab. (PNNL), Richland, WA (United States). EMSL; Kumar, Jitendra [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Kyrpides, Nikos [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Leung, Ruby [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Li, Xiaolin [Stony Brook Univ., Stony Brook, NY (United States); Lin, Wuyin [Brookhaven National Lab. (BNL), Upton, NY (United States); Link, Robert [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Liu, Yangang [Brookhaven National Lab. (BNL), Upton, NY (United States); Loew, Leslie [Univ. of Connecticut, Storrs, CT (United States); Luke, Edward [Brookhaven National Lab. (BNL), Upton, NY (United States); Ma, Hsi -Yen [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Mahadevan, Radhakrishnan [Univ. of Toronto, Toronto, ON (Canada); Maranas, Costas [Pennsylvania State Univ., University Park, PA (United States); Martin, Daniel [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Maslowski, Wieslaw [Naval Postgraduate School, Monterey, CA (United States); McCue, Lee Ann [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); McInnes, Lois Curfman [Argonne National Lab. (ANL), Argonne, IL (United States); Mills, Richard [Intel Corp., Santa Clara, CA (United States); Molins Rafa, Sergi [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Morozov, Dmitriy [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Mostafavi, Sara [Center for Molecular Medicine and Therapeutics, Vancouver, BC (Canada); Moulton, David J. [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Mourao, Zenaida [Univ. of Cambridge (United Kingdom); Najm, Habib [Sandia National Lab. (SNL-CA), Livermore, CA (United States); Ng, Bernard [Center for Molecular Medicine and Therapeutics, Vancouver, BC (Canada); Ng, Esmond [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Norman, Matt [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Oh, Sang -Yun [Univ. of California, Santa Barbara, CA (United States); Oliker, Leonid [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Pan, Chongle [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Pass, Rebecca [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Pau, George S. H. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Petridis, Loukas [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Prakash, Giri [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Price, Stephen [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Randall, David [Colorado State Univ., Fort Collins, CO (United States); Renslow, Ryan [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Riihimaki, Laura [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Ringler, Todd [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Roberts, Andrew [Naval Postgraduate School, Monterey, CA (United States); Rokhsar, Dan [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Ruebel, Oliver [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Salinger, Andrew [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Scheibe, Tim [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Schulz, Roland [Intel, Mountain View, CA (United States); Sivaraman, Chitra [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Smith, Jeremy [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Sreepathi, Sarat [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Steefel, Carl [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Talbot, Jenifer [Boston Univ., Boston, MA (United States); Tantillo, D. J. [Univ. of California, Davis, CA (United States); Tartakovsky, Alex [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Taylor, Mark [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Taylor, Ronald [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Trebotich, David [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Urban, Nathan [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Valiev, Marat [Pacific Northwest National Lab. (PNNL), Richland, WA (United States). EMSL; Wagner, Allon [Univ. of California, Berkeley, CA (United States); Wainwright, Haruko [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Wieder, Will [NCAR/Univ. of Colorado, Boulder, CO (United States); Wiley, Steven [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Williams, Dean [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Worley, Pat [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Xie, Shaocheng [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Yelick, Kathy [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Yoo, Shinjae [Brookhaven National Lab. (BNL), Upton, NY (United States); Yosef, Niri [Univ. of California, Berkeley, CA (United States); Zhang, Minghua [Stony Brook Univ., Stony Brook, NY (United States)

2016-03-31

Understanding the fundamentals of genomic systems or the processes governing impactful weather patterns are examples of the types of simulation and modeling performed on the most advanced computing resources in America. High-performance computing and computational science together provide a necessary platform for the mission science conducted by the Biological and Environmental Research (BER) office at the U.S. Department of Energy (DOE). This report reviews BER’s computing needs and their importance for solving some of the toughest problems in BER’s portfolio. BER’s impact on science has been transformative. Mapping the human genome, including the U.S.-supported international Human Genome Project that DOE began in 1987, initiated the era of modern biotechnology and genomics-based systems biology. And since the 1950s, BER has been a core contributor to atmospheric, environmental, and climate science research, beginning with atmospheric circulation studies that were the forerunners of modern Earth system models (ESMs) and by pioneering the implementation of climate codes onto high-performance computers. See http://exascaleage.org/ber/ for more information.

Graphics processing units in bioinformatics, computational biology and systems biology.

Science.gov (United States)

Nobile, Marco S; Cazzaniga, Paolo; Tangherloni, Andrea; Besozzi, Daniela

2017-09-01

Several studies in Bioinformatics, Computational Biology and Systems Biology rely on the definition of physico-chemical or mathematical models of biological systems at different scales and levels of complexity, ranging from the interaction of atoms in single molecules up to genome-wide interaction networks. Traditional computational methods and software tools developed in these research fields share a common trait: they can be computationally demanding on Central Processing Units (CPUs), therefore limiting their applicability in many circumstances. To overcome this issue, general-purpose Graphics Processing Units (GPUs) are gaining an increasing attention by the scientific community, as they can considerably reduce the running time required by standard CPU-based software, and allow more intensive investigations of biological systems. In this review, we present a collection of GPU tools recently developed to perform computational analyses in life science disciplines, emphasizing the advantages and the drawbacks in the use of these parallel architectures. The complete list of GPU-powered tools here reviewed is available at http://bit.ly/gputools. © The Author 2016. Published by Oxford University Press.

Computer - based modeling in extract sciences research -III ...

African Journals Online (AJOL)

Molecular modeling techniques have been of great applicability in the study of the biological sciences and other exact science fields like agriculture, mathematics, computer science and the like. In this write up, a list of computer programs for predicting, for instance, the structure of proteins has been provided. Discussions on ...

How Computers are Arming biology!

Indian Academy of Sciences (India)

Home; Journals; Resonance – Journal of Science Education; Volume 23; Issue 1. In-vitro to In-silico - How Computers are Arming biology! Geetha Sugumaran Sushila Rajagopal. Face to Face Volume 23 Issue 1 January 2018 pp 83-102. Fulltext. Click here to view fulltext PDF. Permanent link:

Computer Models and Automata Theory in Biology and Medicine

CERN Document Server

Baianu, I C

2004-01-01

The applications of computers to biological and biomedical problem solving goes back to the very beginnings of computer science, automata theory [1], and mathematical biology [2]. With the advent of more versatile and powerful computers, biological and biomedical applications of computers have proliferated so rapidly that it would be virtually impossible to compile a comprehensive review of all developments in this field. Limitations of computer simulations in biology have also come under close scrutiny, and claims have been made that biological systems have limited information processing power [3]. Such general conjectures do not, however, deter biologists and biomedical researchers from developing new computer applications in biology and medicine. Microprocessors are being widely employed in biological laboratories both for automatic data acquisition/processing and modeling; one particular area, which is of great biomedical interest, involves fast digital image processing and is already established for rout...

Network biology: Describing biological systems by complex networks. Comment on "Network science of biological systems at different scales: A review" by M. Gosak et al.

Science.gov (United States)

Jalili, Mahdi

2018-03-01

I enjoyed reading Gosak et al. review on analysing biological systems from network science perspective [1]. Network science, first started within Physics community, is now a mature multidisciplinary field of science with many applications ranging from Ecology to biology, medicine, social sciences, engineering and computer science. Gosak et al. discussed how biological systems can be modelled and described by complex network theory which is an important application of network science. Although there has been considerable progress in network biology over the past two decades, this is just the beginning and network science has a great deal to offer to biology and medical sciences.

A first attempt to bring computational biology into advanced high school biology classrooms.

Science.gov (United States)

Gallagher, Suzanne Renick; Coon, William; Donley, Kristin; Scott, Abby; Goldberg, Debra S

2011-10-01

Computer science has become ubiquitous in many areas of biological research, yet most high school and even college students are unaware of this. As a result, many college biology majors graduate without adequate computational skills for contemporary fields of biology. The absence of a computational element in secondary school biology classrooms is of growing concern to the computational biology community and biology teachers who would like to acquaint their students with updated approaches in the discipline. We present a first attempt to correct this absence by introducing a computational biology element to teach genetic evolution into advanced biology classes in two local high schools. Our primary goal was to show students how computation is used in biology and why a basic understanding of computation is necessary for research in many fields of biology. This curriculum is intended to be taught by a computational biologist who has worked with a high school advanced biology teacher to adapt the unit for his/her classroom, but a motivated high school teacher comfortable with mathematics and computing may be able to teach this alone. In this paper, we present our curriculum, which takes into consideration the constraints of the required curriculum, and discuss our experiences teaching it. We describe the successes and challenges we encountered while bringing this unit to high school students, discuss how we addressed these challenges, and make suggestions for future versions of this curriculum.We believe that our curriculum can be a valuable seed for further development of computational activities aimed at high school biology students. Further, our experiences may be of value to others teaching computational biology at this level. Our curriculum can be obtained at http://ecsite.cs.colorado.edu/?page_id=149#biology or by contacting the authors.

Online citizen science games: Opportunities for the biological sciences.

Science.gov (United States)

Curtis, Vickie

2014-12-01

Recent developments in digital technologies and the rise of the Internet have created new opportunities for citizen science. One of these has been the development of online citizen science games where complex research problems have been re-imagined as online multiplayer computer games. Some of the most successful examples of these can be found within the biological sciences, for example, Foldit, Phylo and EteRNA. These games offer scientists the opportunity to crowdsource research problems, and to engage with those outside the research community. Games also enable those without a background in science to make a valid contribution to research, and may also offer opportunities for informal science learning.

Molecular Science Computing Facility Scientific Challenges: Linking Across Scales

Energy Technology Data Exchange (ETDEWEB)

De Jong, Wibe A.; Windus, Theresa L.

2005-07-01

The purpose of this document is to define the evolving science drivers for performing environmental molecular research at the William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) and to provide guidance associated with the next-generation high-performance computing center that must be developed at EMSL's Molecular Science Computing Facility (MSCF) in order to address this critical research. The MSCF is the pre-eminent computing facility?supported by the U.S. Department of Energy's (DOE's) Office of Biological and Environmental Research (BER)?tailored to provide the fastest time-to-solution for current computational challenges in chemistry and biology, as well as providing the means for broad research in the molecular and environmental sciences. The MSCF provides integral resources and expertise to emerging EMSL Scientific Grand Challenges and Collaborative Access Teams that are designed to leverage the multiple integrated research capabilities of EMSL, thereby creating a synergy between computation and experiment to address environmental molecular science challenges critical to DOE and the nation.

2nd Colombian Congress on Computational Biology and Bioinformatics

CERN Document Server

Cristancho, Marco; Isaza, Gustavo; Pinzón, Andrés; Rodríguez, Juan

2014-01-01

This volume compiles accepted contributions for the 2nd Edition of the Colombian Computational Biology and Bioinformatics Congress CCBCOL, after a rigorous review process in which 54 papers were accepted for publication from 119 submitted contributions. Bioinformatics and Computational Biology are areas of knowledge that have emerged due to advances that have taken place in the Biological Sciences and its integration with Information Sciences. The expansion of projects involving the study of genomes has led the way in the production of vast amounts of sequence data which needs to be organized, analyzed and stored to understand phenomena associated with living organisms related to their evolution, behavior in different ecosystems, and the development of applications that can be derived from this analysis.  .

SIAM Conference on Computational Science and Engineering

Energy Technology Data Exchange (ETDEWEB)

None, None

2005-08-29

The Second SIAM Conference on Computational Science and Engineering was held in San Diego from February 10-12, 2003. Total conference attendance was 553. This is a 23% increase in attendance over the first conference. The focus of this conference was to draw attention to the tremendous range of major computational efforts on large problems in science and engineering, to promote the interdisciplinary culture required to meet these large-scale challenges, and to encourage the training of the next generation of computational scientists. Computational Science & Engineering (CS&E) is now widely accepted, along with theory and experiment, as a crucial third mode of scientific investigation and engineering design. Aerospace, automotive, biological, chemical, semiconductor, and other industrial sectors now rely on simulation for technical decision support. For federal agencies also, CS&E has become an essential support for decisions on resources, transportation, and defense. CS&E is, by nature, interdisciplinary. It grows out of physical applications and it depends on computer architecture, but at its heart are powerful numerical algorithms and sophisticated computer science techniques. From an applied mathematics perspective, much of CS&E has involved analysis, but the future surely includes optimization and design, especially in the presence of uncertainty. Another mathematical frontier is the assimilation of very large data sets through such techniques as adaptive multi-resolution, automated feature search, and low-dimensional parameterization. The themes of the 2003 conference included, but were not limited to: Advanced Discretization Methods; Computational Biology and Bioinformatics; Computational Chemistry and Chemical Engineering; Computational Earth and Atmospheric Sciences; Computational Electromagnetics; Computational Fluid Dynamics; Computational Medicine and Bioengineering; Computational Physics and Astrophysics; Computational Solid Mechanics and Materials; CS

Bringing computational science to the public.

Science.gov (United States)

McDonagh, James L; Barker, Daniel; Alderson, Rosanna G

2016-01-01

The increasing use of computers in science allows for the scientific analyses of large datasets at an increasing pace. We provided examples and interactive demonstrations at Dundee Science Centre as part of the 2015 Women in Science festival, to present aspects of computational science to the general public. We used low-cost Raspberry Pi computers to provide hands on experience in computer programming and demonstrated the application of computers to biology. Computer games were used as a means to introduce computers to younger visitors. The success of the event was evaluated by voluntary feedback forms completed by visitors, in conjunction with our own self-evaluation. This work builds on the original work of the 4273π bioinformatics education program of Barker et al. (2013, BMC Bioinform. 14:243). 4273π provides open source education materials in bioinformatics. This work looks at the potential to adapt similar materials for public engagement events. It appears, at least in our small sample of visitors (n = 13), that basic computational science can be conveyed to people of all ages by means of interactive demonstrations. Children as young as five were able to successfully edit simple computer programs with supervision. This was, in many cases, their first experience of computer programming. The feedback is predominantly positive, showing strong support for improving computational science education, but also included suggestions for improvement. Our conclusions are necessarily preliminary. However, feedback forms suggest methods were generally well received among the participants; "Easy to follow. Clear explanation" and "Very easy. Demonstrators were very informative." Our event, held at a local Science Centre in Dundee, demonstrates that computer games and programming activities suitable for young children can be performed alongside a more specialised and applied introduction to computational science for older visitors.

Theoretical computer science and the natural sciences

Science.gov (United States)

Marchal, Bruno

2005-12-01

I present some fundamental theorems in computer science and illustrate their relevance in Biology and Physics. I do not assume prerequisites in mathematics or computer science beyond the set N of natural numbers, functions from N to N, the use of some notational conveniences to describe functions, and at some point, a minimal amount of linear algebra and logic. I start with Cantor's transcendental proof by diagonalization of the non enumerability of the collection of functions from natural numbers to the natural numbers. I explain why this proof is not entirely convincing and show how, by restricting the notion of function in terms of discrete well defined processes, we are led to the non algorithmic enumerability of the computable functions, but also-through Church's thesis-to the algorithmic enumerability of partial computable functions. Such a notion of function constitutes, with respect to our purpose, a crucial generalization of that concept. This will make easy to justify deep and astonishing (counter-intuitive) incompleteness results about computers and similar machines. The modified Cantor diagonalization will provide a theory of concrete self-reference and I illustrate it by pointing toward an elementary theory of self-reproduction-in the Amoeba's way-and cellular self-regeneration-in the flatworm Planaria's way. To make it easier, I introduce a very simple and powerful formal system known as the Schoenfinkel-Curry combinators. I will use the combinators to illustrate in a more concrete way the notion introduced above. The combinators, thanks to their low-level fine grained design, will also make it possible to make a rough but hopefully illuminating description of the main lessons gained by the careful observation of nature, and to describe some new relations, which should exist between computer science, the science of life and the science of inert matter, once some philosophical, if not theological, hypotheses are made in the cognitive sciences. In the

Fundamentals of bioinformatics and computational biology methods and exercises in matlab

CERN Document Server

Singh, Gautam B

2015-01-01

This book offers comprehensive coverage of all the core topics of bioinformatics, and includes practical examples completed using the MATLAB bioinformatics toolbox™. It is primarily intended as a textbook for engineering and computer science students attending advanced undergraduate and graduate courses in bioinformatics and computational biology. The book develops bioinformatics concepts from the ground up, starting with an introductory chapter on molecular biology and genetics. This chapter will enable physical science students to fully understand and appreciate the ultimate goals of applying the principles of information technology to challenges in biological data management, sequence analysis, and systems biology. The first part of the book also includes a survey of existing biological databases, tools that have become essential in today’s biotechnology research. The second part of the book covers methodologies for retrieving biological information, including fundamental algorithms for sequence compar...

Filling the gap between biology and computer science.

Science.gov (United States)

Aguilar-Ruiz, Jesús S; Moore, Jason H; Ritchie, Marylyn D

2008-07-17

This editorial introduces BioData Mining, a new journal which publishes research articles related to advances in computational methods and techniques for the extraction of useful knowledge from heterogeneous biological data. We outline the aims and scope of the journal, introduce the publishing model and describe the open peer review policy, which fosters interaction within the research community.

Computational Science in Armenia (Invited Talk)

Science.gov (United States)

Marandjian, H.; Shoukourian, Yu.

This survey is devoted to the development of informatics and computer science in Armenia. The results in theoretical computer science (algebraic models, solutions to systems of general form recursive equations, the methods of coding theory, pattern recognition and image processing), constitute the theoretical basis for developing problem-solving-oriented environments. As examples can be mentioned: a synthesizer of optimized distributed recursive programs, software tools for cluster-oriented implementations of two-dimensional cellular automata, a grid-aware web interface with advanced service trading for linear algebra calculations. In the direction of solving scientific problems that require high-performance computing resources, examples of completed projects include the field of physics (parallel computing of complex quantum systems), astrophysics (Armenian virtual laboratory), biology (molecular dynamics study of human red blood cell membrane), meteorology (implementing and evaluating the Weather Research and Forecast Model for the territory of Armenia). The overview also notes that the Institute for Informatics and Automation Problems of the National Academy of Sciences of Armenia has established a scientific and educational infrastructure, uniting computing clusters of scientific and educational institutions of the country and provides the scientific community with access to local and international computational resources, that is a strong support for computational science in Armenia.

Computing Platforms for Big Biological Data Analytics: Perspectives and Challenges.

Science.gov (United States)

Yin, Zekun; Lan, Haidong; Tan, Guangming; Lu, Mian; Vasilakos, Athanasios V; Liu, Weiguo

2017-01-01

The last decade has witnessed an explosion in the amount of available biological sequence data, due to the rapid progress of high-throughput sequencing projects. However, the biological data amount is becoming so great that traditional data analysis platforms and methods can no longer meet the need to rapidly perform data analysis tasks in life sciences. As a result, both biologists and computer scientists are facing the challenge of gaining a profound insight into the deepest biological functions from big biological data. This in turn requires massive computational resources. Therefore, high performance computing (HPC) platforms are highly needed as well as efficient and scalable algorithms that can take advantage of these platforms. In this paper, we survey the state-of-the-art HPC platforms for big biological data analytics. We first list the characteristics of big biological data and popular computing platforms. Then we provide a taxonomy of different biological data analysis applications and a survey of the way they have been mapped onto various computing platforms. After that, we present a case study to compare the efficiency of different computing platforms for handling the classical biological sequence alignment problem. At last we discuss the open issues in big biological data analytics.

Development of computational science in JAEA. R and D of simulation

International Nuclear Information System (INIS)

Nakajima, Norihiro; Araya, Fumimasa; Hirayama, Toshio

2006-01-01

R and D of computational science in JAEA (Japan Atomic Energy Agency) is described. Environment of computer, R and D system in CCSE (Center for Computational Science and e-Systems), joint computational science researches in Japan and world, development of computer technologies, the some examples of simulation researches, 3-dimensional image vibrational platform system, simulation researches of FBR cycle techniques, simulation of large scale thermal stress for development of steam generator, simulation research of fusion energy techniques, development of grid computing technology, simulation research of quantum beam techniques and biological molecule simulation researches are explained. Organization of JAEA, development of computational science in JAEA, network of JAEA, international collaboration of computational science, and environment of ITBL (Information-Technology Based Laboratory) project are illustrated. (S.Y.)

Towards a cyberinfrastructure for the biological sciences: progress, visions and challenges.

Science.gov (United States)

Stein, Lincoln D

2008-09-01

Biology is an information-driven science. Large-scale data sets from genomics, physiology, population genetics and imaging are driving research at a dizzying rate. Simultaneously, interdisciplinary collaborations among experimental biologists, theorists, statisticians and computer scientists have become the key to making effective use of these data sets. However, too many biologists have trouble accessing and using these electronic data sets and tools effectively. A 'cyberinfrastructure' is a combination of databases, network protocols and computational services that brings people, information and computational tools together to perform science in this information-driven world. This article reviews the components of a biological cyberinfrastructure, discusses current and pending implementations, and notes the many challenges that lie ahead.

Multiscale Computation. Needs and Opportunities for BER Science

Energy Technology Data Exchange (ETDEWEB)

Scheibe, Timothy D. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Smith, Jeremy C. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

2015-01-01

The Environmental Molecular Sciences Laboratory (EMSL), a scientific user facility managed by Pacific Northwest National Laboratory for the U.S. Department of Energy, Office of Biological and Environmental Research (BER), conducted a one-day workshop on August 26, 2014 on the topic of “Multiscale Computation: Needs and Opportunities for BER Science.” Twenty invited participants, from various computational disciplines within the BER program research areas, were charged with the following objectives; Identify BER-relevant models and their potential cross-scale linkages that could be exploited to better connect molecular-scale research to BER research at larger scales and; Identify critical science directions that will motivate EMSL decisions regarding future computational (hardware and software) architectures.

A Computer-Based Instrument That Identifies Common Science Misconceptions

Science.gov (United States)

Larrabee, Timothy G.; Stein, Mary; Barman, Charles

2006-01-01

This article describes the rationale for and development of a computer-based instrument that helps identify commonly held science misconceptions. The instrument, known as the Science Beliefs Test, is a 47-item instrument that targets topics in chemistry, physics, biology, earth science, and astronomy. The use of an online data collection system…

Applications of membrane computing in systems and synthetic biology

CERN Document Server

Gheorghe, Marian; Pérez-Jiménez, Mario

2014-01-01

Membrane Computing was introduced as a computational paradigm in Natural Computing. The models introduced, called Membrane (or P) Systems, provide a coherent platform to describe and study living cells as computational systems. Membrane Systems have been investigated for their computational aspects and employed to model problems in other fields, like: Computer Science, Linguistics, Biology, Economy, Computer Graphics, Robotics, etc. Their inherent parallelism, heterogeneity and intrinsic versatility allow them to model a broad range of processes and phenomena, being also an efficient means to solve and analyze problems in a novel way. Membrane Computing has been used to model biological systems, becoming with time a thorough modeling paradigm comparable, in its modeling and predicting capabilities, to more established models in this area. This book is the result of the need to collect, in an organic way, different facets of this paradigm. The chapters of this book, together with the web pages accompanying th...

Excel 2016 for biological and life sciences statistics a guide to solving practical problems

CERN Document Server

Quirk, Thomas J; Horton, Howard F

2016-01-01

This book is a step-by-step exercise-driven guide for students and practitioners who need to master Excel to solve practical biological and life science problems. If understanding statistics isn’t your strongest suit, you are not especially mathematically-inclined, or if you are wary of computers, this is the right book for you. Excel is an effective learning tool for quantitative analyses in biological and life sciences courses. Its powerful computational ability and graphical functions make learning statistics much easier than in years past. However, Excel 2016 for Biological and Life Sciences Statistics: A Guide to Solving Practical Problems is the first book to capitalize on these improvements by teaching students and managers how to apply Excel 2016 to statistical techniques necessary in their courses and work. Each chapter explains statistical formulas and directs the reader to use Excel commands to solve specific, easy-to-understand biological and life science problems. Practice problems are provided...

Computer science handbook. Vol. 13.3. Environmental computer science. Computer science methods for environmental protection and environmental research

International Nuclear Information System (INIS)

Page, B.; Hilty, L.M.

1994-01-01

Environmental computer science is a new partial discipline of applied computer science, which makes use of methods and techniques of information processing in environmental protection. Thanks to the inter-disciplinary nature of environmental problems, computer science acts as a mediator between numerous disciplines and institutions in this sector. The handbook reflects the broad spectrum of state-of-the art environmental computer science. The following important subjects are dealt with: Environmental databases and information systems, environmental monitoring, modelling and simulation, visualization of environmental data and knowledge-based systems in the environmental sector. (orig.) [de

Computational Biology and High Performance Computing 2000

Energy Technology Data Exchange (ETDEWEB)

Simon, Horst D.; Zorn, Manfred D.; Spengler, Sylvia J.; Shoichet, Brian K.; Stewart, Craig; Dubchak, Inna L.; Arkin, Adam P.

2000-10-19

The pace of extraordinary advances in molecular biology has accelerated in the past decade due in large part to discoveries coming from genome projects on human and model organisms. The advances in the genome project so far, happening well ahead of schedule and under budget, have exceeded any dreams by its protagonists, let alone formal expectations. Biologists expect the next phase of the genome project to be even more startling in terms of dramatic breakthroughs in our understanding of human biology, the biology of health and of disease. Only today can biologists begin to envision the necessary experimental, computational and theoretical steps necessary to exploit genome sequence information for its medical impact, its contribution to biotechnology and economic competitiveness, and its ultimate contribution to environmental quality. High performance computing has become one of the critical enabling technologies, which will help to translate this vision of future advances in biology into reality. Biologists are increasingly becoming aware of the potential of high performance computing. The goal of this tutorial is to introduce the exciting new developments in computational biology and genomics to the high performance computing community.

Computational biology

DEFF Research Database (Denmark)

Hartmann, Lars Røeboe; Jones, Neil; Simonsen, Jakob Grue

2011-01-01

Computation via biological devices has been the subject of close scrutiny since von Neumann’s early work some 60 years ago. In spite of the many relevant works in this field, the notion of programming biological devices seems to be, at best, ill-defined. While many devices are claimed or proved t...

Computational biomechanics for medicine fundamental science and patient-specific applications

CERN Document Server

Miller, Karol; Wittek, Adam; Nielsen, Poul

2014-01-01

One of the greatest challenges facing the computational engineering community is to extend the success of computational mechanics to fields outside traditional engineering, in particular to biology, the biomedical sciences, and medicine. The Computational Biomechanics for Medicine titles provide an opportunity for specialists in computational biomechanics to present their latest methodologies and advancements. This latest installment comprises nine of the latest developments in both fundamental science and patient-specific applications, from researchers in Australia, New Zealand, USA, UK, France, Ireland, and China. Some of the interesting topics discussed are: cellular mechanics; tumor growth and modeling; medical image analysis; and both patient-specific fluid dynamics and solid mechanics simulations.

Democratizing Computer Science

Science.gov (United States)

Margolis, Jane; Goode, Joanna; Ryoo, Jean J.

2015-01-01

Computer science programs are too often identified with a narrow stratum of the student population, often white or Asian boys who have access to computers at home. But because computers play such a huge role in our world today, all students can benefit from the study of computer science and the opportunity to build skills related to computing. The…

Where mathematics, computer science, linguistics and biology meet essays in honour of Gheorghe Păun

CERN Document Server

Mitrana, Victor

2001-01-01

In the last years, it was observed an increasing interest of computer scientists in the structure of biological molecules and the way how they can be manipulated in vitro in order to define theoretical models of computation based on genetic engineering tools. Along the same lines, a parallel interest is growing regarding the process of evolution of living organisms. Much of the current data for genomes are expressed in the form of maps which are now becoming available and permit the study of the evolution of organisms at the scale of genome for the first time. On the other hand, there is an active trend nowadays throughout the field of computational biology toward abstracted, hierarchical views of biological sequences, which is very much in the spirit of computational linguistics. In the last decades, results and methods in the field of formal language theory that might be applied to the description of biological sequences were pointed out.

Computational Materials Science | Materials Science | NREL

Science.gov (United States)

Computational Materials Science Computational Materials Science An image of interconnecting, sphere science capabilities span many research fields and interests. Electronic, Optical, and Transport Properties of Photovoltaic Materials Material properties and defect physics of Si, CdTe, III-V, CIGS, CZTS

Computer sciences

Science.gov (United States)

Smith, Paul H.

1988-01-01

The Computer Science Program provides advanced concepts, techniques, system architectures, algorithms, and software for both space and aeronautics information sciences and computer systems. The overall goal is to provide the technical foundation within NASA for the advancement of computing technology in aerospace applications. The research program is improving the state of knowledge of fundamental aerospace computing principles and advancing computing technology in space applications such as software engineering and information extraction from data collected by scientific instruments in space. The program includes the development of special algorithms and techniques to exploit the computing power provided by high performance parallel processors and special purpose architectures. Research is being conducted in the fundamentals of data base logic and improvement techniques for producing reliable computing systems.

American Institute of Biological Sciences

Science.gov (United States)

... Staff Issues AIBS Position Statements Funding for the Biological Sciences Supporting Scientific Collections Advocating for Research Policy ... Public Policy Leadership Award Graduate students in the biological sciences who have demonstrated initiative and leadership in ...

Science Prospects And Benefits with Exascale Computing

Energy Technology Data Exchange (ETDEWEB)

Kothe, Douglas B [ORNL

2007-12-01

Scientific computation has come into its own as a mature technology in all fields of science. Never before have we been able to accurately anticipate, analyze, and plan for complex events that have not yet occurred from the operation of a reactor running at 100 million degrees centigrade to the changing climate a century down the road. Combined with the more traditional approaches of theory and experiment, scientific computation provides a profound tool for insight and solution as we look at complex systems containing billions of components. Nevertheless, it cannot yet do all we would like. Much of scientific computation s potential remains untapped in areas such as materials science, Earth science, energy assurance, fundamental science, biology and medicine, engineering design, and national security because the scientific challenges are far too enormous and complex for the computational resources at hand. Many of these challenges are of immediate global importance. These challenges can be overcome by a revolution in computing that promises real advancement at a greatly accelerated pace. Planned petascale systems (capable of a petaflop, or 1015 floating point operations per second) in the next 3 years and exascale systems (capable of an exaflop, or 1018 floating point operations per second) in the next decade will provide an unprecedented opportunity to attack these global challenges through modeling and simulation. Exascale computers, with a processing capability similar to that of the human brain, will enable the unraveling of longstanding scientific mysteries and present new opportunities. Table ES.1 summarizes these scientific opportunities, their key application areas, and the goals and associated benefits that would result from solutions afforded by exascale computing.

Michael Levitt and Computational Biology

Science.gov (United States)

dropdown arrow Site Map A-Z Index Menu Synopsis Michael Levitt and Computational Biology Resources with Michael Levitt, PhD, professor of structural biology at the Stanford University School of Medicine, has function. ... Levitt's early work pioneered computational structural biology, which helped to predict

XIV Mediterranean Conference on Medical and Biological Engineering and Computing

CERN Document Server

Christofides, Stelios; Pattichis, Constantinos

2016-01-01

This volume presents the proceedings of Medicon 2016, held in Paphos, Cyprus. Medicon 2016 is the XIV in the series of regional meetings of the International Federation of Medical and Biological Engineering (IFMBE) in the Mediterranean. The goal of Medicon 2016 is to provide updated information on the state of the art on Medical and Biological Engineering and Computing under the main theme “Systems Medicine for the Delivery of Better Healthcare Services”. Medical and Biological Engineering and Computing cover complementary disciplines that hold great promise for the advancement of research and development in complex medical and biological systems. Research and development in these areas are impacting the science and technology by advancing fundamental concepts in translational medicine, by helping us understand human physiology and function at multiple levels, by improving tools and techniques for the detection, prevention and treatment of disease. Medicon 2016 provides a common platform for the cross fer...

Marine molecular biology: an emerging field of biological sciences.

Science.gov (United States)

Thakur, Narsinh L; Jain, Roopesh; Natalio, Filipe; Hamer, Bojan; Thakur, Archana N; Müller, Werner E G

2008-01-01

An appreciation of the potential applications of molecular biology is of growing importance in many areas of life sciences, including marine biology. During the past two decades, the development of sophisticated molecular technologies and instruments for biomedical research has resulted in significant advances in the biological sciences. However, the value of molecular techniques for addressing problems in marine biology has only recently begun to be cherished. It has been proven that the exploitation of molecular biological techniques will allow difficult research questions about marine organisms and ocean processes to be addressed. Marine molecular biology is a discipline, which strives to define and solve the problems regarding the sustainable exploration of marine life for human health and welfare, through the cooperation between scientists working in marine biology, molecular biology, microbiology and chemistry disciplines. Several success stories of the applications of molecular techniques in the field of marine biology are guiding further research in this area. In this review different molecular techniques are discussed, which have application in marine microbiology, marine invertebrate biology, marine ecology, marine natural products, material sciences, fisheries, conservation and bio-invasion etc. In summary, if marine biologists and molecular biologists continue to work towards strong partnership during the next decade and recognize intellectual and technological advantages and benefits of such partnership, an exciting new frontier of marine molecular biology will emerge in the future.

Computer science handbook

CERN Document Server

Tucker, Allen B

2004-01-01

Due to the great response to the famous Computer Science Handbook edited by Allen B. Tucker, … in 2004 Chapman & Hall/CRC published a second edition of this comprehensive reference book. Within more than 70 chapters, every one new or significantly revised, one can find any kind of information and references about computer science one can imagine. … All in all, there is absolute nothing about computer science that can not be found in the encyclopedia with its 110 survey articles …-Christoph Meinel, Zentralblatt MATH

Computation: A New Open Access Journal of Computational Chemistry, Computational Biology and Computational Engineering

OpenAIRE

Karlheinz Schwarz; Rainer Breitling; Christian Allen

2013-01-01

Computation (ISSN 2079-3197; http://www.mdpi.com/journal/computation) is an international scientific open access journal focusing on fundamental work in the field of computational science and engineering. Computational science has become essential in many research areas by contributing to solving complex problems in fundamental science all the way to engineering. The very broad range of application domains suggests structuring this journal into three sections, which are briefly characterized ...

Creating a pipeline of talent for informatics: STEM initiative for high school students in computer science, biology, and biomedical informatics

Directory of Open Access Journals (Sweden)

Joyeeta Dutta-Moscato

2014-01-01

Full Text Available This editorial provides insights into how informatics can attract highly trained students by involving them in science, technology, engineering, and math (STEM training at the high school level and continuing to provide mentorship and research opportunities through the formative years of their education. Our central premise is that the trajectory necessary to be expert in the emergent fields in front of them requires acceleration at an early time point. Both pathology (and biomedical informatics are new disciplines which would benefit from involvement by students at an early stage of their education. In 2009, Michael T Lotze MD, Kirsten Livesey (then a medical student, now a medical resident at University of Pittsburgh Medical Center (UPMC, Richard Hersheberger, PhD (Currently, Dean at Roswell Park, and Megan Seippel, MS (the administrator launched the University of Pittsburgh Cancer Institute (UPCI Summer Academy to bring high school students for an 8 week summer academy focused on Cancer Biology. Initially, pathology and biomedical informatics were involved only in the classroom component of the UPCI Summer Academy. In 2011, due to popular interest, an informatics track called Computer Science, Biology and Biomedical Informatics (CoSBBI was launched. CoSBBI currently acts as a feeder program for the undergraduate degree program in bioinformatics at the University of Pittsburgh, which is a joint degree offered by the Departments of Biology and Computer Science. We believe training in bioinformatics is the best foundation for students interested in future careers in pathology informatics or biomedical informatics. We describe our approach to the recruitment, training and research mentoring of high school students to create a pipeline of exceptionally well-trained applicants for both the disciplines of pathology informatics and biomedical informatics. We emphasize here how mentoring of high school students in pathology informatics and biomedical

Creating a pipeline of talent for informatics: STEM initiative for high school students in computer science, biology, and biomedical informatics.

Science.gov (United States)

Dutta-Moscato, Joyeeta; Gopalakrishnan, Vanathi; Lotze, Michael T; Becich, Michael J

2014-01-01

This editorial provides insights into how informatics can attract highly trained students by involving them in science, technology, engineering, and math (STEM) training at the high school level and continuing to provide mentorship and research opportunities through the formative years of their education. Our central premise is that the trajectory necessary to be expert in the emergent fields in front of them requires acceleration at an early time point. Both pathology (and biomedical) informatics are new disciplines which would benefit from involvement by students at an early stage of their education. In 2009, Michael T Lotze MD, Kirsten Livesey (then a medical student, now a medical resident at University of Pittsburgh Medical Center (UPMC)), Richard Hersheberger, PhD (Currently, Dean at Roswell Park), and Megan Seippel, MS (the administrator) launched the University of Pittsburgh Cancer Institute (UPCI) Summer Academy to bring high school students for an 8 week summer academy focused on Cancer Biology. Initially, pathology and biomedical informatics were involved only in the classroom component of the UPCI Summer Academy. In 2011, due to popular interest, an informatics track called Computer Science, Biology and Biomedical Informatics (CoSBBI) was launched. CoSBBI currently acts as a feeder program for the undergraduate degree program in bioinformatics at the University of Pittsburgh, which is a joint degree offered by the Departments of Biology and Computer Science. We believe training in bioinformatics is the best foundation for students interested in future careers in pathology informatics or biomedical informatics. We describe our approach to the recruitment, training and research mentoring of high school students to create a pipeline of exceptionally well-trained applicants for both the disciplines of pathology informatics and biomedical informatics. We emphasize here how mentoring of high school students in pathology informatics and biomedical informatics

Computational Fluid Dynamics Methods and Their Applications in Medical Science

Directory of Open Access Journals (Sweden)

Kowalewski Wojciech

2016-12-01

Full Text Available As defined by the National Institutes of Health: “Biomedical engineering integrates physical, chemical, mathematical, and computational sciences and engineering principles to study biology, medicine, behavior, and health”. Many issues in this area are closely related to fluid dynamics. This paper provides an overview of the basic concepts concerning Computational Fluid Dynamics and its applications in medicine.

World Congress on Engineering and Computer Science 2012

CERN Document Server

Ao, Sio-Iong; Amouzegar, Mahyar; Rieger, Burghard

2014-01-01

IAENG Transactions on Engineering Technologies contains forty-nine revised and extended research articles, written by prominent researchers participating in the conference. Topics covered include circuits, engineering mathematics, control theory, communications systems, systems engineering, manufacture engineering, computational biology, chemical engineering, and industrial applications. This book offers the state of art of tremendous advances in engineering technologies and physical science and applications, and also serves as an excellent source of reference for researchers and graduate students working with/on engineering technologies and physical science and applications.

Mathematics, Physics and Computer Sciences The computation of ...

African Journals Online (AJOL)

Mathematics, Physics and Computer Sciences The computation of system matrices for biquadraticsquare finite ... Global Journal of Pure and Applied Sciences ... The computation of system matrices for biquadraticsquare finite elements.

Get set for computer science

CERN Document Server

Edwards, Alistair

2006-01-01

This book is aimed at students who are thinking of studying Computer Science or a related topic at university. Part One is a brief introduction to the topics that make up Computer Science, some of which you would expect to find as course modules in a Computer Science programme. These descriptions should help you to tell the difference between Computer Science as taught in different departments and so help you to choose a course that best suits you. Part Two builds on what you have learned about the nature of Computer Science by giving you guidance in choosing universities and making your appli

Computer-aided design and computer science technology

Science.gov (United States)

Fulton, R. E.; Voigt, S. J.

1976-01-01

A description is presented of computer-aided design requirements and the resulting computer science advances needed to support aerospace design. The aerospace design environment is examined, taking into account problems of data handling and aspects of computer hardware and software. The interactive terminal is normally the primary interface between the computer system and the engineering designer. Attention is given to user aids, interactive design, interactive computations, the characteristics of design information, data management requirements, hardware advancements, and computer science developments.

Sustainable computational science

DEFF Research Database (Denmark)

Rougier, Nicolas; Hinsen, Konrad; Alexandre, Frédéric

2017-01-01

Computer science offers a large set of tools for prototyping, writing, running, testing, validating, sharing and reproducing results, however computational science lags behind. In the best case, authors may provide their source code as a compressed archive and they may feel confident their research...... workflows, in particular in peer-reviews. Existing journals have been slow to adapt: source codes are rarely requested, hardly ever actually executed to check that they produce the results advertised in the article. ReScience is a peer-reviewed journal that targets computational research and encourages...... the explicit replication of already published research, promoting new and open-source implementations in order to ensure that the original research can be replicated from its description. To achieve this goal, the whole publishing chain is radically different from other traditional scientific journals. ReScience...

COMPUTATIONAL MODELING AND SIMULATION IN BIOLOGY TEACHING: A MINIMALLY EXPLORED FIELD OF STUDY WITH A LOT OF POTENTIAL

Directory of Open Access Journals (Sweden)

Sonia López

2016-09-01

Full Text Available This study is part of a research project that aims to characterize the epistemological, psychological and didactic presuppositions of science teachers (Biology, Physics, Chemistry that implement Computational Modeling and Simulation (CMS activities as a part of their teaching practice. We present here a synthesis of a literature review on the subject, evidencing how in the last two decades this form of computer usage for science teaching has boomed in disciplines such as Physics and Chemistry, but in a lesser degree in Biology. Additionally, in the works that dwell on the use of CMS in Biology, we identified a lack of theoretical bases that support their epistemological, psychological and/or didactic postures. Accordingly, this generates significant considerations for the fields of research and teacher instruction in Science Education.

Synthetic biology: engineering molecular computers

CERN Multimedia

CERN. Geneva

2018-01-01

Complicated systems cannot survive the rigors of a chaotic environment, without balancing mechanisms that sense, decide upon and counteract the exerted disturbances. Especially so with living organisms, forced by competition to incredible complexities, escalating also their self-controlling plight. Therefore, they compute. Can we harness biological mechanisms to create artificial computing systems? Biology offers several levels of design abstraction: molecular machines, cells, organisms... ranging from the more easily-defined to the more inherently complex. At the bottom of this stack we find the nucleic acids, RNA and DNA, with their digital structure and relatively precise interactions. They are central enablers of designing artificial biological systems, in the confluence of engineering and biology, that we call Synthetic biology. In the first part, let us follow their trail towards an overview of building computing machines with molecules -- and in the second part, take the case study of iGEM Greece 201...

Computer Labs | College of Engineering & Applied Science

Science.gov (United States)

Engineering Concentration on Ergonomics M.S. Program in Computer Science Interdisciplinary Concentration on Structural Engineering Laboratory Water Resources Laboratory Computer Science Department Computer Science Academic Programs Computer Science Undergraduate Programs Computer Science Major Computer Science Tracks

Computer Resources | College of Engineering & Applied Science

Science.gov (United States)

Engineering Concentration on Ergonomics M.S. Program in Computer Science Interdisciplinary Concentration on Structural Engineering Laboratory Water Resources Laboratory Computer Science Department Computer Science Academic Programs Computer Science Undergraduate Programs Computer Science Major Computer Science Tracks

Computer Science | Classification | College of Engineering & Applied

Science.gov (United States)

Engineering Concentration on Ergonomics M.S. Program in Computer Science Interdisciplinary Concentration on Structural Engineering Laboratory Water Resources Laboratory Computer Science Department Computer Science Academic Programs Computer Science Undergraduate Programs Computer Science Major Computer Science Tracks

Education science and biological anthropology.

Science.gov (United States)

Krebs, Uwe

2014-01-01

This contribution states deficits and makes proposals in order to overcome them. First there is the question as to why the Biological Anthropology--despite all its diversifications--hardly ever deals with educational aspects of its subject. Second it is the question as to why Educational Science neglects or even ignores data of Biological Anthropology which are recognizably important for its subject. It is postulated that the stated deficits are caused by several adverse influences such as, the individual identity of each of the involved single sciences; aspects of the recent history of the German Anthropology; a lack of conceptual understanding of each other; methodological differences and, last but not least, the structure of the universities. The necessity to remedy this situation was deduced from two groups of facts. First, more recent data of the Biological Anthropology (e.g. brain functions and learning, sex specificity and education) are of substantial relevance for the Educational Science. Second, the epistemological requirements of complex subjects like education need interdisciplinary approaches. Finally, a few suggestions of concrete topics are given which are related to both, Educational Science and Biological Anthropology.

Delivering The Benefits of Chemical-Biological Integration in Computational Toxicology at the EPA (ACS Fall meeting)

Science.gov (United States)

Abstract: Researchers at the EPA’s National Center for Computational Toxicology integrate advances in biology, chemistry, and computer science to examine the toxicity of chemicals and help prioritize chemicals for further research based on potential human health risks. The intent...

Computational aspects of systematic biology.

Science.gov (United States)

Lilburn, Timothy G; Harrison, Scott H; Cole, James R; Garrity, George M

2006-06-01

We review the resources available to systematic biologists who wish to use computers to build classifications. Algorithm development is in an early stage, and only a few examples of integrated applications for systematic biology are available. The availability of data is crucial if systematic biology is to enter the computer age.

Computability, complexity, and languages fundamentals of theoretical computer science

CERN Document Server

Davis, Martin D; Rheinboldt, Werner

1983-01-01

Computability, Complexity, and Languages: Fundamentals of Theoretical Computer Science provides an introduction to the various aspects of theoretical computer science. Theoretical computer science is the mathematical study of models of computation. This text is composed of five parts encompassing 17 chapters, and begins with an introduction to the use of proofs in mathematics and the development of computability theory in the context of an extremely simple abstract programming language. The succeeding parts demonstrate the performance of abstract programming language using a macro expa

ICASE Computer Science Program

Science.gov (United States)

1985-01-01

The Institute for Computer Applications in Science and Engineering computer science program is discussed in outline form. Information is given on such topics as problem decomposition, algorithm development, programming languages, and parallel architectures.

The Need for Computer Science

Science.gov (United States)

Margolis, Jane; Goode, Joanna; Bernier, David

2011-01-01

Broadening computer science learning to include more students is a crucial item on the United States' education agenda, these authors say. Although policymakers advocate more computer science expertise, computer science offerings in high schools are few--and actually shrinking. In addition, poorly resourced schools with a high percentage of…

On teaching computer ethics within a computer science department.

Science.gov (United States)

Quinn, Michael J

2006-04-01

The author has surveyed a quarter of the accredited undergraduate computer science programs in the United States. More than half of these programs offer a 'social and ethical implications of computing' course taught by a computer science faculty member, and there appears to be a trend toward teaching ethics classes within computer science departments. Although the decision to create an 'in house' computer ethics course may sometimes be a pragmatic response to pressure from the accreditation agency, this paper argues that teaching ethics within a computer science department can provide students and faculty members with numerous benefits. The paper lists topics that can be covered in a computer ethics course and offers some practical suggestions for making the course successful.

Marine molecular biology: An emerging field of biological sciences

Digital Repository Service at National Institute of Oceanography (India)

Thakur, N.L.; Jain, R.; Natalio, F.; Hamer, B.; Thakur, A.N.; Muller, W.E.G.

An appreciation of the potential applications of molecular biology is of growing importance in many areas of life sciences, including marine biology. During the past two decades, the development of sophisticated molecular technologies...

International Journal of Biological and Chemical Sciences ...

African Journals Online (AJOL)

International Journal of Biological and Chemical Sciences: Advanced Search. Journal Home > International Journal of Biological and Chemical Sciences: Advanced Search. Log in or Register to get access to full text downloads.

Computational Science and Innovation

International Nuclear Information System (INIS)

Dean, David Jarvis

2011-01-01

Simulations - utilizing computers to solve complicated science and engineering problems - are a key ingredient of modern science. The U.S. Department of Energy (DOE) is a world leader in the development of high-performance computing (HPC), the development of applied math and algorithms that utilize the full potential of HPC platforms, and the application of computing to science and engineering problems. An interesting general question is whether the DOE can strategically utilize its capability in simulations to advance innovation more broadly. In this article, I will argue that this is certainly possible.

Discovery informatics in biological and biomedical sciences: research challenges and opportunities.

Science.gov (United States)

Honavar, Vasant

2015-01-01

New discoveries in biological, biomedical and health sciences are increasingly being driven by our ability to acquire, share, integrate and analyze, and construct and simulate predictive models of biological systems. While much attention has focused on automating routine aspects of management and analysis of "big data", realizing the full potential of "big data" to accelerate discovery calls for automating many other aspects of the scientific process that have so far largely resisted automation: identifying gaps in the current state of knowledge; generating and prioritizing questions; designing studies; designing, prioritizing, planning, and executing experiments; interpreting results; forming hypotheses; drawing conclusions; replicating studies; validating claims; documenting studies; communicating results; reviewing results; and integrating results into the larger body of knowledge in a discipline. Against this background, the PSB workshop on Discovery Informatics in Biological and Biomedical Sciences explores the opportunities and challenges of automating discovery or assisting humans in discovery through advances (i) Understanding, formalization, and information processing accounts of, the entire scientific process; (ii) Design, development, and evaluation of the computational artifacts (representations, processes) that embody such understanding; and (iii) Application of the resulting artifacts and systems to advance science (by augmenting individual or collective human efforts, or by fully automating science).

Central Computer Science Concepts to Research-Based Teacher Training in Computer Science: An Experimental Study

Science.gov (United States)

Zendler, Andreas; Klaudt, Dieter

2012-01-01

The significance of computer science for economics and society is undisputed. In particular, computer science is acknowledged to play a key role in schools (e.g., by opening multiple career paths). The provision of effective computer science education in schools is dependent on teachers who are able to properly represent the discipline and whose…

Biological mechanisms beyond network analysis via mathematical modeling. Comment on "Network science of biological systems at different scales: A review" by Marko Gosak et al.

Science.gov (United States)

Pedersen, Morten Gram

2018-03-01

Methods from network theory are increasingly used in research spanning from engineering and computer science to psychology and the social sciences. In this issue, Gosak et al. [1] provide a thorough review of network science applications to biological systems ranging from the subcellular world via neuroscience to ecosystems, with special attention to the insulin-secreting beta-cells in pancreatic islets.

NASA's computer science research program

Science.gov (United States)

Larsen, R. L.

1983-01-01

Following a major assessment of NASA's computing technology needs, a new program of computer science research has been initiated by the Agency. The program includes work in concurrent processing, management of large scale scientific databases, software engineering, reliable computing, and artificial intelligence. The program is driven by applications requirements in computational fluid dynamics, image processing, sensor data management, real-time mission control and autonomous systems. It consists of university research, in-house NASA research, and NASA's Research Institute for Advanced Computer Science (RIACS) and Institute for Computer Applications in Science and Engineering (ICASE). The overall goal is to provide the technical foundation within NASA to exploit advancing computing technology in aerospace applications.

Mathematics and Computer Science | Argonne National Laboratory

Science.gov (United States)

Extreme Computing Data-Intensive Science Applied Mathematics Science & Engineering Applications Software Extreme Computing Data-Intensive Science Applied Mathematics Science & Engineering Opportunities For Employees Staff Directory Argonne National Laboratory Mathematics and Computer Science Tools

Large Scale Computing and Storage Requirements for Biological and Environmental Research

Energy Technology Data Exchange (ETDEWEB)

DOE Office of Science, Biological and Environmental Research Program Office (BER),

2009-09-30

In May 2009, NERSC, DOE's Office of Advanced Scientific Computing Research (ASCR), and DOE's Office of Biological and Environmental Research (BER) held a workshop to characterize HPC requirements for BER-funded research over the subsequent three to five years. The workshop revealed several key points, in addition to achieving its goal of collecting and characterizing computing requirements. Chief among them: scientific progress in BER-funded research is limited by current allocations of computational resources. Additionally, growth in mission-critical computing -- combined with new requirements for collaborative data manipulation and analysis -- will demand ever increasing computing, storage, network, visualization, reliability and service richness from NERSC. This report expands upon these key points and adds others. It also presents a number of"case studies" as significant representative samples of the needs of science teams within BER. Workshop participants were asked to codify their requirements in this"case study" format, summarizing their science goals, methods of solution, current and 3-5 year computing requirements, and special software and support needs. Participants were also asked to describe their strategy for computing in the highly parallel,"multi-core" environment that is expected to dominate HPC architectures over the next few years.

Biology as an Integrating Natural Science Domain

Indian Academy of Sciences (India)

Home; Journals; Resonance – Journal of Science Education; Volume 13; Issue 3. Biology as an Integrating Natural Science Domain: A Proposal for BSc (Hons) in Integrated Biology. Kambadur Muralidhar. Classroom Volume 13 Issue 3 March 2008 pp 272-276 ...

Computer and Information Sciences III : 27th International Symposium on Computer and Information Sciences

CERN Document Server

Lent, Ricardo

2013-01-01

Information technology is the enabling foundation science and technology for all of human activity at the beginning of the 21st century, and advances in this area are crucial to all of us. These advances are taking place all over the world and can only be followed and perceived when researchers from all over the world assemble, and exchange their ideas in conferences such as the one presented in this proceedings volume regarding the 27th International Symposium on Computer and Information Systems, held at the Institut Henri Poincare' in Paris on October 3 and 4, 2012. Computer and Information Sciences III: 27th International Symposium on Computer and Information Sciences contains novel advances in the state of the art covering applied research in electrical and computer engineering and computer science, across the broad area of information technology. It provides access to the main innovative activities in research across the world, and points to the results obtained recently by some of the most active teams ...

Computation: A New Open Access Journal of Computational Chemistry, Computational Biology and Computational Engineering

Directory of Open Access Journals (Sweden)

Karlheinz Schwarz

2013-09-01

Full Text Available Computation (ISSN 2079-3197; http://www.mdpi.com/journal/computation is an international scientific open access journal focusing on fundamental work in the field of computational science and engineering. Computational science has become essential in many research areas by contributing to solving complex problems in fundamental science all the way to engineering. The very broad range of application domains suggests structuring this journal into three sections, which are briefly characterized below. In each section a further focusing will be provided by occasionally organizing special issues on topics of high interests, collecting papers on fundamental work in the field. More applied papers should be submitted to their corresponding specialist journals. To help us achieve our goal with this journal, we have an excellent editorial board to advise us on the exciting current and future trends in computation from methodology to application. We very much look forward to hearing all about the research going on across the world. [...

Sustainable computational science: the ReScience initiative

Directory of Open Access Journals (Sweden)

Nicolas P. Rougier

2017-12-01

Full Text Available Computer science offers a large set of tools for prototyping, writing, running, testing, validating, sharing and reproducing results; however, computational science lags behind. In the best case, authors may provide their source code as a compressed archive and they may feel confident their research is reproducible. But this is not exactly true. James Buckheit and David Donoho proposed more than two decades ago that an article about computational results is advertising, not scholarship. The actual scholarship is the full software environment, code, and data that produced the result. This implies new workflows, in particular in peer-reviews. Existing journals have been slow to adapt: source codes are rarely requested and are hardly ever actually executed to check that they produce the results advertised in the article. ReScience is a peer-reviewed journal that targets computational research and encourages the explicit replication of already published research, promoting new and open-source implementations in order to ensure that the original research can be replicated from its description. To achieve this goal, the whole publishing chain is radically different from other traditional scientific journals. ReScience resides on GitHub where each new implementation of a computational study is made available together with comments, explanations, and software tests.

Cultural stereotypes as gatekeepers: increasing girls’ interest in computer science and engineering by diversifying stereotypes

OpenAIRE

Cheryan, Sapna; Master, Allison; Meltzoff, Andrew N.

2015-01-01

Despite having made significant inroads into many traditionally male-dominated fields (e.g., biology, chemistry), women continue to be underrepresented in computer science and engineering. We propose that students’ stereotypes about the culture of these fields—including the kind of people, the work involved, and the values of the field—steer girls away from choosing to enter them. Computer science and engineering are stereotyped in modern American culture as male-oriented fields that involve ...

Theory and computational science

International Nuclear Information System (INIS)

Durham, P.

1985-01-01

The theoretical and computational science carried out at the Daresbury Laboratory in 1984/5 is detailed in the Appendix to the Daresbury Annual Report. The Theory, Computational Science and Applications Groups, provide support work for the experimental projects conducted at Daresbury. Use of the FPS-164 processor is also described. (U.K.)

Biomolecular Sciences: uniting Biology and Chemistry

NARCIS (Netherlands)

Vrieling, Engel

2017-01-01

Biomolecular Sciences: uniting Biology and Chemistry www.rug.nl/research/gbb The scientific discoveries in biomolecular sciences have benefitted enormously from technological innovations. At the Groningen Biomolecular Science and Biotechnology Institute (GBB) we now sequence a genome in days,

Computer science a concise introduction

CERN Document Server

Sinclair, Ian

2014-01-01

Computer Science: A Concise Introduction covers the fundamentals of computer science. The book describes micro-, mini-, and mainframe computers and their uses; the ranges and types of computers and peripherals currently available; applications to numerical computation; and commercial data processing and industrial control processes. The functions of data preparation, data control, computer operations, applications programming, systems analysis and design, database administration, and network control are also encompassed. The book then discusses batch, on-line, and real-time systems; the basic

Science Curriculum Components Favored by Taiwanese Biology Teachers

Science.gov (United States)

Lin, Chen-Yung; Hu, Reping; Changlai, Miao-Li

2005-09-01

The new 1-9 curriculum framework in Taiwan provides a remarkable change from previous frameworks in terms of the coverage of content and the powers of teachers. This study employs a modified repertory grid technique to investigate biology teachers' preferences with regard to six curriculum components. One hundred and eighty-five in-service and pre-service biology teachers were asked to determine which science curriculum components they liked and disliked most of all to include in their biology classes. The data show that the rank order of these science curriculum components, from top to bottom, was as follows: application of science, manipulation skills, scientific concepts, social/ethical issues, problem-solving skills, and the history of science. They also showed that pre-service biology teachers, as compared with in-service biology teachers, favored problem-solving skills significantly more than manipulative skills, while in-service biology teachers, as compared with pre-service biology teachers, favored manipulative skills significantly more than problem-solving skills. Some recommendations for ensuring the successful implementation of the Taiwanese 1-9 curriculum framework are also proposed.

A framework to establish credibility of computational models in biology.

Science.gov (United States)

Patterson, Eann A; Whelan, Maurice P

2017-10-01

Computational models in biology and biomedical science are often constructed to aid people's understanding of phenomena or to inform decisions with socioeconomic consequences. Model credibility is the willingness of people to trust a model's predictions and is often difficult to establish for computational biology models. A 3 × 3 matrix has been proposed to allow such models to be categorised with respect to their testability and epistemic foundation in order to guide the selection of an appropriate process of validation to supply evidence to establish credibility. Three approaches to validation are identified that can be deployed depending on whether a model is deemed untestable, testable or lies somewhere in between. In the latter two cases, the validation process involves the quantification of uncertainty which is a key output. The issues arising due to the complexity and inherent variability of biological systems are discussed and the creation of 'digital twins' proposed as a means to alleviate the issues and provide a more robust, transparent and traceable route to model credibility and acceptance. Copyright © 2016 The Authors. Published by Elsevier Ltd.. All rights reserved.

Preparing Future Secondary Computer Science Educators

Science.gov (United States)

Ajwa, Iyad

2007-01-01

Although nearly every college offers a major in computer science, many computer science teachers at the secondary level have received little formal training. This paper presents details of a project that could make a significant contribution to national efforts to improve computer science education by combining teacher education and professional…

Computational Tools for Stem Cell Biology.

Science.gov (United States)

Bian, Qin; Cahan, Patrick

2016-12-01

For over half a century, the field of developmental biology has leveraged computation to explore mechanisms of developmental processes. More recently, computational approaches have been critical in the translation of high throughput data into knowledge of both developmental and stem cell biology. In the past several years, a new subdiscipline of computational stem cell biology has emerged that synthesizes the modeling of systems-level aspects of stem cells with high-throughput molecular data. In this review, we provide an overview of this new field and pay particular attention to the impact that single cell transcriptomics is expected to have on our understanding of development and our ability to engineer cell fate. Copyright © 2016 Elsevier Ltd. All rights reserved.

Computer Programs in Marine Science: Key to Oceanographic Records Documentation No. 5.

Science.gov (United States)

Firestone, Mary A.

Presented are abstracts of 700 computer programs in marine science. The programs listed are categorized under a wide range of headings which include physical oceanography, chemistry, coastal and estuarine processes, biology, pollution, air-sea interaction and heat budget, navigation and charting, curve fitting, and applied mathematics. The…

The Human Genome Project: big science transforms biology and medicine.

Science.gov (United States)

Hood, Leroy; Rowen, Lee

2013-01-01

The Human Genome Project has transformed biology through its integrated big science approach to deciphering a reference human genome sequence along with the complete sequences of key model organisms. The project exemplifies the power, necessity and success of large, integrated, cross-disciplinary efforts - so-called 'big science' - directed towards complex major objectives. In this article, we discuss the ways in which this ambitious endeavor led to the development of novel technologies and analytical tools, and how it brought the expertise of engineers, computer scientists and mathematicians together with biologists. It established an open approach to data sharing and open-source software, thereby making the data resulting from the project accessible to all. The genome sequences of microbes, plants and animals have revolutionized many fields of science, including microbiology, virology, infectious disease and plant biology. Moreover, deeper knowledge of human sequence variation has begun to alter the practice of medicine. The Human Genome Project has inspired subsequent large-scale data acquisition initiatives such as the International HapMap Project, 1000 Genomes, and The Cancer Genome Atlas, as well as the recently announced Human Brain Project and the emerging Human Proteome Project.

International Journal of Biological and Chemical Sciences: Contact

African Journals Online (AJOL)

International Journal of Biological and Chemical Sciences: Contact. Journal Home > About the Journal > International Journal of Biological and Chemical Sciences: Contact. Log in or Register to get access to full text downloads.

International Journal of Biological and Chemical Sciences: About ...

African Journals Online (AJOL)

International Journal of Biological and Chemical Sciences: About this journal. Journal Home > International Journal of Biological and Chemical Sciences: About this journal. Log in or Register to get access to full text downloads.

Multiscale modeling, coarse-graining and shock wave computer simulationsin materials science

Directory of Open Access Journals (Sweden)

Martin O. Steinhauser

2017-12-01

Full Text Available My intention in this review article is to briefly discuss several major topics of presentdaycomputational materials science in order to show their importance for state-of-the-art materialsmodeling and computer simulation. The topics I discuss are multiscale modeling approaches forhierarchical systems such as biological macromolecules and related coarse-graining techniques, whichprovide an effcient means to investigate systems on the mesoscale, and shock wave physics whichhas many important and interesting multi- and interdisciplinary applications in research areas wherephysics, biology, chemistry, computer science, medicine and even engineering meet. In fact, recently,as a new emerging field, the use of coarse-grained approaches for the simulation of biologicalmacromolecules such as lipids and bilayer membranes and the investigation of their interaction withshock waves has become very popular. This emerging area of research may contribute not only toan improved understanding of the microscopic details of molecular self-assembly but may also leadto enhanced medical tumor treatments which are based on the destructive effects of High IntensityFocused Ultrasound (HIFU or shock waves when interacting with biological cells and tissue; theseare treatments which have been used in medicine for many years, but which are not well understoodfrom a fundamental physical point of view.

Computer Science and the Liberal Arts

Science.gov (United States)

Shannon, Christine

2010-01-01

Computer science and the liberal arts have much to offer each other. Yet liberal arts colleges, in particular, have been slow to recognize the opportunity that the study of computer science provides for achieving the goals of a liberal education. After the precipitous drop in computer science enrollments during the first decade of this century,…

iBiology: communicating the process of science.

Science.gov (United States)

Goodwin, Sarah S

2014-08-01

The Internet hosts an abundance of science video resources aimed at communicating scientific knowledge, including webinars, massive open online courses, and TED talks. Although these videos are efficient at disseminating information for diverse types of users, they often do not demonstrate the process of doing science, the excitement of scientific discovery, or how new scientific knowledge is developed. iBiology (www.ibiology.org), a project that creates open-access science videos about biology research and science-related topics, seeks to fill this need by producing videos by science leaders that make their ideas, stories, and experiences available to anyone with an Internet connection. © 2014 Goodwin. This article is distributed by The American Society for Cell Biology under license from the author(s). Two months after publication it is available to the public under an Attribution–Noncommercial–Share Alike 3.0 Unported Creative Commons License (http://creativecommons.org/licenses/by-nc-sa/3.0).

Archives: International Journal of Biological and Chemical Sciences

African Journals Online (AJOL)

Items 1 - 50 of 61 ... Archives: International Journal of Biological and Chemical Sciences. Journal Home > Archives: International Journal of Biological and Chemical Sciences. Log in or Register to get access to full text downloads.

Crystal growth and computational materials science

International Nuclear Information System (INIS)

Jayakumar, S.; Ravindran, P.; Arun Kumar, R.; Sudarshan, C.

2012-01-01

The proceedings of the international conference on advanced materials discusses the advances being made in the area of single crystals, their preparation and device development from these crystals and details of the progress that is taking place in the computational field relating to materials science. Computational materials science makes use of advanced simulation tools and computer interfaces to develop a virtual platform which can provide a model for real-time experiments. This book includes selected papers in topics of crystal growth and computational materials science. We are confident that the new concepts and results presented will stimulate and enhance progress of research on crystal growth and computational materials science. Papers relevant to INIS are indexed separately

Quantum computer science

CERN Document Server

Lanzagorta, Marco

2009-01-01

In this text we present a technical overview of the emerging field of quantum computation along with new research results by the authors. What distinguishes our presentation from that of others is our focus on the relationship between quantum computation and computer science. Specifically, our emphasis is on the computational model of quantum computing rather than on the engineering issues associated with its physical implementation. We adopt this approach for the same reason that a book on computer programming doesn't cover the theory and physical realization of semiconductors. Another distin

Advanced in Computer Science and its Applications

CERN Document Server

Yen, Neil; Park, James; CSA 2013

2014-01-01

The theme of CSA is focused on the various aspects of computer science and its applications for advances in computer science and its applications and provides an opportunity for academic and industry professionals to discuss the latest issues and progress in the area of computer science and its applications. Therefore this book will be include the various theories and practical applications in computer science and its applications.

Computer and information science

CERN Document Server

2016-01-01

This edited book presents scientific results of the 15th IEEE/ACIS International Conference on Computer and Information Science (ICIS 2016) which was held on June 26– 29 in Okayama, Japan. The aim of this conference was to bring together researchers and scientists, businessmen and entrepreneurs, teachers, engineers, computer users, and students to discuss the numerous fields of computer science and to share their experiences and exchange new ideas and information in a meaningful way. Research results about all aspects (theory, applications and tools) of computer and information science, and to discuss the practical challenges encountered along the way and the solutions adopted to solve them. The conference organizers selected the best papers from those papers accepted for presentation at the conference. The papers were chosen based on review scores submitted by members of the program committee, and underwent further rigorous rounds of review. This publication captures 12 of the conference’s most promising...

Computational Modeling of Biological Systems From Molecules to Pathways

CERN Document Server

2012-01-01

Computational modeling is emerging as a powerful new approach for studying and manipulating biological systems. Many diverse methods have been developed to model, visualize, and rationally alter these systems at various length scales, from atomic resolution to the level of cellular pathways. Processes taking place at larger time and length scales, such as molecular evolution, have also greatly benefited from new breeds of computational approaches. Computational Modeling of Biological Systems: From Molecules to Pathways provides an overview of established computational methods for the modeling of biologically and medically relevant systems. It is suitable for researchers and professionals working in the fields of biophysics, computational biology, systems biology, and molecular medicine.

Computing, Environment and Life Sciences | Argonne National Laboratory

Science.gov (United States)

Computing, Environment and Life Sciences Research Divisions BIOBiosciences CPSComputational Science DSLData Argonne Leadership Computing Facility Biosciences Division Environmental Science Division Mathematics and Computer Science Division Facilities and Institutes Argonne Leadership Computing Facility News Events About

1st International Conference on Computational and Experimental Biomedical Sciences

CERN Document Server

Jorge, RM

2015-01-01

This book contains the full papers presented at ICCEBS 2013 – the 1st International Conference on Computational and Experimental Biomedical Sciences, which was organized in Azores, in October 2013. The included papers present and discuss new trends in those fields, using several methods and techniques, including active shape models, constitutive models, isogeometric elements, genetic algorithms, level sets, material models, neural networks, optimization, and the finite element method, in order to address more efficiently different and timely applications involving biofluids, computer simulation, computational biomechanics, image based diagnosis, image processing and analysis, image segmentation, image registration, scaffolds, simulation, and surgical planning. The main audience for this book consists of researchers, Ph.D students, and graduate students with multidisciplinary interests related to the areas of artificial intelligence, bioengineering, biology, biomechanics, computational fluid dynamics, comput...

Computing handbook computer science and software engineering

CERN Document Server

Gonzalez, Teofilo; Tucker, Allen

2014-01-01

Overview of Computer Science Structure and Organization of Computing Peter J. DenningComputational Thinking Valerie BarrAlgorithms and Complexity Data Structures Mark WeissBasic Techniques for Design and Analysis of Algorithms Edward ReingoldGraph and Network Algorithms Samir Khuller and Balaji RaghavachariComputational Geometry Marc van KreveldComplexity Theory Eric Allender, Michael Loui, and Kenneth ReganFormal Models and Computability Tao Jiang, Ming Li, and Bala

Computational Science at the Argonne Leadership Computing Facility

Science.gov (United States)

Romero, Nichols

2014-03-01

The goal of the Argonne Leadership Computing Facility (ALCF) is to extend the frontiers of science by solving problems that require innovative approaches and the largest-scale computing systems. ALCF's most powerful computer - Mira, an IBM Blue Gene/Q system - has nearly one million cores. How does one program such systems? What software tools are available? Which scientific and engineering applications are able to utilize such levels of parallelism? This talk will address these questions and describe a sampling of projects that are using ALCF systems in their research, including ones in nanoscience, materials science, and chemistry. Finally, the ways to gain access to ALCF resources will be presented. This research used resources of the Argonne Leadership Computing Facility at Argonne National Laboratory, which is supported by the Office of Science of the U.S. Department of Energy under contract DE-AC02-06CH11357.

Biological Sciences for the 21st Century: Meeting the Challenges of Sustainable Development in an Era of Global Change

Energy Technology Data Exchange (ETDEWEB)

Joel Cracraft; Richard O' Grady

2007-05-12

The symposium was held 10-12 May, 2007 at the Capitol Hilton Hotel in Washington, D. C. The 30 talks explored how some of today's key biological research developments (such as biocomplexity and complex systems analysis, bioinformatics and computational biology, the expansion of molecular and genomics research, and the emergence of other comprehensive or system wide analyses, such as proteomics) contribute to sustainability science. The symposium therefore emphasized the challenges facing agriculture, human health, sustainable energy, and the maintenance of ecosystems and their services, so as to provide a focus and a suite of examples of the enormous potential contributions arising from these new developments in the biological sciences. This symposium was the first to provide a venue for exploring how the ongoing advances in the biological sciences together with new approaches for improving knowledge integration and institutional science capacity address key global challenges to sustainability. The speakers presented new research findings, and identified new approaches and needs in biological research that can be expected to have substantial impacts on sustainability science.

Enabling Earth Science Through Cloud Computing

Science.gov (United States)

Hardman, Sean; Riofrio, Andres; Shams, Khawaja; Freeborn, Dana; Springer, Paul; Chafin, Brian

2012-01-01

Cloud Computing holds tremendous potential for missions across the National Aeronautics and Space Administration. Several flight missions are already benefiting from an investment in cloud computing for mission critical pipelines and services through faster processing time, higher availability, and drastically lower costs available on cloud systems. However, these processes do not currently extend to general scientific algorithms relevant to earth science missions. The members of the Airborne Cloud Computing Environment task at the Jet Propulsion Laboratory have worked closely with the Carbon in Arctic Reservoirs Vulnerability Experiment (CARVE) mission to integrate cloud computing into their science data processing pipeline. This paper details the efforts involved in deploying a science data system for the CARVE mission, evaluating and integrating cloud computing solutions with the system and porting their science algorithms for execution in a cloud environment.

Designing Computer-Supported Complex Systems Curricula for the Next Generation Science Standards in High School Science Classrooms

Directory of Open Access Journals (Sweden)

Susan A. Yoon

2016-12-01

Full Text Available We present a curriculum and instruction framework for computer-supported teaching and learning about complex systems in high school science classrooms. This work responds to a need in K-12 science education research and practice for the articulation of design features for classroom instruction that can address the Next Generation Science Standards (NGSS recently launched in the USA. We outline the features of the framework, including curricular relevance, cognitively rich pedagogies, computational tools for teaching and learning, and the development of content expertise, and provide examples of how the framework is translated into practice. We follow this up with evidence from a preliminary study conducted with 10 teachers and 361 students, aimed at understanding the extent to which students learned from the activities. Results demonstrated gains in students’ complex systems understanding and biology content knowledge. In interviews, students identified influences of various aspects of the curriculum and instruction framework on their learning.

Introduction Of Computational Materials Science

International Nuclear Information System (INIS)

Lee, Jun Geun

2006-08-01

This book gives, descriptions of computer simulation, computational materials science, typical three ways of computational materials science, empirical methods ; molecular dynamics such as potential energy, Newton's equation of motion, data production and analysis of results, quantum mechanical methods like wave equation, approximation, Hartree method, and density functional theory, dealing of solid such as pseudopotential method, tight-binding methods embedded atom method, Car-Parrinello method and combination simulation.

Ranked retrieval of Computational Biology models.

Science.gov (United States)

Henkel, Ron; Endler, Lukas; Peters, Andre; Le Novère, Nicolas; Waltemath, Dagmar

2010-08-11

The study of biological systems demands computational support. If targeting a biological problem, the reuse of existing computational models can save time and effort. Deciding for potentially suitable models, however, becomes more challenging with the increasing number of computational models available, and even more when considering the models' growing complexity. Firstly, among a set of potential model candidates it is difficult to decide for the model that best suits ones needs. Secondly, it is hard to grasp the nature of an unknown model listed in a search result set, and to judge how well it fits for the particular problem one has in mind. Here we present an improved search approach for computational models of biological processes. It is based on existing retrieval and ranking methods from Information Retrieval. The approach incorporates annotations suggested by MIRIAM, and additional meta-information. It is now part of the search engine of BioModels Database, a standard repository for computational models. The introduced concept and implementation are, to our knowledge, the first application of Information Retrieval techniques on model search in Computational Systems Biology. Using the example of BioModels Database, it was shown that the approach is feasible and extends the current possibilities to search for relevant models. The advantages of our system over existing solutions are that we incorporate a rich set of meta-information, and that we provide the user with a relevance ranking of the models found for a query. Better search capabilities in model databases are expected to have a positive effect on the reuse of existing models.

[Applications of synthetic biology in materials science].

Science.gov (United States)

Zhao, Tianxin; Zhong, Chao

2017-03-25

Materials are the basis for human being survival and social development. To keep abreast with the increasing needs from all aspects of human society, there are huge needs in the development of advanced materials as well as high-efficiency but low-cost manufacturing strategies that are both sustainable and tunable. Synthetic biology, a new engineering principle taking gene regulation and engineering design as the core, greatly promotes the development of life sciences. This discipline has also contributed to the development of material sciences and will continuously bring new ideas to future new material design. In this paper, we review recent advances in applications of synthetic biology in material sciences, with the focus on how synthetic biology could enable synthesis of new polymeric biomaterials and inorganic materials, phage display and directed evolution of proteins relevant to materials development, living functional materials, engineered bacteria-regulated artificial photosynthesis system as well as applications of gene circuits for material sciences.

The NASA computer science research program plan

Science.gov (United States)

1983-01-01

A taxonomy of computer science is included, one state of the art of each of the major computer science categories is summarized. A functional breakdown of NASA programs under Aeronautics R and D, space R and T, and institutional support is also included. These areas were assessed against the computer science categories. Concurrent processing, highly reliable computing, and information management are identified.

77 FR 19740 - Biological Sciences Advisory Committee; Notice of Meeting

Science.gov (United States)

2012-04-02

... NATIONAL SCIENCE FOUNDATION Biological Sciences Advisory Committee; Notice of Meeting In accordance with the Federal Advisory Committee Act (Pub. L., 92- 463, as amended), the National Science Foundation announces the following meeting: Name: Biological Sciences Advisory Committee ( 1110). Date and...

The Effect of a Computer Program Designed with Constructivist Principles for College Non-Science Majors on Understanding of Photosynthesis and Cellular Respiration

Science.gov (United States)

Wielard, Valerie Michelle

2013-01-01

The primary objective of this project was to learn what effect a computer program would have on academic achievement and attitude toward science of college students enrolled in a biology class for non-science majors. It became apparent that the instructor also had an effect on attitudes toward science. The researcher designed a computer program,…

Factors influencing exemplary science teachers' levels of computer use

Science.gov (United States)

Hakverdi, Meral

This study examines exemplary science teachers' use of technology in science instruction, factors influencing their level of computer use, their level of knowledge/skills in using specific computer applications for science instruction, their use of computer-related applications/tools during their instruction, and their students' use of computer applications/tools in or for their science class. After a relevant review of the literature certain variables were selected for analysis. These variables included personal self-efficacy in teaching with computers, outcome expectancy, pupil-control ideology, level of computer use, age, gender, teaching experience, personal computer use, professional computer use and science teachers' level of knowledge/skills in using specific computer applications for science instruction. The sample for this study includes middle and high school science teachers who received the Presidential Award for Excellence in Science Teaching Award (sponsored by the White House and the National Science Foundation) between the years 1997 and 2003 from all 50 states and U.S. territories. Award-winning science teachers were contacted about the survey via e-mail or letter with an enclosed return envelope. Of the 334 award-winning science teachers, usable responses were received from 92 science teachers, which made a response rate of 27.5%. Analysis of the survey responses indicated that exemplary science teachers have a variety of knowledge/skills in using computer related applications/tools. The most commonly used computer applications/tools are information retrieval via the Internet, presentation tools, online communication, digital cameras, and data collection probes. Results of the study revealed that students' use of technology in their science classroom is highly correlated with the frequency of their science teachers' use of computer applications/tools. The results of the multiple regression analysis revealed that personal self-efficacy related to

Final report for Conference Support Grant "From Computational Biophysics to Systems Biology - CBSB12"

Energy Technology Data Exchange (ETDEWEB)

Hansmann, Ulrich H.E.

2012-07-02

This report summarizes the outcome of the international workshop From Computational Biophysics to Systems Biology (CBSB12) which was held June 3-5, 2012, at the University of Tennessee Conference Center in Knoxville, TN, and supported by DOE through the Conference Support Grant 120174. The purpose of CBSB12 was to provide a forum for the interaction between a data-mining interested systems biology community and a simulation and first-principle oriented computational biophysics/biochemistry community. CBSB12 was the sixth in a series of workshops of the same name organized in recent years, and the second that has been held in the USA. As in previous years, it gave researchers from physics, biology, and computer science an opportunity to acquaint each other with current trends in computational biophysics and systems biology, to explore venues of cooperation, and to establish together a detailed understanding of cells at a molecular level. The conference grant of $10,000 was used to cover registration fees and provide travel fellowships to selected students and postdoctoral scientists. By educating graduate students and providing a forum for young scientists to perform research into the working of cells at a molecular level, the workshop adds to DOE's mission of paving the way to exploit the abilities of living systems to capture, store and utilize energy.

Advances in Computer Science, Engineering & Applications : Proceedings of the Second International Conference on Computer Science, Engineering & Applications

CERN Document Server

Zizka, Jan; Nagamalai, Dhinaharan

2012-01-01

The International conference series on Computer Science, Engineering & Applications (ICCSEA) aims to bring together researchers and practitioners from academia and industry to focus on understanding computer science, engineering and applications and to establish new collaborations in these areas. The Second International Conference on Computer Science, Engineering & Applications (ICCSEA-2012), held in Delhi, India, during May 25-27, 2012 attracted many local and international delegates, presenting a balanced mixture of  intellect and research both from the East and from the West. Upon a strenuous peer-review process the best submissions were selected leading to an exciting, rich and a high quality technical conference program, which featured high-impact presentations in the latest developments of various areas of computer science, engineering and applications research.

Advances in Computer Science, Engineering & Applications : Proceedings of the Second International Conference on Computer Science, Engineering & Applications

CERN Document Server

Zizka, Jan; Nagamalai, Dhinaharan

2012-01-01

The International conference series on Computer Science, Engineering & Applications (ICCSEA) aims to bring together researchers and practitioners from academia and industry to focus on understanding computer science, engineering and applications and to establish new collaborations in these areas. The Second International Conference on Computer Science, Engineering & Applications (ICCSEA-2012), held in Delhi, India, during May 25-27, 2012 attracted many local and international delegates, presenting a balanced mixture of  intellect and research both from the East and from the West. Upon a strenuous peer-review process the best submissions were selected leading to an exciting, rich and a high quality technical conference program, which featured high-impact presentations in the latest developments of various areas of computer science, engineering and applications research.  

Volunteer Computing for Science Gateways

OpenAIRE

Anderson, David

2017-01-01

This poster offers information about volunteer computing for science gateways that offer high-throughput computing services. Volunteer computing can be used to get computing power. This increases the visibility of the gateway to the general public as well as increasing computing capacity at little cost.

Information technology developments within the national biological information infrastructure

Science.gov (United States)

Cotter, G.; Frame, M.T.

2000-01-01

Looking out an office window or exploring a community park, one can easily see the tremendous challenges that biological information presents the computer science community. Biological information varies in format and content depending whether or not it is information pertaining to a particular species (i.e. Brown Tree Snake), or a specific ecosystem, which often includes multiple species, land use characteristics, and geospatially referenced information. The complexity and uniqueness of each individual species or ecosystem do not easily lend themselves to today's computer science tools and applications. To address the challenges that the biological enterprise presents the National Biological Information Infrastructure (NBII) (http://www.nbii.gov) was established in 1993. The NBII is designed to address these issues on a National scale within the United States, and through international partnerships abroad. This paper discusses current computer science efforts within the National Biological Information Infrastructure Program and future computer science research endeavors that are needed to address the ever-growing issues related to our Nation's biological concerns.

CREATIVE APPROACHES TO COMPUTER SCIENCE EDUCATION

Directory of Open Access Journals (Sweden)

V. B. Raspopov

2010-04-01

Full Text Available Using the example of PPS «Toolbox of multimedia lessons «For Children About Chopin» we demonstrate the possibility of involving creative students in developing the software packages for educational purposes. Similar projects can be assigned to school and college students studying computer sciences and informatics, and implemented under the teachers’ supervision, as advanced assignments or thesis projects as a part of a high school course IT or Computer Sciences, a college course of Applied Scientific Research, or as a part of preparation for students’ participation in the Computer Science competitions or IT- competitions of Youth Academy of Sciences ( MAN in Russian or in Ukrainian.

Student Engagement in a Computer Rich Science Classroom

Science.gov (United States)

Hunter, Jeffrey C.

The purpose of this study was to examine the student lived experience when using computers in a rural science classroom. The overarching question the project sought to examine was: How do rural students relate to computers as a learning tool in comparison to a traditional science classroom? Participant data were collected using a pre-study survey, Experience Sampling during class and post-study interviews. Students want to use computers in their classrooms. Students shared that they overwhelmingly (75%) preferred a computer rich classroom to a traditional classroom (25%). Students reported a higher level of engagement in classes that use technology/computers (83%) versus those that do not use computers (17%). A computer rich classroom increased student control and motivation as reflected by a participant who shared; "by using computers I was more motivated to get the work done" (Maggie, April 25, 2014, survey). The researcher explored a rural school environment. Rural populations represent a large number of students and appear to be underrepresented in current research. The participants, tenth grade Biology students, were sampled in a traditional teacher led class without computers for one week followed by a week using computers daily. Data supported that there is a new gap that separates students, a device divide. This divide separates those who have access to devices that are robust enough to do high level class work from those who do not. Although cellular phones have reduced the number of students who cannot access the Internet, they may have created a false feeling that access to a computer is no longer necessary at home. As this study shows, although most students have Internet access, fewer have access to a device that enables them to complete rigorous class work at home. Participants received little or no training at school in proper, safe use of a computer and the Internet. It is clear that the majorities of students are self-taught or receive guidance

5. Conference cycle. The radiations and the Biological Sciences

International Nuclear Information System (INIS)

Balcazar G, M.; Chavez B, A.

1991-06-01

Nuclear technologies and their development have influenced many aspects of modern life. Besides used for electricity production nuclear technologies are applied in many other fields, especially in biological sciences. In genetics and molecular biology they enable research resulting in increased food production and better food preservation. Usage in material sciences lead to new varieties of plastics or improved characteristics. Nuclear applications are used in pe troleum industries and in forecasting geothermic power. Radiobiology and radiotherapy enable diagnosis and therapy of several diseases, e.g. cancer. Nuclear technologies also contribute to preserve the environment. They offer methods to analyse as well as decrease the environmental impacts. The 5. conference cyle entitled 'The Radiations and the Biological Sciences' aims to inform students of biological sciences about new nuclear technologies applied in their field of interest

Advances in Computer Science and Engineering

CERN Document Server

Second International Conference on Advances in Computer Science and Engineering (CES 2012)

2012-01-01

This book includes the proceedings of the second International Conference on Advances in Computer Science and Engineering (CES 2012), which was held during January 13-14, 2012 in Sanya, China. The papers in these proceedings of CES 2012 focus on the researchers’ advanced works in their fields of Computer Science and Engineering mainly organized in four topics, (1) Software Engineering, (2) Intelligent Computing, (3) Computer Networks, and (4) Artificial Intelligence Software.

Computer Science Research at Langley

Science.gov (United States)

Voigt, S. J. (Editor)

1982-01-01

A workshop was held at Langley Research Center, November 2-5, 1981, to highlight ongoing computer science research at Langley and to identify additional areas of research based upon the computer user requirements. A panel discussion was held in each of nine application areas, and these are summarized in the proceedings. Slides presented by the invited speakers are also included. A survey of scientific, business, data reduction, and microprocessor computer users helped identify areas of focus for the workshop. Several areas of computer science which are of most concern to the Langley computer users were identified during the workshop discussions. These include graphics, distributed processing, programmer support systems and tools, database management, and numerical methods.

Profile of science process skills of Preservice Biology Teacher in General Biology Course

Science.gov (United States)

Susanti, R.; Anwar, Y.; Ermayanti

2018-04-01

This study aims to obtain portrayal images of science process skills among preservice biology teacher. This research took place in Sriwijaya University and involved 41 participants. To collect the data, this study used multiple choice test comprising 40 items to measure the mastery of science process skills. The data were then analyzed in descriptive manner. The results showed that communication aspect outperfomed the other skills with that 81%; while the lowest one was identifying variables and predicting (59%). In addition, basic science process skills was 72%; whereas for integrated skills was a bit lower, 67%. In general, the capability of doing science process skills varies among preservice biology teachers.

Science Ideals and Science Careers in a University Biology Department

Science.gov (United States)

Long, David E.

2014-01-01

In an ethnographic study set within a biology department of a public university in the United States, incongruity between the ideals and practice of science education are investigated. Against the background of religious conservative students' complaints about evolution in the curriculum, biology faculty describe their political intents for…

DATABASES DEVELOPED IN INDIA FOR BIOLOGICAL SCIENCES

Directory of Open Access Journals (Sweden)

Gitanjali Yadav

2017-09-01

Full Text Available The complexity of biological systems requires use of a variety of experimental methods with ever increasing sophistication to probe various cellular processes at molecular and atomic resolution. The availability of technologies for determining nucleic acid sequences of genes and atomic resolution structures of biomolecules prompted development of major biological databases like GenBank and PDB almost four decades ago. India was one of the few countries to realize early, the utility of such databases for progress in modern biology/biotechnology. Department of Biotechnology (DBT, India established Biotechnology Information System (BTIS network in late eighties. Starting with the genome sequencing revolution at the turn of the century, application of high-throughput sequencing technologies in biology and medicine for analysis of genomes, transcriptomes, epigenomes and microbiomes have generated massive volumes of sequence data. BTIS network has not only provided state of the art computational infrastructure to research institutes and universities for utilizing various biological databases developed abroad in their research, it has also actively promoted research and development (R&D projects in Bioinformatics to develop a variety of biological databases in diverse areas. It is encouraging to note that, a large number of biological databases or data driven software tools developed in India, have been published in leading peer reviewed international journals like Nucleic Acids Research, Bioinformatics, Database, BMC, PLoS and NPG series publication. Some of these databases are not only unique, they are also highly accessed as reflected in number of citations. Apart from databases developed by individual research groups, BTIS has initiated consortium projects to develop major India centric databases on Mycobacterium tuberculosis, Rice and Mango, which can potentially have practical applications in health and agriculture. Many of these biological

Application of computational intelligence to biology

CERN Document Server

Sekhar, Akula

2016-01-01

This book is a contribution of translational and allied research to the proceedings of the International Conference on Computational Intelligence and Soft Computing. It explains how various computational intelligence techniques can be applied to investigate various biological problems. It is a good read for Research Scholars, Engineers, Medical Doctors and Bioinformatics researchers.

Opportunities in Biological Sciences; [VGM Career Horizons Series].

Science.gov (United States)

Winter, Charles A.

This book provides job descriptions and discusses career opportunities in various fields of the biological sciences. These fields include: (1) biotechnology, genetics, biomedical engineering, microbiology, mycology, systematic biology, marine and aquatic biology, botany, plant physiology, plant pathology, ecology, and wildlife biology; (2) the…

Cloud computing with e-science applications

CERN Document Server

Terzo, Olivier

2015-01-01

The amount of data in everyday life has been exploding. This data increase has been especially significant in scientific fields, where substantial amounts of data must be captured, communicated, aggregated, stored, and analyzed. Cloud Computing with e-Science Applications explains how cloud computing can improve data management in data-heavy fields such as bioinformatics, earth science, and computer science. The book begins with an overview of cloud models supplied by the National Institute of Standards and Technology (NIST), and then:Discusses the challenges imposed by big data on scientific

Computational biology for ageing

Science.gov (United States)

Wieser, Daniela; Papatheodorou, Irene; Ziehm, Matthias; Thornton, Janet M.

2011-01-01

High-throughput genomic and proteomic technologies have generated a wealth of publicly available data on ageing. Easy access to these data, and their computational analysis, is of great importance in order to pinpoint the causes and effects of ageing. Here, we provide a description of the existing databases and computational tools on ageing that are available for researchers. We also describe the computational approaches to data interpretation in the field of ageing including gene expression, comparative and pathway analyses, and highlight the challenges for future developments. We review recent biological insights gained from applying bioinformatics methods to analyse and interpret ageing data in different organisms, tissues and conditions. PMID:21115530

Girls Save the World through Computer Science

Science.gov (United States)

Murakami, Christine

2011-01-01

It's no secret that fewer and fewer women are entering computer science fields. Attracting high school girls to computer science is only part of the solution. Retaining them while they are in higher education or the workforce is also a challenge. To solve this, there is a need to show girls that computer science is a wide-open field that offers…

Computing as Empirical Science – Evolution of a Concept

Directory of Open Access Journals (Sweden)

Polak Paweł

2016-12-01

Full Text Available This article presents the evolution of philosophical and methodological considerations concerning empiricism in computer/computing science. In this study, we trace the most important current events in the history of reflection on computing. The forerunners of Artificial Intelligence H.A. Simon and A. Newell in their paper Computer Science As Empirical Inquiry (1975 started these considerations. Later the concept of empirical computer science was developed by S.S. Shapiro, P. Wegner, A.H. Eden and P.J. Denning. They showed various empirical aspects of computing. This led to a view of the science of computing (or science of information processing - the science of general scope. Some interesting contemporary ways towards a generalized perspective on computations were also shown (e.g. natural computing.

International Conference on Computer, Communication and Computational Sciences

CERN Document Server

Mishra, Krishn; Tiwari, Shailesh; Singh, Vivek

2017-01-01

Exchange of information and innovative ideas are necessary to accelerate the development of technology. With advent of technology, intelligent and soft computing techniques came into existence with a wide scope of implementation in engineering sciences. Keeping this ideology in preference, this book includes the insights that reflect the ‘Advances in Computer and Computational Sciences’ from upcoming researchers and leading academicians across the globe. It contains high-quality peer-reviewed papers of ‘International Conference on Computer, Communication and Computational Sciences (ICCCCS 2016), held during 12-13 August, 2016 in Ajmer, India. These papers are arranged in the form of chapters. The content of the book is divided into two volumes that cover variety of topics such as intelligent hardware and software design, advanced communications, power and energy optimization, intelligent techniques used in internet of things, intelligent image processing, advanced software engineering, evolutionary and ...

Making evolutionary biology a basic science for medicine

Science.gov (United States)

Nesse, Randolph M.; Bergstrom, Carl T.; Ellison, Peter T.; Flier, Jeffrey S.; Gluckman, Peter; Govindaraju, Diddahally R.; Niethammer, Dietrich; Omenn, Gilbert S.; Perlman, Robert L.; Schwartz, Mark D.; Thomas, Mark G.; Stearns, Stephen C.; Valle, David

2010-01-01

New applications of evolutionary biology in medicine are being discovered at an accelerating rate, but few physicians have sufficient educational background to use them fully. This article summarizes suggestions from several groups that have considered how evolutionary biology can be useful in medicine, what physicians should learn about it, and when and how they should learn it. Our general conclusion is that evolutionary biology is a crucial basic science for medicine. In addition to looking at established evolutionary methods and topics, such as population genetics and pathogen evolution, we highlight questions about why natural selection leaves bodies vulnerable to disease. Knowledge about evolution provides physicians with an integrative framework that links otherwise disparate bits of knowledge. It replaces the prevalent view of bodies as machines with a biological view of bodies shaped by evolutionary processes. Like other basic sciences, evolutionary biology needs to be taught both before and during medical school. Most introductory biology courses are insufficient to establish competency in evolutionary biology. Premedical students need evolution courses, possibly ones that emphasize medically relevant aspects. In medical school, evolutionary biology should be taught as one of the basic medical sciences. This will require a course that reviews basic principles and specific medical applications, followed by an integrated presentation of evolutionary aspects that apply to each disease and organ system. Evolutionary biology is not just another topic vying for inclusion in the curriculum; it is an essential foundation for a biological understanding of health and disease. PMID:19918069

Methodical Approaches to Teaching of Computer Modeling in Computer Science Course

Science.gov (United States)

Rakhimzhanova, B. Lyazzat; Issabayeva, N. Darazha; Khakimova, Tiyshtik; Bolyskhanova, J. Madina

2015-01-01

The purpose of this study was to justify of the formation technique of representation of modeling methodology at computer science lessons. The necessity of studying computer modeling is that the current trends of strengthening of general education and worldview functions of computer science define the necessity of additional research of the…

Biocellion: accelerating computer simulation of multicellular biological system models.

Science.gov (United States)

Kang, Seunghwa; Kahan, Simon; McDermott, Jason; Flann, Nicholas; Shmulevich, Ilya

2014-11-01

Biological system behaviors are often the outcome of complex interactions among a large number of cells and their biotic and abiotic environment. Computational biologists attempt to understand, predict and manipulate biological system behavior through mathematical modeling and computer simulation. Discrete agent-based modeling (in combination with high-resolution grids to model the extracellular environment) is a popular approach for building biological system models. However, the computational complexity of this approach forces computational biologists to resort to coarser resolution approaches to simulate large biological systems. High-performance parallel computers have the potential to address the computing challenge, but writing efficient software for parallel computers is difficult and time-consuming. We have developed Biocellion, a high-performance software framework, to solve this computing challenge using parallel computers. To support a wide range of multicellular biological system models, Biocellion asks users to provide their model specifics by filling the function body of pre-defined model routines. Using Biocellion, modelers without parallel computing expertise can efficiently exploit parallel computers with less effort than writing sequential programs from scratch. We simulate cell sorting, microbial patterning and a bacterial system in soil aggregate as case studies. Biocellion runs on x86 compatible systems with the 64 bit Linux operating system and is freely available for academic use. Visit http://biocellion.com for additional information. © The Author 2014. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

5th Computer Science On-line Conference

CERN Document Server

Senkerik, Roman; Oplatkova, Zuzana; Silhavy, Petr; Prokopova, Zdenka

2016-01-01

This volume is based on the research papers presented in the 5th Computer Science On-line Conference. The volume Artificial Intelligence Perspectives in Intelligent Systems presents modern trends and methods to real-world problems, and in particular, exploratory research that describes novel approaches in the field of artificial intelligence. New algorithms in a variety of fields are also presented. The Computer Science On-line Conference (CSOC 2016) is intended to provide an international forum for discussions on the latest research results in all areas related to Computer Science. The addressed topics are the theoretical aspects and applications of Computer Science, Artificial Intelligences, Cybernetics, Automation Control Theory and Software Engineering.

Computational systems biology and dose-response modeling in relation to new directions in toxicity testing.

Science.gov (United States)

Zhang, Qiang; Bhattacharya, Sudin; Andersen, Melvin E; Conolly, Rory B

2010-02-01

The new paradigm envisioned for toxicity testing in the 21st century advocates shifting from the current animal-based testing process to a combination of in vitro cell-based studies, high-throughput techniques, and in silico modeling. A strategic component of the vision is the adoption of the systems biology approach to acquire, analyze, and interpret toxicity pathway data. As key toxicity pathways are identified and their wiring details elucidated using traditional and high-throughput techniques, there is a pressing need to understand their qualitative and quantitative behaviors in response to perturbation by both physiological signals and exogenous stressors. The complexity of these molecular networks makes the task of understanding cellular responses merely by human intuition challenging, if not impossible. This process can be aided by mathematical modeling and computer simulation of the networks and their dynamic behaviors. A number of theoretical frameworks were developed in the last century for understanding dynamical systems in science and engineering disciplines. These frameworks, which include metabolic control analysis, biochemical systems theory, nonlinear dynamics, and control theory, can greatly facilitate the process of organizing, analyzing, and understanding toxicity pathways. Such analysis will require a comprehensive examination of the dynamic properties of "network motifs"--the basic building blocks of molecular circuits. Network motifs like feedback and feedforward loops appear repeatedly in various molecular circuits across cell types and enable vital cellular functions like homeostasis, all-or-none response, memory, and biological rhythm. These functional motifs and associated qualitative and quantitative properties are the predominant source of nonlinearities observed in cellular dose response data. Complex response behaviors can arise from toxicity pathways built upon combinations of network motifs. While the field of computational cell

Physical computation and cognitive science

CERN Document Server

Fresco, Nir

2014-01-01

This book presents a study of digital computation in contemporary cognitive science. Digital computation is a highly ambiguous concept, as there is no common core definition for it in cognitive science. Since this concept plays a central role in cognitive theory, an adequate cognitive explanation requires an explicit account of digital computation. More specifically, it requires an account of how digital computation is implemented in physical systems. The main challenge is to deliver an account encompassing the multiple types of existing models of computation without ending up in pancomputationalism, that is, the view that every physical system is a digital computing system. This book shows that only two accounts, among the ones examined by the author, are adequate for explaining physical computation. One of them is the instructional information processing account, which is developed here for the first time.   “This book provides a thorough and timely analysis of differing accounts of computation while adv...

Physics vs. computer science

International Nuclear Information System (INIS)

Pike, R.

1982-01-01

With computers becoming more frequently used in theoretical and experimental physics, physicists can no longer afford to be ignorant of the basic techniques and results of computer science. Computing principles belong in a physicist's tool box, along with experimental methods and applied mathematics, and the easiest way to educate physicists in computing is to provide, as part of the undergraduate curriculum, a computing course designed specifically for physicists. As well, the working physicist should interact with computer scientists, giving them challenging problems in return for their expertise. (orig.)

Third Workshop on Teaching Computational Science (WTCS 2009)

NARCIS (Netherlands)

Tirado-Ramos, A.; Shiflet, A.

2009-01-01

The Third Workshop on Teaching Computational Science, within the International Conference on Computational Science, provides a platform for discussing innovations in teaching computational sciences at all levels and contexts of higher education. This editorial provides an introduction to the work

Second Workshop on Teaching Computational Science WTCS 2008

NARCIS (Netherlands)

Tirado-Ramos, A.

2008-01-01

The Second Workshop on Teaching Computational Science, within the International Conference on Computational Science, provides a platform for discussing innovations in teaching computational sciences at all levels and contexts of higher education. This editorial provides an introduction to the work

ASCR Workshop on Quantum Computing for Science

Energy Technology Data Exchange (ETDEWEB)

Aspuru-Guzik, Alan [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Van Dam, Wim [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Farhi, Edward [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Gaitan, Frank [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Humble, Travis [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Jordan, Stephen [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Landahl, Andrew J [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Love, Peter [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Lucas, Robert [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Preskill, John [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Muller, Richard P. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Svore, Krysta [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Wiebe, Nathan [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Williams, Carl [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)

2015-06-01

This report details the findings of the DOE ASCR Workshop on Quantum Computing for Science that was organized to assess the viability of quantum computing technologies to meet the computational requirements of the DOE’s science and energy mission, and to identify the potential impact of quantum technologies. The workshop was held on February 17-18, 2015, in Bethesda, MD, to solicit input from members of the quantum computing community. The workshop considered models of quantum computation and programming environments, physical science applications relevant to DOE's science mission as well as quantum simulation, and applied mathematics topics including potential quantum algorithms for linear algebra, graph theory, and machine learning. This report summarizes these perspectives into an outlook on the opportunities for quantum computing to impact problems relevant to the DOE’s mission as well as the additional research required to bring quantum computing to the point where it can have such impact.

Gender differences in the use of computers, programming, and peer interactions in computer science classrooms

Science.gov (United States)

Stoilescu, Dorian; Egodawatte, Gunawardena

2010-12-01

Research shows that female and male students in undergraduate computer science programs view computer culture differently. Female students are interested more in the use of computers than in doing programming, whereas male students see computer science mainly as a programming activity. The overall purpose of our research was not to find new definitions for computer science culture but to see how male and female students see themselves involved in computer science practices, how they see computer science as a successful career, and what they like and dislike about current computer science practices. The study took place in a mid-sized university in Ontario. Sixteen students and two instructors were interviewed to get their views. We found that male and female views are different on computer use, programming, and the pattern of student interactions. Female and male students did not have any major issues in using computers. In computing programming, female students were not so involved in computing activities whereas male students were heavily involved. As for the opinions about successful computer science professionals, both female and male students emphasized hard working, detailed oriented approaches, and enjoying playing with computers. The myth of the geek as a typical profile of successful computer science students was not found to be true.

Implementing an Affordable High-Performance Computing for Teaching-Oriented Computer Science Curriculum

Science.gov (United States)

Abuzaghleh, Omar; Goldschmidt, Kathleen; Elleithy, Yasser; Lee, Jeongkyu

2013-01-01

With the advances in computing power, high-performance computing (HPC) platforms have had an impact on not only scientific research in advanced organizations but also computer science curriculum in the educational community. For example, multicore programming and parallel systems are highly desired courses in the computer science major. However,…

A survey of computational physics introductory computational science

CERN Document Server

Landau, Rubin H; Bordeianu, Cristian C

2008-01-01

Computational physics is a rapidly growing subfield of computational science, in large part because computers can solve previously intractable problems or simulate natural processes that do not have analytic solutions. The next step beyond Landau's First Course in Scientific Computing and a follow-up to Landau and Páez's Computational Physics, this text presents a broad survey of key topics in computational physics for advanced undergraduates and beginning graduate students, including new discussions of visualization tools, wavelet analysis, molecular dynamics, and computational fluid dynamics

Computational Science: Ensuring America's Competitiveness

National Research Council Canada - National Science Library

Reed, Daniel A; Bajcsy, Ruzena; Fernandez, Manuel A; Griffiths, Jose-Marie; Mott, Randall D; Dongarra, J. J; Johnson, Chris R; Inouye, Alan S; Miner, William; Matzke, Martha K; Ponick, Terry L

2005-01-01

Computational science is now indispensable to the solution of complex problems in every sector, from traditional science and engineering domains to such key areas as national security, public health...

Soft computing in computer and information science

CERN Document Server

Fray, Imed; Pejaś, Jerzy

2015-01-01

This book presents a carefully selected and reviewed collection of papers presented during the 19th Advanced Computer Systems conference ACS-2014. The Advanced Computer Systems conference concentrated from its beginning on methods and algorithms of artificial intelligence. Further future brought new areas of interest concerning technical informatics related to soft computing and some more technological aspects of computer science such as multimedia and computer graphics, software engineering, web systems, information security and safety or project management. These topics are represented in the present book under the categories Artificial Intelligence, Design of Information and Multimedia Systems, Information Technology Security and Software Technologies.

Soft Computing Techniques in Vision Science

CERN Document Server

Yang, Yeon-Mo

2012-01-01

This Special Edited Volume is a unique approach towards Computational solution for the upcoming field of study called Vision Science. From a scientific firmament Optics, Ophthalmology, and Optical Science has surpassed an Odyssey of optimizing configurations of Optical systems, Surveillance Cameras and other Nano optical devices with the metaphor of Nano Science and Technology. Still these systems are falling short of its computational aspect to achieve the pinnacle of human vision system. In this edited volume much attention has been given to address the coupling issues Computational Science and Vision Studies.  It is a comprehensive collection of research works addressing various related areas of Vision Science like Visual Perception and Visual system, Cognitive Psychology, Neuroscience, Psychophysics and Ophthalmology, linguistic relativity, color vision etc. This issue carries some latest developments in the form of research articles and presentations. The volume is rich of contents with technical tools ...

Computational structural biology: methods and applications

National Research Council Canada - National Science Library

Schwede, Torsten; Peitsch, Manuel Claude

2008-01-01

... sequencing reinforced the observation that structural information is needed to understand the detailed function and mechanism of biological molecules such as enzyme reactions and molecular recognition events. Furthermore, structures are obviously key to the design of molecules with new or improved functions. In this context, computational structural biology...

Biological science in conservation

Science.gov (United States)

David M. Johns

2000-01-01

Large-scale wildlands reserve systems offer one of the best hopes for slowing, if not reversing, the loss of biodiversity and wilderness. Establishing such reserves requires both sound biology and effective advocacy. Attempts by The Wildlands Project and its cooperators to meld science and advocacy in the service of conservation is working, but is not without some...

Science Academies' Refresher Course in Developmental Biology

Indian Academy of Sciences (India)

Home; Journals; Resonance – Journal of Science Education; Volume 20; Issue 8. Science Academies' Refresher Course in Developmental Biology. Information and Announcements Volume 20 Issue 8 August 2015 pp 756-756. Fulltext. Click here to view fulltext PDF. Permanent link:

A comparative analysis of South African Life Sciences and Biology ...

African Journals Online (AJOL)

This study reports on the analysis of South African Life Sciences and Biology textbooks for the inclusion of the nature of science using a conceptual framework developed by Chiappetta, Fillman and Sethna (1991). In particular, we investigated the differences between the representation of the nature of science in Biology ...

Digital Da Vinci computers in the arts and sciences

CERN Document Server

Lee, Newton

2014-01-01

Explores polymathic education through unconventional and creative applications of computer science in the arts and sciences Examines the use of visual computation, 3d printing, social robotics and computer modeling for computational art creation and design Includes contributions from leading researchers and practitioners in computer science, architecture and digital media

Labour market expectation of Nigerian computer science ...

African Journals Online (AJOL)

... of Nigerian computer science / Information Communication Technology (ICT) graduates. ... It also x-rays the women performance in Computer Science. ... key players were analyzed using variables such as competence, creativity, innovation, ...

Research in computer science

Science.gov (United States)

Ortega, J. M.

1986-01-01

Various graduate research activities in the field of computer science are reported. Among the topics discussed are: (1) failure probabilities in multi-version software; (2) Gaussian Elimination on parallel computers; (3) three dimensional Poisson solvers on parallel/vector computers; (4) automated task decomposition for multiple robot arms; (5) multi-color incomplete cholesky conjugate gradient methods on the Cyber 205; and (6) parallel implementation of iterative methods for solving linear equations.

Marrying Content and Process in Computer Science Education

Science.gov (United States)

Zendler, A.; Spannagel, C.; Klaudt, D.

2011-01-01

Constructivist approaches to computer science education emphasize that as well as knowledge, thinking skills and processes are involved in active knowledge construction. K-12 computer science curricula must not be based on fashions and trends, but on contents and processes that are observable in various domains of computer science, that can be…

Computational tools for high-throughput discovery in biology

OpenAIRE

Jones, Neil Christopher

2007-01-01

High throughput data acquisition technology has inarguably transformed the landscape of the life sciences, in part by making possible---and necessary---the computational disciplines of bioinformatics and biomedical informatics. These fields focus primarily on developing tools for analyzing data and generating hypotheses about objects in nature, and it is in this context that we address three pressing problems in the fields of the computational life sciences which each require computing capaci...

Theoretical Computer Science

DEFF Research Database (Denmark)

2002-01-01

The proceedings contains 8 papers from the Conference on Theoretical Computer Science. Topics discussed include: query by committee, linear separation and random walks; hardness results for neural network approximation problems; a geometric approach to leveraging weak learners; mind change...

Organic Computing

CERN Document Server

Würtz, Rolf P

2008-01-01

Organic Computing is a research field emerging around the conviction that problems of organization in complex systems in computer science, telecommunications, neurobiology, molecular biology, ethology, and possibly even sociology can be tackled scientifically in a unified way. From the computer science point of view, the apparent ease in which living systems solve computationally difficult problems makes it inevitable to adopt strategies observed in nature for creating information processing machinery. In this book, the major ideas behind Organic Computing are delineated, together with a sparse sample of computational projects undertaken in this new field. Biological metaphors include evolution, neural networks, gene-regulatory networks, networks of brain modules, hormone system, insect swarms, and ant colonies. Applications are as diverse as system design, optimization, artificial growth, task allocation, clustering, routing, face recognition, and sign language understanding.

How do the high school biology textbooks introduce the nature of science?

Science.gov (United States)

Lee, Young H.

2007-05-01

Although helping students to achieve an adequate understanding of the nature of science has been a consistent goal for science education for over half a century, current research reveals that the majority of students and teachers have naive views of the nature of science (Abd-El-khalick & Akerson, 2004; Bianchini & Colburn, 2000). This problem could be attributed not only to the complex nature of science, but also to the way the nature of science is presented to students during instruction. Thus, research must be conducted to examine how the science is taught, especially in science textbooks, which are a major instructional resource for teaching science. The aim of this study was to conduct a content analysis of the first chapter of four high school biology textbooks, which typically discusses "What is science?" and "What is biology?" This research used a content analysis technique to analyze the four high school biology textbooks, using a conceptual framework that has been used often for science textbook analysis. This conceptual framework consists of four themes of the nature of science: (a) science as a body of knowledge, (b) science as a way of thinking, (c) science as a way of investigating, and (d) the interaction of science, technology, and society. For this study, the four-theme-framework was modified to incorporate descriptors from national-level documents, such as Science for All Americans (AAAS, 1990) Benchmarks for Science Literacy (AAAS, 1993) and the National Science Education Standards (NRC, 1996), as well as science education research reports. A scoring procedure was used that resulted in good to excellent intercoder agreement with Cohen's kappa (k) ranging from .63 to .96. The findings show that the patterns of presentation of the four themes of the nature of science in the four high school biology textbooks are similar across the different locations of data, text, figures, and assessments. On the other hand, the pattern of presentation of the four

2K09 and thereafter : the coming era of integrative bioinformatics, systems biology and intelligent computing for functional genomics and personalized medicine research

Science.gov (United States)

2010-01-01

Significant interest exists in establishing synergistic research in bioinformatics, systems biology and intelligent computing. Supported by the United States National Science Foundation (NSF), International Society of Intelligent Biological Medicine (http://www.ISIBM.org), International Journal of Computational Biology and Drug Design (IJCBDD) and International Journal of Functional Informatics and Personalized Medicine, the ISIBM International Joint Conferences on Bioinformatics, Systems Biology and Intelligent Computing (ISIBM IJCBS 2009) attracted more than 300 papers and 400 researchers and medical doctors world-wide. It was the only inter/multidisciplinary conference aimed to promote synergistic research and education in bioinformatics, systems biology and intelligent computing. The conference committee was very grateful for the valuable advice and suggestions from honorary chairs, steering committee members and scientific leaders including Dr. Michael S. Waterman (USC, Member of United States National Academy of Sciences), Dr. Chih-Ming Ho (UCLA, Member of United States National Academy of Engineering and Academician of Academia Sinica), Dr. Wing H. Wong (Stanford, Member of United States National Academy of Sciences), Dr. Ruzena Bajcsy (UC Berkeley, Member of United States National Academy of Engineering and Member of United States Institute of Medicine of the National Academies), Dr. Mary Qu Yang (United States National Institutes of Health and Oak Ridge, DOE), Dr. Andrzej Niemierko (Harvard), Dr. A. Keith Dunker (Indiana), Dr. Brian D. Athey (Michigan), Dr. Weida Tong (FDA, United States Department of Health and Human Services), Dr. Cathy H. Wu (Georgetown), Dr. Dong Xu (Missouri), Drs. Arif Ghafoor and Okan K Ersoy (Purdue), Dr. Mark Borodovsky (Georgia Tech, President of ISIBM), Dr. Hamid R. Arabnia (UGA, Vice-President of ISIBM), and other scientific leaders. The committee presented the 2009 ISIBM Outstanding Achievement Awards to Dr. Joydeep Ghosh (UT

An introduction to the mathematics of biology with computer algebra models

CERN Document Server

Yeargers, Edward K; Herod, James V

1996-01-01

Biology is a source of fascination for most scientists, whether their training is in the life sciences or not. In particular, there is a special satisfaction in discovering an understanding of biology in the context of another science like mathematics. Fortunately there are plenty of interesting (and fun) problems in biology, and virtually all scientific disciplines have become the richer for it. For example, two major journals, Mathematical Biosciences and Journal of Mathematical Biology, have tripled in size since their inceptions 20-25 years ago. The various sciences have a great deal to give to one another, but there are still too many fences separating them. In writing this book we have adopted the philosophy that mathematical biology is not merely the intrusion of one science into another, but has a unity of its own, in which both the biology and the math­ ematics should be equal and complete, and should flow smoothly into and out of one another. We have taught mathematical biology with this philosophy...

Fort Collins Science Center- Policy Analysis and Science Assistance Branch : Integrating social, behavioral, economic and biological sciences

Science.gov (United States)

2010-01-01

The Fort Collins Science Center's Policy Analysis and Science Assistance (PASA) Branch is a team of approximately 22 scientists, technicians, and graduate student researchers. PASA provides unique capabilities in the U.S. Geological Survey by leading projects that integrate social, behavioral, economic, and biological analyses in the context of human-natural resource interactions. Resource planners, managers, and policymakers in the U.S. Departments of the Interior (DOI) and Agriculture (USDA), State and local agencies, as well as international agencies use information from PASA studies to make informed natural resource management and policy decisions. PASA scientists' primary functions are to conduct both theoretical and applied social science research, provide technical assistance, and offer training to advance performance in policy relevant research areas. Management and research issues associated with human-resource interactions typically occur in a unique context, involve difficult to access populations, require knowledge of both natural/biological science in addition to social science, and require the skill to integrate multiple science disciplines. In response to these difficult contexts, PASA researchers apply traditional and state-of-the-art social science methods drawing from the fields of sociology, demography, economics, political science, communications, social-psychology, and applied industrial organization psychology. Social science methods work in concert with our rangeland/agricultural management, wildlife, ecology, and biology capabilities. The goal of PASA's research is to enhance natural resource management, agency functions, policies, and decision-making. Our research is organized into four broad areas of study.

A Financial Technology Entrepreneurship Program for Computer Science Students

Science.gov (United States)

Lawler, James P.; Joseph, Anthony

2011-01-01

Education in entrepreneurship is becoming a critical area of curricula for computer science students. Few schools of computer science have a concentration in entrepreneurship in the computing curricula. The paper presents Technology Entrepreneurship in the curricula at a leading school of computer science and information systems, in which students…

Computer science approach to quantum control

International Nuclear Information System (INIS)

Janzing, D.

2006-01-01

Whereas it is obvious that every computation process is a physical process it has hardly been recognized that many complex physical processes bear similarities to computation processes. This is in particular true for the control of physical systems on the nanoscopic level: usually the system can only be accessed via a rather limited set of elementary control operations and for many purposes only a concatenation of a large number of these basic operations will implement the desired process. This concatenation is in many cases quite similar to building complex programs from elementary steps and principles for designing algorithm may thus be a paradigm for designing control processes. For instance, one can decrease the temperature of one part of a molecule by transferring its heat to the remaining part where it is then dissipated to the environment. But the implementation of such a process involves a complex sequence of electromagnetic pulses. This work considers several hypothetical control processes on the nanoscopic level and show their analogy to computation processes. We show that measuring certain types of quantum observables is such a complex task that every instrument that is able to perform it would necessarily be an extremely powerful computer. Likewise, the implementation of a heat engine on the nanoscale requires to process the heat in a way that is similar to information processing and it can be shown that heat engines with maximal efficiency would be powerful computers, too. In the same way as problems in computer science can be classified by complexity classes we can also classify control problems according to their complexity. Moreover, we directly relate these complexity classes for control problems to the classes in computer science. Unifying notions of complexity in computer science and physics has therefore two aspects: on the one hand, computer science methods help to analyze the complexity of physical processes. On the other hand, reasonable

Biological design in science classrooms

Science.gov (United States)

Scott, Eugenie C.; Matzke, Nicholas J.

2007-01-01

Although evolutionary biology is replete with explanations for complex biological structures, scientists concerned about evolution education have been forced to confront “intelligent design” (ID), which rejects a natural origin for biological complexity. The content of ID is a subset of the claims made by the older “creation science” movement. Both creationist views contend that highly complex biological adaptations and even organisms categorically cannot result from natural causes but require a supernatural creative agent. Historically, ID arose from efforts to produce a form of creationism that would be less vulnerable to legal challenges and that would not overtly rely upon biblical literalism. Scientists do not use ID to explain nature, but because it has support from outside the scientific community, ID is nonetheless contributing substantially to a long-standing assault on the integrity of science education. PMID:17494747

Mathematics and Computer Science: The Interplay

OpenAIRE

Madhavan, Veni CE

2005-01-01

Mathematics has been an important intellectual preoccupation of man for a long time. Computer science as a formal discipline is about seven decades young. However, one thing in common between all users and producers of mathematical thought is the almost involuntary use of computing. In this article, we bring to fore the many close connections and parallels between the two sciences of mathematics and computing. We show that, unlike in the other branches of human inquiry where mathematics is me...

Computer science and the recent innovations of the modern society

Directory of Open Access Journals (Sweden)

Greorghe Popescu

2010-12-01

Full Text Available The paper “Computer science and the recent innovations of the modern society” presents the importance of computer science, with the most important historical moments in its evolution, the main theoretical elements of the computation science, computer elements and architecture and the latest innovations in the computer science, such as Artificial Intelligence.

Analytical Chemistry at the Interface Between Materials Science and Biology

Energy Technology Data Exchange (ETDEWEB)

O' Brien, Janese C. [Iowa State Univ., Ames, IA (United States)

2000-09-21

Likedlessentid sciences, anal~cd chetis~continues toreinvent itself. Moving beyond its traditional roles of identification and quantification, analytical chemistry is now expanding its frontiers into areas previously reserved to other disciplines. This work describes several research efforts that lie at the new interfaces between analytical chemistry and two of these disciplines, namely materials science and biology. In the materials science realm, the search for new materials that may have useful or unique chromatographic properties motivated the synthesis and characterization of electrically conductive sol-gels. In the biology realm, the search for new surface fabrication schemes that would permit or even improve the detection of specific biological reactions motivated the design of miniaturized biological arrays. Collectively, this work represents some of analytical chemistry’s newest forays into these disciplines. The introduction section to this dissertation provides a literature review on several of the key aspects of this work. In advance of the materials science discussion, a brief introduction into electrochemically-modulated liquid chromatography (EMLC) and sol-gel chemistry is provided. In advance of the biological discussions, brief overviews of scanning force microscopy (SFM) and the oxidative chemistry used to construct our biological arrays are provided. This section is followed by four chapters, each of which is presented as a separate manuscript, and focuses on work that describes some of our cross-disciplinary efforts within materials science and biology. This dissertation concludes with a general summary and future prospectus.

Computer science I essentials

CERN Document Server

Raus, Randall

2012-01-01

REA's Essentials provide quick and easy access to critical information in a variety of different fields, ranging from the most basic to the most advanced. As its name implies, these concise, comprehensive study guides summarize the essentials of the field covered. Essentials are helpful when preparing for exams, doing homework and will remain a lasting reference source for students, teachers, and professionals. Computer Science I includes fundamental computer concepts, number representations, Boolean algebra, switching circuits, and computer architecture.

International Journal of Biological and Chemical Sciences: Editorial ...

African Journals Online (AJOL)

The International Journal of Biological and Chemical Sciences (IJBCS) is a journal ... IJBCS publishes original research papers, critical up-to-date and concise ... Department of Biomedical Sciences, College of Osteopathic Medicine, Ohio ...

Micro-Computers in Biology Inquiry.

Science.gov (United States)

Barnato, Carolyn; Barrett, Kathy

1981-01-01

Describes the modification of computer programs (BISON and POLLUT) to accommodate species and areas indigenous to the Pacific Coast area. Suggests that these programs, suitable for PET microcomputers, may foster a long-term, ongoing, inquiry-directed approach in biology. (DS)

The 6th International Conference on Computer Science and Computational Mathematics (ICCSCM 2017)

Science.gov (United States)

2017-09-01

The ICCSCM 2017 (The 6th International Conference on Computer Science and Computational Mathematics) has aimed to provide a platform to discuss computer science and mathematics related issues including Algebraic Geometry, Algebraic Topology, Approximation Theory, Calculus of Variations, Category Theory; Homological Algebra, Coding Theory, Combinatorics, Control Theory, Cryptology, Geometry, Difference and Functional Equations, Discrete Mathematics, Dynamical Systems and Ergodic Theory, Field Theory and Polynomials, Fluid Mechanics and Solid Mechanics, Fourier Analysis, Functional Analysis, Functions of a Complex Variable, Fuzzy Mathematics, Game Theory, General Algebraic Systems, Graph Theory, Group Theory and Generalizations, Image Processing, Signal Processing and Tomography, Information Fusion, Integral Equations, Lattices, Algebraic Structures, Linear and Multilinear Algebra; Matrix Theory, Mathematical Biology and Other Natural Sciences, Mathematical Economics and Financial Mathematics, Mathematical Physics, Measure Theory and Integration, Neutrosophic Mathematics, Number Theory, Numerical Analysis, Operations Research, Optimization, Operator Theory, Ordinary and Partial Differential Equations, Potential Theory, Real Functions, Rings and Algebras, Statistical Mechanics, Structure Of Matter, Topological Groups, Wavelets and Wavelet Transforms, 3G/4G Network Evolutions, Ad-Hoc, Mobile, Wireless Networks and Mobile Computing, Agent Computing & Multi-Agents Systems, All topics related Image/Signal Processing, Any topics related Computer Networks, Any topics related ISO SC-27 and SC- 17 standards, Any topics related PKI(Public Key Intrastructures), Artifial Intelligences(A.I.) & Pattern/Image Recognitions, Authentication/Authorization Issues, Biometric authentication and algorithms, CDMA/GSM Communication Protocols, Combinatorics, Graph Theory, and Analysis of Algorithms, Cryptography and Foundation of Computer Security, Data Base(D.B.) Management & Information

Computer and Information Sciences II : 26th International Symposium on Computer and Information Sciences

CERN Document Server

Lent, Ricardo; Sakellari, Georgia

2012-01-01

Information technology is the enabling foundation for all of human activity at the beginning of the 21st century, and advances in this area are crucial to all of us. These advances are taking place all over the world and can only be followed and perceived when researchers from all over the world assemble, and exchange their ideas in conferences such as the one presented in this proceedings volume regarding the 26th International Symposium on Computer and Information Systems, held at the Royal Society in London on 26th to 28th September 2011. Computer and Information Sciences II contains novel advances in the state of the art covering applied research in electrical and computer engineering and computer science, across the broad area of information technology. It provides access to the main innovative activities in research across the world, and points to the results obtained recently by some of the most active teams in both Europe and Asia.

Game based learning for computer science education

NARCIS (Netherlands)

Schmitz, Birgit; Czauderna, André; Klemke, Roland; Specht, Marcus

2011-01-01

Schmitz, B., Czauderna, A., Klemke, R., & Specht, M. (2011). Game based learning for computer science education. In G. van der Veer, P. B. Sloep, & M. van Eekelen (Eds.), Computer Science Education Research Conference (CSERC '11) (pp. 81-86). Heerlen, The Netherlands: Open Universiteit.

Basic mathematics for the biological and social sciences

CERN Document Server

Marriott, F H C

2013-01-01

Basic Mathematics for the Biological and Social Sciences deals with the applications of basic mathematics in the biological and social sciences. Mathematical concepts that are discussed in this book include graphical methods, differentiation, trigonometrical or circular functions, limits and convergence, integration, vectors, and differential equations. The exponential function and related functions are also considered. This monograph is comprised of 11 chapters and begins with an overview of basic algebra, followed by an introduction to infinitesimal calculus, scalar and vector quantities, co

Toward computational cumulative biology by combining models of biological datasets.

Science.gov (United States)

Faisal, Ali; Peltonen, Jaakko; Georgii, Elisabeth; Rung, Johan; Kaski, Samuel

2014-01-01

A main challenge of data-driven sciences is how to make maximal use of the progressively expanding databases of experimental datasets in order to keep research cumulative. We introduce the idea of a modeling-based dataset retrieval engine designed for relating a researcher's experimental dataset to earlier work in the field. The search is (i) data-driven to enable new findings, going beyond the state of the art of keyword searches in annotations, (ii) modeling-driven, to include both biological knowledge and insights learned from data, and (iii) scalable, as it is accomplished without building one unified grand model of all data. Assuming each dataset has been modeled beforehand, by the researchers or automatically by database managers, we apply a rapidly computable and optimizable combination model to decompose a new dataset into contributions from earlier relevant models. By using the data-driven decomposition, we identify a network of interrelated datasets from a large annotated human gene expression atlas. While tissue type and disease were major driving forces for determining relevant datasets, the found relationships were richer, and the model-based search was more accurate than the keyword search; moreover, it recovered biologically meaningful relationships that are not straightforwardly visible from annotations-for instance, between cells in different developmental stages such as thymocytes and T-cells. Data-driven links and citations matched to a large extent; the data-driven links even uncovered corrections to the publication data, as two of the most linked datasets were not highly cited and turned out to have wrong publication entries in the database.

Computer science in Dutch secondary education: independent or integrated?

NARCIS (Netherlands)

van der Sijde, Peter; Doornekamp, B.G.

1992-01-01

Nowadays, in Dutch secondary education, computer science is integrated within school subjects. About ten years ago computer science was considered an independent subject, but in the mid-1980s this idea changed. In our study we investigated whether the objectives of teaching computer science as an

Summary of researches being performed in the Institute of Mathematics and Computer Science on computer science and information technologies

Directory of Open Access Journals (Sweden)

Artiom Alhazov

2008-07-01

Full Text Available Evolution of the informatization notion (which assumes automation of majority of human activities applying computers, computer networks, information technologies towards the notion of {\\it Global Information Society} (GIS challenges the determination of new paradigms of society: automation and intellectualization of production, new level of education and teaching, formation of new styles of work, active participation in decision making, etc. To assure transition to GIS for any society, including that from Republic of Moldova, requires both special training and broad application of progressive technologies and information systems. Methodological aspects concerning impact of GIS creation over the citizen, economic unit, national economy in the aggregate demands a profound study. Without systematic approach to these aspects the GIS creation would have confront great difficulties. Collective of researchers from the Institute of Mathematics and Computer Science (IMCS of Academy of Sciences of Moldova, which work in the field of computer science, constitutes the center of advanced researches and activates in those directions of researches of computer science which facilitate technologies and applications without of which the development of GIS cannot be assured.

Empirical Determination of Competence Areas to Computer Science Education

Science.gov (United States)

Zendler, Andreas; Klaudt, Dieter; Seitz, Cornelia

2014-01-01

The authors discuss empirically determined competence areas to K-12 computer science education, emphasizing the cognitive level of competence. The results of a questionnaire with 120 professors of computer science serve as a database. By using multi-dimensional scaling and cluster analysis, four competence areas to computer science education…

Factors Influencing Exemplary Science Teachers' Levels of Computer Use

Science.gov (United States)

Hakverdi, Meral; Dana, Thomas M.; Swain, Colleen

2011-01-01

The purpose of this study was to examine exemplary science teachers' use of technology in science instruction, factors influencing their level of computer use, their level of knowledge/skills in using specific computer applications for science instruction, their use of computer-related applications/tools during their instruction, and their…

3rd Computer Science On-line Conference

CERN Document Server

Senkerik, Roman; Oplatkova, Zuzana; Silhavy, Petr; Prokopova, Zdenka

2014-01-01

This book is based on the research papers presented in the 3rd Computer Science On-line Conference 2014 (CSOC 2014).   The conference is intended to provide an international forum for discussions on the latest high-quality research results in all areas related to Computer Science. The topics addressed are the theoretical aspects and applications of Artificial Intelligences, Computer Science, Informatics and Software Engineering.   The authors provide new approaches and methods to real-world problems, and in particular, exploratory research that describes novel approaches in their field. Particular emphasis is laid on modern trends in selected fields of interest. New algorithms or methods in a variety of fields are also presented.   This book is divided into three sections and covers topics including Artificial Intelligence, Computer Science and Software Engineering. Each section consists of new theoretical contributions and applications which can be used for the further development of knowledge of everybod...

Network science of biological systems at different scales: A review

Science.gov (United States)

Gosak, Marko; Markovič, Rene; Dolenšek, Jurij; Slak Rupnik, Marjan; Marhl, Marko; Stožer, Andraž; Perc, Matjaž

2018-03-01

Network science is today established as a backbone for description of structure and function of various physical, chemical, biological, technological, and social systems. Here we review recent advances in the study of complex biological systems that were inspired and enabled by methods of network science. First, we present

Computational Exposure Science: An Emerging Discipline to ...

Science.gov (United States)

Background: Computational exposure science represents a frontier of environmental science that is emerging and quickly evolving.Objectives: In this commentary, we define this burgeoning discipline, describe a framework for implementation, and review some key ongoing research elements that are advancing the science with respect to exposure to chemicals in consumer products.Discussion: The fundamental elements of computational exposure science include the development of reliable, computationally efficient predictive exposure models; the identification, acquisition, and application of data to support and evaluate these models; and generation of improved methods for extrapolating across chemicals. We describe our efforts in each of these areas and provide examples that demonstrate both progress and potential.Conclusions: Computational exposure science, linked with comparable efforts in toxicology, is ushering in a new era of risk assessment that greatly expands our ability to evaluate chemical safety and sustainability and to protect public health. The National Exposure Research Laboratory’s (NERL’s) Human Exposure and Atmospheric Sciences Division (HEASD) conducts research in support of EPA’s mission to protect human health and the environment. HEASD’s research program supports Goal 1 (Clean Air) and Goal 4 (Healthy People) of EPA’s strategic plan. More specifically, our division conducts research to characterize the movement of pollutants from the source

Applied Computational Mathematics in Social Sciences

CERN Document Server

Damaceanu, Romulus-Catalin

2010-01-01

Applied Computational Mathematics in Social Sciences adopts a modern scientific approach that combines knowledge from mathematical modeling with various aspects of social science. Special algorithms can be created to simulate an artificial society and a detailed analysis can subsequently be used to project social realities. This Ebook specifically deals with computations using the NetLogo platform, and is intended for researchers interested in advanced human geography and mathematical modeling studies.

Proceedings of the 2011 2nd International Congress on Computer Applications and Computational Science

CERN Document Server

Nguyen, Quang

2012-01-01

The latest inventions in computer technology influence most of human daily activities. In the near future, there is tendency that all of aspect of human life will be dependent on computer applications. In manufacturing, robotics and automation have become vital for high quality products. In education, the model of teaching and learning is focusing more on electronic media than traditional ones. Issues related to energy savings and environment is becoming critical.   Computational Science should enhance the quality of human life,  not only solve their problems. Computational Science should help humans to make wise decisions by presenting choices and their possible consequences. Computational Science should help us make sense of observations, understand natural language, plan and reason with extensive background knowledge. Intelligence with wisdom is perhaps an ultimate goal for human-oriented science.   This book is a compilation of some recent research findings in computer application and computational sci...

Computational Biology Support: RECOMB Conference Series (Conference Support)

Energy Technology Data Exchange (ETDEWEB)

Michael Waterman

2006-06-15

This funding was support for student and postdoctoral attendance at the Annual Recomb Conference from 2001 to 2005. The RECOMB Conference series was founded in 1997 to provide a scientific forum for theoretical advances in computational biology and their applications in molecular biology and medicine. The conference series aims at attracting research contributions in all areas of computational molecular biology. Typical, but not exclusive, the topics of interest are: Genomics, Molecular sequence analysis, Recognition of genes and regulatory elements, Molecular evolution, Protein structure, Structural genomics, Gene Expression, Gene Networks, Drug Design, Combinatorial libraries, Computational proteomics, and Structural and functional genomics. The origins of the conference came from the mathematical and computational side of the field, and there remains to be a certain focus on computational advances. However, the effective use of computational techniques to biological innovation is also an important aspect of the conference. The conference had a growing number of attendees, topping 300 in recent years and often exceeding 500. The conference program includes between 30 and 40 contributed papers, that are selected by a international program committee with around 30 experts during a rigorous review process rivaling the editorial procedure for top-rate scientific journals. In previous years papers selection has been made from up to 130--200 submissions from well over a dozen countries. 10-page extended abstracts of the contributed papers are collected in a volume published by ACM Press and Springer, and are available at the conference. Full versions of a selection of the papers are published annually in a special issue of the Journal of Computational Biology devoted to the RECOMB Conference. A further point in the program is a lively poster session. From 120-300 posters have been presented each year at RECOMB 2000. One of the highlights of each RECOMB conference is a

A survey of computer science capstone course literature

Science.gov (United States)

Dugan, Robert F., Jr.

2011-09-01

In this article, we surveyed literature related to undergraduate computer science capstone courses. The survey was organized around course and project issues. Course issues included: course models, learning theories, course goals, course topics, student evaluation, and course evaluation. Project issues included: software process models, software process phases, project type, documentation, tools, groups, and instructor administration. We reflected on these issues and thecomputer science capstone course we have taught for seven years. The survey summarized, organized, and synthesized the literature to provide a referenced resource for computer science instructors and researchers interested in computer science capstone courses.

Opportunities in plant synthetic biology.

Science.gov (United States)

Cook, Charis; Martin, Lisa; Bastow, Ruth

2014-05-01

Synthetic biology is an emerging field uniting scientists from all disciplines with the aim of designing or re-designing biological processes. Initially, synthetic biology breakthroughs came from microbiology, chemistry, physics, computer science, materials science, mathematics, and engineering disciplines. A transition to multicellular systems is the next logical step for synthetic biologists and plants will provide an ideal platform for this new phase of research. This meeting report highlights some of the exciting plant synthetic biology projects, and tools and resources, presented and discussed at the 2013 GARNet workshop on plant synthetic biology.

Collaboration, Collusion and Plagiarism in Computer Science Coursework

OpenAIRE

Robert FRASER

2014-01-01

We present an overview of the nature of academic dishonesty with respect to computer science coursework. We discuss the efficacy of various policies for collaboration with regard to student education, and we consider a number of strategies for mitigating dishonest behaviour on computer science coursework by addressing some common causes. Computer science coursework is somewhat unique, in that there often exist ideal solutions for problems, and work may be shared and copied with very little ef...

The Air Force "In Silico" -- Computational Biology in 2025

National Research Council Canada - National Science Library

Coates, Christopher

2007-01-01

The biological sciences have recently experienced remarkable advances and there are now frequent claims that "we are on the advent of being able to model or simulate biological systems to the smallest, molecular detail...

Computer/Information Science

Science.gov (United States)

Birman, Ken; Roughgarden, Tim; Seltzer, Margo; Spohrer, Jim; Stolterman, Erik; Kearsley, Greg; Koszalka, Tiffany; de Jong, Ton

2013-01-01

Scholars representing the field of computer/information science were asked to identify what they considered to be the most exciting and imaginative work currently being done in their field, as well as how that work might change our understanding. The scholars included Ken Birman, Jennifer Rexford, Tim Roughgarden, Margo Seltzer, Jim Spohrer, and…

Cultural Stereotypes as Gatekeepers: Increasing Girls’ Interest in Computer Science and Engineering by Diversifying Stereotypes

Directory of Open Access Journals (Sweden)

Sapna eCheryan

2015-02-01

Full Text Available Despite having made significant inroads into many traditionally male-dominated fields (e.g., biology, chemistry, women continue to be underrepresented in computer science and engineering. We propose that students’ stereotypes about the culture of these fields—including the kind of people, the work involved, and the values of the field—steer girls away from choosing to enter these fields. Computer science and engineering are stereotyped in modern American culture as male-oriented fields that involve social isolation, an intense focus on machinery, and inborn brilliance. These stereotypes are more compatible with qualities that are typically valued in men than women. As a result, when computer science and engineering stereotypes are salient, girls report less interest in these fields than their male peers. However, altering these stereotypes—by broadening the representation of the people who do this work, the work itself, and the environments in which it occurs—significantly increases girls’ sense of belonging and interest in the field. Academic stereotypes thus serve as gatekeepers, driving girls away from certain fields and constraining their learning opportunities and career aspirations.

Cultural stereotypes as gatekeepers: increasing girls’ interest in computer science and engineering by diversifying stereotypes

Science.gov (United States)

Cheryan, Sapna; Master, Allison; Meltzoff, Andrew N.

2015-01-01

Despite having made significant inroads into many traditionally male-dominated fields (e.g., biology, chemistry), women continue to be underrepresented in computer science and engineering. We propose that students’ stereotypes about the culture of these fields—including the kind of people, the work involved, and the values of the field—steer girls away from choosing to enter them. Computer science and engineering are stereotyped in modern American culture as male-oriented fields that involve social isolation, an intense focus on machinery, and inborn brilliance. These stereotypes are compatible with qualities that are typically more valued in men than women in American culture. As a result, when computer science and engineering stereotypes are salient, girls report less interest in these fields than their male peers. However, altering these stereotypes—by broadening the representation of the people who do this work, the work itself, and the environments in which it occurs—significantly increases girls’ sense of belonging and interest in the field. Academic stereotypes thus serve as gatekeepers, driving girls away from certain fields and constraining their learning opportunities and career aspirations. PMID:25717308

Cultural stereotypes as gatekeepers: increasing girls' interest in computer science and engineering by diversifying stereotypes.

Science.gov (United States)

Cheryan, Sapna; Master, Allison; Meltzoff, Andrew N

2015-01-01

Despite having made significant inroads into many traditionally male-dominated fields (e.g., biology, chemistry), women continue to be underrepresented in computer science and engineering. We propose that students' stereotypes about the culture of these fields-including the kind of people, the work involved, and the values of the field-steer girls away from choosing to enter them. Computer science and engineering are stereotyped in modern American culture as male-oriented fields that involve social isolation, an intense focus on machinery, and inborn brilliance. These stereotypes are compatible with qualities that are typically more valued in men than women in American culture. As a result, when computer science and engineering stereotypes are salient, girls report less interest in these fields than their male peers. However, altering these stereotypes-by broadening the representation of the people who do this work, the work itself, and the environments in which it occurs-significantly increases girls' sense of belonging and interest in the field. Academic stereotypes thus serve as gatekeepers, driving girls away from certain fields and constraining their learning opportunities and career aspirations.

Exploring Connections Between Earth Science and Biology - Interdisciplinary Science Activities for Schools

Science.gov (United States)

Vd Flier-Keller, E.; Carolsfeld, C.; Bullard, T.

2009-05-01

To increase teaching of Earth science in schools, and to reflect the interdisciplinary nature and interrelatedness of science disciplines in today's world, we are exploring opportunities for linking Earth science and Biology through engaging and innovative hands-on science activities for the classroom. Through the NSERC-funded Pacific CRYSTAL project based at the University of Victoria, scientists, science educators, and teachers at all levels in the school system are collaborating to research ways of enriching the preparation of students in math and science, and improving the quality of science education from Kindergarten to Grade 12. Our primary foci are building authentic, engaging science experiences for students, and fostering teacher leadership through teacher professional development and training. Interdisciplinary science activities represent an important way of making student science experiences real, engaging and relevant, and provide opportunities to highlight Earth science related topics within other disciplines, and to expand the Earth science taught in schools. The Earth science and Biology interdisciplinary project builds on results and experiences of existing Earth science education activities, and the Seaquaria project. We are developing curriculum-linked activities and resource materials, and hosting teacher workshops, around two initial areas; soils, and marine life and the fossil record. An example activity for the latter is the hands-on examination of organisms occupying the nearshore marine environment using a saltwater aquarium and touch tank or beach fieldtrip, and relating this to a suite of marine fossils to facilitate student thinking about representation of life in the fossil record e.g. which life forms are typically preserved, and how are they preserved? Literacy activities such as fossil obituaries encourage exploration of paleoenvironments and life habits of fossil organisms. Activities and resources are being tested with teachers

CSBB: synthetic biology research at Newcastle University.

Science.gov (United States)

Goñi-Moreno, Angel; Wipat, Anil; Krasnogor, Natalio

2017-06-15

The Centre for Synthetic Biology and the Bioeconomy (CSBB) brings together a far-reaching multidisciplinary community across all Newcastle University's faculties - Medical Sciences, Science, Agriculture and Engineering, and Humanities, Arts and Social Sciences. The CSBB focuses on many different areas of Synthetic Biology, including bioprocessing, computational design and in vivo computation, as well as improving understanding of basic molecular machinery. Such breadth is supported by major national and international research funding, a range of industrial partners in the North East of England and beyond, as well as a large number of doctoral and post-doctoral researchers. The CSBB trains the next generation of scientists through a 1-year MSc in Synthetic Biology. © 2017 The Author(s).

9th International Conference on Practical Applications of Computational Biology and Bioinformatics

CERN Document Server

Rocha, Miguel; Fdez-Riverola, Florentino; Paz, Juan

2015-01-01

This proceedings presents recent practical applications of Computational Biology and  Bioinformatics. It contains the proceedings of the 9th International Conference on Practical Applications of Computational Biology & Bioinformatics held at University of Salamanca, Spain, at June 3rd-5th, 2015. The International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB) is an annual international meeting dedicated to emerging and challenging applied research in Bioinformatics and Computational Biology. Biological and biomedical research are increasingly driven by experimental techniques that challenge our ability to analyse, process and extract meaningful knowledge from the underlying data. The impressive capabilities of next generation sequencing technologies, together with novel and ever evolving distinct types of omics data technologies, have put an increasingly complex set of challenges for the growing fields of Bioinformatics and Computational Biology. The analysis o...

NASA Center for Computational Sciences: History and Resources

Science.gov (United States)

2000-01-01

The Nasa Center for Computational Sciences (NCCS) has been a leading capacity computing facility, providing a production environment and support resources to address the challenges facing the Earth and space sciences research community.

Research in applied mathematics, numerical analysis, and computer science

Science.gov (United States)

1984-01-01

Research conducted at the Institute for Computer Applications in Science and Engineering (ICASE) in applied mathematics, numerical analysis, and computer science is summarized and abstracts of published reports are presented. The major categories of the ICASE research program are: (1) numerical methods, with particular emphasis on the development and analysis of basic numerical algorithms; (2) control and parameter identification; (3) computational problems in engineering and the physical sciences, particularly fluid dynamics, acoustics, and structural analysis; and (4) computer systems and software, especially vector and parallel computers.

Hispanic women overcoming deterrents to computer science: A phenomenological study

Science.gov (United States)

Herling, Lourdes

The products of computer science are important to all aspects of society and are tools in the solution of the world's problems. It is, therefore, troubling that the United States faces a shortage in qualified graduates in computer science. The number of women and minorities in computer science is significantly lower than the percentage of the U.S. population which they represent. The overall enrollment in computer science programs has continued to decline with the enrollment of women declining at a higher rate than that of men. This study addressed three aspects of underrepresentation about which there has been little previous research: addressing computing disciplines specifically rather than embedding them within the STEM disciplines, what attracts women and minorities to computer science, and addressing the issues of race/ethnicity and gender in conjunction rather than in isolation. Since women of underrepresented ethnicities are more severely underrepresented than women in general, it is important to consider whether race and ethnicity play a role in addition to gender as has been suggested by previous research. Therefore, this study examined what attracted Hispanic women to computer science specifically. The study determines whether being subjected to multiple marginalizations---female and Hispanic---played a role in the experiences of Hispanic women currently in computer science. The study found five emergent themes within the experiences of Hispanic women in computer science. Encouragement and role models strongly influenced not only the participants' choice to major in the field, but to persist as well. Most of the participants experienced a negative atmosphere and feelings of not fitting in while in college and industry. The interdisciplinary nature of computer science was the most common aspect that attracted the participants to computer science. The aptitudes participants commonly believed are needed for success in computer science are the Twenty

Molecular Science Computing: 2010 Greenbook

Energy Technology Data Exchange (ETDEWEB)

De Jong, Wibe A.; Cowley, David E.; Dunning, Thom H.; Vorpagel, Erich R.

2010-04-02

This 2010 Greenbook outlines the science drivers for performing integrated computational environmental molecular research at EMSL and defines the next-generation HPC capabilities that must be developed at the MSC to address this critical research. The EMSL MSC Science Panel used EMSL’s vision and science focus and white papers from current and potential future EMSL scientific user communities to define the scientific direction and resulting HPC resource requirements presented in this 2010 Greenbook.

Cloud computing and services science

NARCIS (Netherlands)

Ivanov, Ivan; van Sinderen, Marten J.; Shishkov, Boris

2012-01-01

This book is essentially a collection of the best papers of the International Conference on Cloud Computing and Services Science (CLOSER), which was held in Noordwijkerhout, The Netherlands on May 7–9, 2011. The conference addressed technology trends in the domain of cloud computing in relation to a

10th International Symposium on Computer Science in Sports

CERN Document Server

Soltoggio, Andrea; Dawson, Christian; Meng, Qinggang; Pain, Matthew

2016-01-01

This book presents the main scientific results of the 10th International Symposium of Computer Science in Sport (IACSS/ISCSS 2015), sponsored by the International Association of Computer Science in Sport in collaboration with the International Society of Sport Psychology (ISSP), which took place between September 9-11, 2015 at Loughborough, UK. This proceedings aims to build a link between computer science and sport, and reports on results from applying computer science techniques to address a wide number of problems in sport and exercise sciences. It provides a good platform and opportunity for researchers in both computer science and sport to understand and discuss ideas and promote cross-disciplinary research. The strictly reviewed and carefully revised papers cover the following topics: Modelling and Analysis, Artificial Intelligence in Sport, Virtual Reality in Sport,  Neural Cognitive Training,  IT Systems for Sport, Sensing Technologies and Image Processing.

Archives: Journal of Computer Science and Its Application

African Journals Online (AJOL)

Items 1 - 9 of 9 ... Archives: Journal of Computer Science and Its Application. Journal Home > Archives: Journal of Computer Science and Its Application. Log in or Register to get access to full text downloads.

Summary of research in applied mathematics, numerical analysis and computer science at the Institute for Computer Applications in Science and Engineering

Science.gov (United States)

1984-01-01

Research conducted at the Institute for Computer Applications in Science and Engineering in applied mathematics, numerical analysis and computer science during the period October 1, 1983 through March 31, 1984 is summarized.

Semiotics, Information Science, Documents and Computers.

Science.gov (United States)

Warner, Julian

1990-01-01

Discusses the relationship and value of semiotics to the established domains of information science. Highlights include documentation; computer operations; the language of computing; automata theory; linguistics; speech and writing; and the written language as a unifying principle for the document and the computer. (93 references) (LRW)

Life sciences space biology project planning

Science.gov (United States)

Primeaux, G.; Newkirk, K.; Miller, L.; Lewis, G.; Michaud, R.

1988-01-01

The Life Sciences Space Biology (LSSB) research will explore the effect of microgravity on humans, including the physiological, clinical, and sociological implications of space flight and the readaptations upon return to earth. Physiological anomalies from past U.S. space flights will be used in planning the LSSB project.The planning effort integrates science and engineering. Other goals of the LSSB project include the provision of macroscopic view of the earth's biosphere, and the development of spinoff technology for application on earth.

Applied Mathematics, Modelling and Computational Science

CERN Document Server

Kotsireas, Ilias; Makarov, Roman; Melnik, Roderick; Shodiev, Hasan

2015-01-01

The Applied Mathematics, Modelling, and Computational Science (AMMCS) conference aims to promote interdisciplinary research and collaboration. The contributions in this volume cover the latest research in mathematical and computational sciences, modeling, and simulation as well as their applications in natural and social sciences, engineering and technology, industry, and finance. The 2013 conference, the second in a series of AMMCS meetings, was held August 26–30 and organized in cooperation with AIMS and SIAM, with support from the Fields Institute in Toronto, and Wilfrid Laurier University. There were many young scientists at AMMCS-2013, both as presenters and as organizers. This proceedings contains refereed papers contributed by the participants of the AMMCS-2013 after the conference. This volume is suitable for researchers and graduate students, mathematicians and engineers, industrialists, and anyone who would like to delve into the interdisciplinary research of applied and computational mathematics ...

Analysis of Sci-Hub downloads of computer science papers

Directory of Open Access Journals (Sweden)

Andročec Darko

2017-07-01

Full Text Available The scientific knowledge is disseminated by research papers. Most of the research literature is copyrighted by publishers and avail- able only through paywalls. Recently, some websites offer most of the recent content for free. One of them is the controversial website Sci-Hub that enables access to more than 47 million pirated research papers. In April 2016, Science Magazine published an article on Sci-Hub activity over the period of six months and publicly released the Sci-Hub’s server log data. The mentioned paper aggregates the view that relies on all downloads and for all fields of study, but these findings might be hiding interesting patterns within computer science. The mentioned Sci-Hub log data was used in this paper to analyse downloads of computer science papers based on DBLP’s list of computer science publications. The top downloads of computer science papers were analysed, together with the geographical location of Sci-Hub users, the most downloaded publishers, types of papers downloaded, and downloads of computer science papers per publication year. The results of this research can be used to improve legal access to the most relevant scientific repositories or journals for the computer science field.

Computational thinking in life science education.

Science.gov (United States)

Rubinstein, Amir; Chor, Benny

2014-11-01

We join the increasing call to take computational education of life science students a step further, beyond teaching mere programming and employing existing software tools. We describe a new course, focusing on enriching the curriculum of life science students with abstract, algorithmic, and logical thinking, and exposing them to the computational "culture." The design, structure, and content of our course are influenced by recent efforts in this area, collaborations with life scientists, and our own instructional experience. Specifically, we suggest that an effective course of this nature should: (1) devote time to explicitly reflect upon computational thinking processes, resisting the temptation to drift to purely practical instruction, (2) focus on discrete notions, rather than on continuous ones, and (3) have basic programming as a prerequisite, so students need not be preoccupied with elementary programming issues. We strongly recommend that the mere use of existing bioinformatics tools and packages should not replace hands-on programming. Yet, we suggest that programming will mostly serve as a means to practice computational thinking processes. This paper deals with the challenges and considerations of such computational education for life science students. It also describes a concrete implementation of the course and encourages its use by others.

Computational thinking in life science education.

Directory of Open Access Journals (Sweden)

Amir Rubinstein

2014-11-01

Full Text Available We join the increasing call to take computational education of life science students a step further, beyond teaching mere programming and employing existing software tools. We describe a new course, focusing on enriching the curriculum of life science students with abstract, algorithmic, and logical thinking, and exposing them to the computational "culture." The design, structure, and content of our course are influenced by recent efforts in this area, collaborations with life scientists, and our own instructional experience. Specifically, we suggest that an effective course of this nature should: (1 devote time to explicitly reflect upon computational thinking processes, resisting the temptation to drift to purely practical instruction, (2 focus on discrete notions, rather than on continuous ones, and (3 have basic programming as a prerequisite, so students need not be preoccupied with elementary programming issues. We strongly recommend that the mere use of existing bioinformatics tools and packages should not replace hands-on programming. Yet, we suggest that programming will mostly serve as a means to practice computational thinking processes. This paper deals with the challenges and considerations of such computational education for life science students. It also describes a concrete implementation of the course and encourages its use by others.

A Comparative Analysis of South African Life Sciences and Biology Textbooks for Inclusion of the Nature of Science

Science.gov (United States)

Ramnarain, Umesh; Padayachee, Keshni

2015-01-01

This study reports on the analysis of South African Life Sciences and Biology textbooks for the inclusion of the nature of science using a conceptual framework developed by Chiappetta, Fillman and Sethna (1991). In particular, we investigated the differences between the representation of the nature of science in Biology textbooks that were written…

Crosscut report: Exascale Requirements Reviews, March 9–10, 2017 – Tysons Corner, Virginia. An Office of Science review sponsored by: Advanced Scientific Computing Research, Basic Energy Sciences, Biological and Environmental Research, Fusion Energy Sciences, High Energy Physics, Nuclear Physics

Energy Technology Data Exchange (ETDEWEB)

Gerber, Richard [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). National Energy Research Scientific Computing Center (NERSC); Hack, James [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States). Oak Ridge Leadership Computing Facility (OLCF); Riley, Katherine [Argonne National Lab., IL (United States). Argonne Leadership Computing Facility (ALCF); Antypas, Katie [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). National Energy Research Scientific Computing Center (NERSC); Coffey, Richard [Argonne National Lab. (ANL), Argonne, IL (United States). Argonne Leadership Computing Facility (ALCF); Dart, Eli [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). ESnet; Straatsma, Tjerk [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States). Oak Ridge Leadership Computing Facility (OLCF); Wells, Jack [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States). Oak Ridge Leadership Computing Facility (OLCF); Bard, Deborah [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). National Energy Research Scientific Computing Center (NERSC); Dosanjh, Sudip [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). National Energy Research Scientific Computing Center (NERSC); Monga, Inder [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). ESnet; Papka, Michael E. [Argonne National Lab. (ANL), Argonne, IL (United States). Argonne Leadership Computing Facility; Rotman, Lauren [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). ESnet

2018-01-22

The mission of the U.S. Department of Energy Office of Science (DOE SC) is the delivery of scientific discoveries and major scientific tools to transform our understanding of nature and to advance the energy, economic, and national security missions of the United States. To achieve these goals in today’s world requires investments in not only the traditional scientific endeavors of theory and experiment, but also in computational science and the facilities that support large-scale simulation and data analysis. The Advanced Scientific Computing Research (ASCR) program addresses these challenges in the Office of Science. ASCR’s mission is to discover, develop, and deploy computational and networking capabilities to analyze, model, simulate, and predict complex phenomena important to DOE. ASCR supports research in computational science, three high-performance computing (HPC) facilities — the National Energy Research Scientific Computing Center (NERSC) at Lawrence Berkeley National Laboratory and Leadership Computing Facilities at Argonne (ALCF) and Oak Ridge (OLCF) National Laboratories — and the Energy Sciences Network (ESnet) at Berkeley Lab. ASCR is guided by science needs as it develops research programs, computers, and networks at the leading edge of technologies. As we approach the era of exascale computing, technology changes are creating challenges for science programs in SC for those who need to use high performance computing and data systems effectively. Numerous significant modifications to today’s tools and techniques will be needed to realize the full potential of emerging computing systems and other novel computing architectures. To assess these needs and challenges, ASCR held a series of Exascale Requirements Reviews in 2015–2017, one with each of the six SC program offices,1 and a subsequent Crosscut Review that sought to integrate the findings from each. Participants at the reviews were drawn from the communities of leading domain

Science-Driven Computing: NERSC's Plan for 2006-2010

Energy Technology Data Exchange (ETDEWEB)

Simon, Horst D.; Kramer, William T.C.; Bailey, David H.; Banda,Michael J.; Bethel, E. Wes; Craw, James M.; Fortney, William J.; Hules,John A.; Meyer, Nancy L.; Meza, Juan C.; Ng, Esmond G.; Rippe, Lynn E.; Saphir, William C.; Verdier, Francesca; Walter, Howard A.; Yelick,Katherine A.

2005-05-16

NERSC has developed a five-year strategic plan focusing on three components: Science-Driven Systems, Science-Driven Services, and Science-Driven Analytics. (1) Science-Driven Systems: Balanced introduction of the best new technologies for complete computational systems--computing, storage, networking, visualization and analysis--coupled with the activities necessary to engage vendors in addressing the DOE computational science requirements in their future roadmaps. (2) Science-Driven Services: The entire range of support activities, from high-quality operations and user services to direct scientific support, that enable a broad range of scientists to effectively use NERSC systems in their research. NERSC will concentrate on resources needed to realize the promise of the new highly scalable architectures for scientific discovery in multidisciplinary computational science projects. (3) Science-Driven Analytics: The architectural and systems enhancements and services required to integrate NERSC's powerful computational and storage resources to provide scientists with new tools to effectively manipulate, visualize, and analyze the huge data sets derived from simulations and experiments.

World Congress on Engineering and Computer Science 2015

CERN Document Server

Kim, Haeng; Amouzegar, Mahyar

2017-01-01

This proceedings volume contains selected revised and extended research articles written by researchers who participated in the World Congress on Engineering and Computer Science 2015, held in San Francisco, USA, 21-23 October 2015. Topics covered include engineering mathematics, electrical engineering, circuits, communications systems, computer science, chemical engineering, systems engineering, manufacturing engineering, and industrial applications. The book offers the reader an overview of the state of the art in engineering technologies, computer science, systems engineering and applications, and will serve as an excellent reference work for researchers and graduate students working in these fields.

Computational biology in the cloud: methods and new insights from computing at scale.

Science.gov (United States)

Kasson, Peter M

2013-01-01

The past few years have seen both explosions in the size of biological data sets and the proliferation of new, highly flexible on-demand computing capabilities. The sheer amount of information available from genomic and metagenomic sequencing, high-throughput proteomics, experimental and simulation datasets on molecular structure and dynamics affords an opportunity for greatly expanded insight, but it creates new challenges of scale for computation, storage, and interpretation of petascale data. Cloud computing resources have the potential to help solve these problems by offering a utility model of computing and storage: near-unlimited capacity, the ability to burst usage, and cheap and flexible payment models. Effective use of cloud computing on large biological datasets requires dealing with non-trivial problems of scale and robustness, since performance-limiting factors can change substantially when a dataset grows by a factor of 10,000 or more. New computing paradigms are thus often needed. The use of cloud platforms also creates new opportunities to share data, reduce duplication, and to provide easy reproducibility by making the datasets and computational methods easily available.

Saving our science from ourselves: the plight of biological classification

Directory of Open Access Journals (Sweden)

Malte C. Ebach

2011-06-01

Full Text Available Saving our science from ourselves: the plight of biological classification. Biological classification ( nomenclature, taxonomy, and systematics is being sold short. The desire for new technologies, faster and cheaper taxonomic descriptions, identifications, and revisions is symptomatic of a lack of appreciation and understanding of classification. The problem of gadget-driven science, a lack of best practice and the inability to accept classification as a descriptive and empirical science are discussed. The worst cases scenario is a future in which classifications are purely artificial and uninformative.

The Human Genome Project: Biology, Computers, and Privacy.

Science.gov (United States)

Cutter, Mary Ann G.; Drexler, Edward; Gottesman, Kay S.; Goulding, Philip G.; McCullough, Laurence B.; McInerney, Joseph D.; Micikas, Lynda B.; Mural, Richard J.; Murray, Jeffrey C.; Zola, John

This module, for high school teachers, is the second of two modules about the Human Genome Project (HGP) produced by the Biological Sciences Curriculum Study (BSCS). The first section of this module provides background information for teachers about the structure and objectives of the HGP, aspects of the science and technology that underlie the…

Non-Determinism: An Abstract Concept in Computer Science Studies

Science.gov (United States)

Armoni, Michal; Gal-Ezer, Judith

2007-01-01

Non-determinism is one of the most important, yet abstract, recurring concepts of Computer Science. It plays an important role in Computer Science areas such as formal language theory, computability theory, distributed computing, and operating systems. We conducted a series of studies on the perception of non-determinism. In the current research,…

Biological and Physical Space Research Laboratory 2002 Science Review

Science.gov (United States)

Curreri, P. A. (Editor); Robinson, M. B. (Editor); Murphy, K. L. (Editor)

2003-01-01

With the International Space Station Program approaching core complete, our NASA Headquarters sponsor, the new Code U Enterprise, Biological and Physical Research, is shifting its research emphasis from purely fundamental microgravity and biological sciences to strategic research aimed at enabling human missions beyond Earth orbit. Although we anticipate supporting microgravity research on the ISS for some time to come, our laboratory has been vigorously engaged in developing these new strategic research areas.This Technical Memorandum documents the internal science research at our laboratory as presented in a review to Dr. Ann Whitaker, MSFC Science Director, in July 2002. These presentations have been revised and updated as appropriate for this report. It provides a snapshot of the internal science capability of our laboratory as an aid to other NASA organizations and the external scientific community.

Test of Science Process Skills of Biology Students towards Developing of Learning Exercises

Directory of Open Access Journals (Sweden)

Judith S. Rabacal

2016-11-01

Full Text Available This is a descriptive study aimed to determine the academic achievement on science process skills of the BS Biology Students of Northern Negros State College of Science and Technology, Philippines with the end view of developing learning exercises which will enhance their academic achievement on basic and integrated science process skills. The data in this study were obtained using a validated questionnaire. Mean was the statistical tool used to determine the academic achievement on the above mentioned science process skills; t-test for independent means was used to determine significant difference on the academic achievement of science process skills of BS Biology students while Pearson Product Moment of Correlation Coefficient was used to determine the significant relationship between basic and integrated science process skills of the BS Biology students. A 0.05 level of significance was used to determine whether the hypothesis set in the study will be rejected or accepted. Findings revealed that the academic achievement on basic and integrated science process skills of the BS Biology students was average. Findings revealed that there are no significant differences on the academic performance of the BS Biology students when grouped according to year level and gender. Findings also revealed that there is a significant difference on the academic achievement between basic and integrated science process skills of the BS Biology students. Findings revealed that there is a significant relationship between academic achievement on the basic and integrated science process skills of the BS Biology students.

Bioinformation processing a primer on computational cognitive science

CERN Document Server

Peterson, James K

2016-01-01

This book shows how mathematics, computer science and science can be usefully and seamlessly intertwined. It begins with a general model of cognitive processes in a network of computational nodes, such as neurons, using a variety of tools from mathematics, computational science and neurobiology. It then moves on to solve the diffusion model from a low-level random walk point of view. It also demonstrates how this idea can be used in a new approach to solving the cable equation, in order to better understand the neural computation approximations. It introduces specialized data for emotional content, which allows a brain model to be built using MatLab tools, and also highlights a simple model of cognitive dysfunction.

Nuclear computational science a century in review

CERN Document Server

Azmy, Yousry

2010-01-01

Nuclear engineering has undergone extensive progress over the years. In the past century, colossal developments have been made and with specific reference to the mathematical theory and computational science underlying this discipline, advances in areas such as high-order discretization methods, Krylov Methods and Iteration Acceleration have steadily grown. Nuclear Computational Science: A Century in Review addresses these topics and many more; topics which hold special ties to the first half of the century, and topics focused around the unique combination of nuclear engineering, computational

COMPUTER SCIENCE IN THE EDUCATION OF UKRAINE: FORMATION PROSPECTS

OpenAIRE

Viktor Shakotko

2016-01-01

The article deals with the formation of computer science as science and school subject as well in the system of education in Ukraine taking into consideration the development tendencies of this science in the world. The introduction of the notion« information technology», «computer science» and «informatics science» into the science, their correlation and the peculiarities of subject sphere determination are analyzed through the historical aspect. The author considers the points of view conce...

National Energy Research Scientific Computing Center (NERSC): Advancing the frontiers of computational science and technology

Energy Technology Data Exchange (ETDEWEB)

Hules, J. [ed.

1996-11-01

National Energy Research Scientific Computing Center (NERSC) provides researchers with high-performance computing tools to tackle science`s biggest and most challenging problems. Founded in 1974 by DOE/ER, the Controlled Thermonuclear Research Computer Center was the first unclassified supercomputer center and was the model for those that followed. Over the years the center`s name was changed to the National Magnetic Fusion Energy Computer Center and then to NERSC; it was relocated to LBNL. NERSC, one of the largest unclassified scientific computing resources in the world, is the principal provider of general-purpose computing services to DOE/ER programs: Magnetic Fusion Energy, High Energy and Nuclear Physics, Basic Energy Sciences, Health and Environmental Research, and the Office of Computational and Technology Research. NERSC users are a diverse community located throughout US and in several foreign countries. This brochure describes: the NERSC advantage, its computational resources and services, future technologies, scientific resources, and computational science of scale (interdisciplinary research over a decade or longer; examples: combustion in engines, waste management chemistry, global climate change modeling).

The Relationship in Biology between the Nature of Science and Scientific Inquiry

Science.gov (United States)

Kremer, Kerstin; Specht, Christiane; Urhahne, Detlef; Mayer, Jürgen

2014-01-01

Informed understandings of nature of science and scientific inquiry are generally accepted goals of biology education. This article points out central features of scientific inquiry with relation to biology and the nature of science in general terms and focuses on the relationship of students' inquiry skills in biology and their beliefs on the…

Collaboration between J-PARC and computing science

International Nuclear Information System (INIS)

Nakatani, Takeshi; Inamura, Yasuhiro

2010-01-01

Many world-forefront experimental apparatuses are under construction at Materials and Life Science Facility of Japan Proton Accelerator Research Complex (J-PARC), and new experimental methods supported by the computer facility are under development towards practical use. Many problems, however, remains to be developed as a large open use facility under the Low for Promotion of Public Utilization. Some of them need the cooperation of experimental scientists and computer scientists to be solved. Present status of the computing ability at Materials and Life Science Facility of J-PARC, and research results expected to be brought by the collaboration of experimental- and computer-scientists are described. (author)

Computational Biomechanics Theoretical Background and BiologicalBiomedical Problems

CERN Document Server

Tanaka, Masao; Nakamura, Masanori

2012-01-01

Rapid developments have taken place in biological/biomedical measurement and imaging technologies as well as in computer analysis and information technologies. The increase in data obtained with such technologies invites the reader into a virtual world that represents realistic biological tissue or organ structures in digital form and allows for simulation and what is called “in silico medicine.” This volume is the third in a textbook series and covers both the basics of continuum mechanics of biosolids and biofluids and the theoretical core of computational methods for continuum mechanics analyses. Several biomechanics problems are provided for better understanding of computational modeling and analysis. Topics include the mechanics of solid and fluid bodies, fundamental characteristics of biosolids and biofluids, computational methods in biomechanics analysis/simulation, practical problems in orthopedic biomechanics, dental biomechanics, ophthalmic biomechanics, cardiovascular biomechanics, hemodynamics...

Summary of research conducted at the Institute for Computer Applications in Science and Engineering in applied mathematics, numerical analysis and computer science

Science.gov (United States)

1989-01-01

Research conducted at the Institute for Computer Applications in Science and Engineering in applied mathematics, numerical analysis, and computer science during the period October 1, 1988 through March 31, 1989 is summarized.

Large-scale theoretical calculations in molecular science - design of a large computer system for molecular science and necessary conditions for future computers

Energy Technology Data Exchange (ETDEWEB)

Kashiwagi, H [Institute for Molecular Science, Okazaki, Aichi (Japan)

1982-06-01

A large computer system was designed and established for molecular science under the leadership of molecular scientists. Features of the computer system are an automated operation system and an open self-service system. Large-scale theoretical calculations have been performed to solve many problems in molecular science, using the computer system. Necessary conditions for future computers are discussed on the basis of this experience.

Large-scale theoretical calculations in molecular science - design of a large computer system for molecular science and necessary conditions for future computers

International Nuclear Information System (INIS)

Kashiwagi, H.

1982-01-01

A large computer system was designed and established for molecular science under the leadership of molecular scientists. Features of the computer system are an automated operation system and an open self-service system. Large-scale theoretical calculations have been performed to solve many problems in molecular science, using the computer system. Necessary conditions for future computers are discussed on the basis of this experience. (orig.)

Gender Differences in the Use of Computers, Programming, and Peer Interactions in Computer Science Classrooms

Science.gov (United States)

Stoilescu, Dorian; Egodawatte, Gunawardena

2010-01-01

Research shows that female and male students in undergraduate computer science programs view computer culture differently. Female students are interested more in the use of computers than in doing programming, whereas male students see computer science mainly as a programming activity. The overall purpose of our research was not to find new…

FOREWORD: Third Nordic Symposium on Computer Simulation in Physics, Chemistry, Biology and Mathematics

Science.gov (United States)

Kaski, K.; Salomaa, M.

1990-01-01

These are Proceedings of the Third Nordic Symposium on Computer Simulation in Physics, Chemistry, Biology, and Mathematics, held August 25-26, 1989, at Lahti (Finland). The Symposium belongs to an annual series of Meetings, the first one of which was arranged in 1987 at Lund (Sweden) and the second one in 1988 at Kolle-Kolle near Copenhagen (Denmark). Although these Symposia have thus far been essentially Nordic events, their international character has increased significantly; the trend is vividly reflected through contributions in the present Topical Issue. The interdisciplinary nature of Computational Science is central to the activity; this fundamental aspect is also responsible, in an essential way, for its rapidly increasing impact. Crucially important to a wide spectrum of superficially disparate fields is the common need for extensive - and often quite demanding - computational modelling. For such theoretical models, no closed-form (analytical) solutions are available or they would be extremely difficult to find; hence one must rather resort to the Art of performing computational investigations. Among the unifying features in the computational research are the methods of simulation employed; methods which frequently are quite closely related with each other even for faculties of science that are quite unrelated. Computer simulation in Natural Sciences is presently apprehended as a discipline on its own right, occupying a broad region somewhere between the experimental and theoretical methods, but also partially overlapping with and complementing them. - Whichever its proper definition may be, the computational approach serves as a novel and an extremely versatile tool with which one can equally well perform "pure" experimental modelling and conduct "computational theory". Computational studies that have earlier been made possible only through supercomputers have opened unexpected, as well as exciting, novel frontiers equally in mathematics (e.g., fractals

Epistemological Predictors of Prospective Biology Teachers' Nature of Science Understandings

Science.gov (United States)

Köseoglu, Pinar; Köksal, Mustafa Serdar

2015-01-01

The purpose of this study was to investigate epistemological predictors of nature of science understandings of 281 prospective biology teachers surveyed using the Epistemological Beliefs Scale Regarding Science and the Nature of Science Scale. The findings on multiple linear regression showed that understandings about definition of science and…

Applicability of Computational Systems Biology in Toxicology

DEFF Research Database (Denmark)

Kongsbak, Kristine Grønning; Hadrup, Niels; Audouze, Karine Marie Laure

2014-01-01

be used to establish hypotheses on links between the chemical and human diseases. Such information can also be applied for designing more intelligent animal/cell experiments that can test the established hypotheses. Here, we describe how and why to apply an integrative systems biology method......Systems biology as a research field has emerged within the last few decades. Systems biology, often defined as the antithesis of the reductionist approach, integrates information about individual components of a biological system. In integrative systems biology, large data sets from various sources...... and databases are used to model and predict effects of chemicals on, for instance, human health. In toxicology, computational systems biology enables identification of important pathways and molecules from large data sets; tasks that can be extremely laborious when performed by a classical literature search...

78 FR 10180 - Annual Computational Science Symposium; Conference

Science.gov (United States)

2013-02-13

...] Annual Computational Science Symposium; Conference AGENCY: Food and Drug Administration, HHS. ACTION... Pharmaceutical Users Software Exchange (PhUSE), is announcing a public conference entitled ``The FDA/PhUSE Annual Computational Science Symposium.'' The purpose of the conference is to help the broader community align and...

WE-DE-202-00: Connecting Radiation Physics with Computational Biology

International Nuclear Information System (INIS)

2016-01-01

Radiation therapy for the treatment of cancer has been established as a highly precise and effective way to eradicate a localized region of diseased tissue. To achieve further significant gains in the therapeutic ratio, we need to move towards biologically optimized treatment planning. To achieve this goal, we need to understand how the radiation-type dependent patterns of induced energy depositions within the cell (physics) connect via molecular, cellular and tissue reactions to treatment outcome such as tumor control and undesirable effects on normal tissue. Several computational biology approaches have been developed connecting physics to biology. Monte Carlo simulations are the most accurate method to calculate physical dose distributions at the nanometer scale, however simulations at the DNA scale are slow and repair processes are generally not simulated. Alternative models that rely on the random formation of individual DNA lesions within one or two turns of the DNA have been shown to reproduce the clusters of DNA lesions, including single strand breaks (SSBs), double strand breaks (DSBs) without the need for detailed track structure simulations. Efficient computational simulations of initial DNA damage induction facilitate computational modeling of DNA repair and other molecular and cellular processes. Mechanistic, multiscale models provide a useful conceptual framework to test biological hypotheses and help connect fundamental information about track structure and dosimetry at the sub-cellular level to dose-response effects on larger scales. In this symposium we will learn about the current state of the art of computational approaches estimating radiation damage at the cellular and sub-cellular scale. How can understanding the physics interactions at the DNA level be used to predict biological outcome? We will discuss if and how such calculations are relevant to advance our understanding of radiation damage and its repair, or, if the underlying biological

WE-DE-202-00: Connecting Radiation Physics with Computational Biology

Energy Technology Data Exchange (ETDEWEB)

NONE

2016-06-15

Radiation therapy for the treatment of cancer has been established as a highly precise and effective way to eradicate a localized region of diseased tissue. To achieve further significant gains in the therapeutic ratio, we need to move towards biologically optimized treatment planning. To achieve this goal, we need to understand how the radiation-type dependent patterns of induced energy depositions within the cell (physics) connect via molecular, cellular and tissue reactions to treatment outcome such as tumor control and undesirable effects on normal tissue. Several computational biology approaches have been developed connecting physics to biology. Monte Carlo simulations are the most accurate method to calculate physical dose distributions at the nanometer scale, however simulations at the DNA scale are slow and repair processes are generally not simulated. Alternative models that rely on the random formation of individual DNA lesions within one or two turns of the DNA have been shown to reproduce the clusters of DNA lesions, including single strand breaks (SSBs), double strand breaks (DSBs) without the need for detailed track structure simulations. Efficient computational simulations of initial DNA damage induction facilitate computational modeling of DNA repair and other molecular and cellular processes. Mechanistic, multiscale models provide a useful conceptual framework to test biological hypotheses and help connect fundamental information about track structure and dosimetry at the sub-cellular level to dose-response effects on larger scales. In this symposium we will learn about the current state of the art of computational approaches estimating radiation damage at the cellular and sub-cellular scale. How can understanding the physics interactions at the DNA level be used to predict biological outcome? We will discuss if and how such calculations are relevant to advance our understanding of radiation damage and its repair, or, if the underlying biological

S.E.A. Lab. Science Experiments and Activities. Marine Science for High School Students in Chemistry, Biology and Physics.

Science.gov (United States)

Hart, Kathy, Ed.

A series of science experiments and activities designed for secondary school students taking biology, chemistry, physics, physical science or marine science courses are outlined. Each of the three major sections--chemistry, biology, and physics--addresses concepts that are generally covered in those courses but incorporates aspects of marine…

Partnership in Computational Science

Energy Technology Data Exchange (ETDEWEB)

Huray, Paul G.

1999-02-24

This is the final report for the "Partnership in Computational Science" (PICS) award in an amount of $500,000 for the period January 1, 1993 through December 31, 1993. A copy of the proposal with its budget is attached as Appendix A. This report first describes the consequent significance of the DOE award in building infrastructure of high performance computing in the Southeast and then describes the work accomplished under this grant and a list of publications resulting from it.

DOE EPSCoR Initiative in Structural and computational Biology/Bioinformatics

Energy Technology Data Exchange (ETDEWEB)

Wallace, Susan S.

2008-02-21

The overall goal of the DOE EPSCoR Initiative in Structural and Computational Biology was to enhance the competiveness of Vermont research in these scientific areas. To develop self-sustaining infrastructure, we increased the critical mass of faculty, developed shared resources that made junior researchers more competitive for federal research grants, implemented programs to train graduate and undergraduate students who participated in these research areas and provided seed money for research projects. During the time period funded by this DOE initiative: (1) four new faculty were recruited to the University of Vermont using DOE resources, three in Computational Biology and one in Structural Biology; (2) technical support was provided for the Computational and Structural Biology facilities; (3) twenty-two graduate students were directly funded by fellowships; (4) fifteen undergraduate students were supported during the summer; and (5) twenty-eight pilot projects were supported. Taken together these dollars resulted in a plethora of published papers, many in high profile journals in the fields and directly impacted competitive extramural funding based on structural or computational biology resulting in 49 million dollars awarded in grants (Appendix I), a 600% return on investment by DOE, the State and University.

Computational Science: Ensuring America's Competitiveness

National Research Council Canada - National Science Library

Reed, Daniel A; Bajcsy, Ruzena; Fernandez, Manuel A; Griffiths, Jose-Marie; Mott, Randall D; Dongarra, J. J; Johnson, Chris R; Inouye, Alan S; Miner, William; Matzke, Martha K; Ponick, Terry L

2005-01-01

... previously deemed intractable. Yet, despite the great opportunities and needs, universities and the Federal government have not effectively recognized the strategic significance of computational science in either...

A Cognitive Model for Problem Solving in Computer Science

Science.gov (United States)

Parham, Jennifer R.

2009-01-01

According to industry representatives, computer science education needs to emphasize the processes involved in solving computing problems rather than their solutions. Most of the current assessment tools used by universities and computer science departments analyze student answers to problems rather than investigating the processes involved in…

11th International Conference on Computer and Information Science

CERN Document Server

Computer and Information 2012

2012-01-01

The series "Studies in Computational Intelligence" (SCI) publishes new developments and advances in the various areas of computational intelligence – quickly and with a high quality. The intent is to cover the theory, applications, and design methods of computational intelligence, as embedded in the fields of engineering, computer science, physics and life science, as well as the methodologies behind them. The series contains monographs, lecture notes and edited volumes in computational intelligence spanning the areas of neural networks, connectionist systems, genetic algorithms, evolutionary computation, artificial intelligence, cellular automata, self-organizing systems, soft computing, fuzzy systems, and hybrid intelligent systems. Critical to both contributors and readers are the short publication time and world-wide distribution - this permits a rapid and broad dissemination of research results.   The purpose of the 11th IEEE/ACIS International Conference on Computer and Information Science (ICIS 2012...

Computing paths and cycles in biological interaction graphs

Directory of Open Access Journals (Sweden)

von Kamp Axel

2009-06-01

Full Text Available Abstract Background Interaction graphs (signed directed graphs provide an important qualitative modeling approach for Systems Biology. They enable the analysis of causal relationships in cellular networks and can even be useful for predicting qualitative aspects of systems dynamics. Fundamental issues in the analysis of interaction graphs are the enumeration of paths and cycles (feedback loops and the calculation of shortest positive/negative paths. These computational problems have been discussed only to a minor extent in the context of Systems Biology and in particular the shortest signed paths problem requires algorithmic developments. Results We first review algorithms for the enumeration of paths and cycles and show that these algorithms are superior to a recently proposed enumeration approach based on elementary-modes computation. The main part of this work deals with the computation of shortest positive/negative paths, an NP-complete problem for which only very few algorithms are described in the literature. We propose extensions and several new algorithm variants for computing either exact results or approximations. Benchmarks with various concrete biological networks show that exact results can sometimes be obtained in networks with several hundred nodes. A class of even larger graphs can still be treated exactly by a new algorithm combining exhaustive and simple search strategies. For graphs, where the computation of exact solutions becomes time-consuming or infeasible, we devised an approximative algorithm with polynomial complexity. Strikingly, in realistic networks (where a comparison with exact results was possible this algorithm delivered results that are very close or equal to the exact values. This phenomenon can probably be attributed to the particular topology of cellular signaling and regulatory networks which contain a relatively low number of negative feedback loops. Conclusion The calculation of shortest positive

The case for biological quantum computer elements

Science.gov (United States)

Baer, Wolfgang; Pizzi, Rita

2009-05-01

An extension to vonNeumann's analysis of quantum theory suggests self-measurement is a fundamental process of Nature. By mapping the quantum computer to the brain architecture we will argue that the cognitive experience results from a measurement of a quantum memory maintained by biological entities. The insight provided by this mapping suggests quantum effects are not restricted to small atomic and nuclear phenomena but are an integral part of our own cognitive experience and further that the architecture of a quantum computer system parallels that of a conscious brain. We will then review the suggestions for biological quantum elements in basic neural structures and address the de-coherence objection by arguing for a self- measurement event model of Nature. We will argue that to first order approximation the universe is composed of isolated self-measurement events which guaranties coherence. Controlled de-coherence is treated as the input/output interactions between quantum elements of a quantum computer and the quantum memory maintained by biological entities cognizant of the quantum calculation results. Lastly we will present stem-cell based neuron experiments conducted by one of us with the aim of demonstrating the occurrence of quantum effects in living neural networks and discuss future research projects intended to reach this objective.

Proceedings of computational methods in materials science

International Nuclear Information System (INIS)

Mark, J.E. Glicksman, M.E.; Marsh, S.P.

1992-01-01

The Symposium on which this volume is based was conceived as a timely expression of some of the fast-paced developments occurring throughout materials science and engineering. It focuses particularly on those involving modern computational methods applied to model and predict the response of materials under a diverse range of physico-chemical conditions. The current easy access of many materials scientists in industry, government laboratories, and academe to high-performance computers has opened many new vistas for predicting the behavior of complex materials under realistic conditions. Some have even argued that modern computational methods in materials science and engineering are literally redefining the bounds of our knowledge from which we predict structure-property relationships, perhaps forever changing the historically descriptive character of the science and much of the engineering

International Journal of Biological and Chemical Sciences ...

African Journals Online (AJOL)

The International Journal of Biological and Chemical Sciences (IJBCS) is a journal ... c) Short Communication (maximum: 10 pages, 20 references). d) Case ... Abstract: All articles should be provided with an abstract not exceeding 200 words.

Rangaswamy Narasimhan: Doyen of Computer Science

Indian Academy of Sciences (India)

Home; Journals; Resonance – Journal of Science Education; Volume 13; Issue 5. Rangaswamy Narasimhan: Doyen of Computer Science and Technology. Srinivasan Ramani. Article-in-a-Box Volume 13 Issue 5 May 2008 pp 407-409. Fulltext. Click here to view fulltext PDF. Permanent link:

Computational colour science using MATLAB

CERN Document Server

Westland, Stephen; Cheung, Vien

2012-01-01

Computational Colour Science Using MATLAB 2nd Edition offers a practical, problem-based approach to colour physics. The book focuses on the key issues encountered in modern colour engineering, including efficient representation of colour information, Fourier analysis of reflectance spectra and advanced colorimetric computation. Emphasis is placed on the practical applications rather than the techniques themselves, with material structured around key topics. These topics include colour calibration of visual displays, computer recipe prediction and models for colour-appearance prediction. Each t

NWChem Meeting on Science Driven Petascale Computing and Capability Development at EMSL

Energy Technology Data Exchange (ETDEWEB)

De Jong, Wibe A.

2007-02-19

On January 25, and 26, 2007, an NWChem meeting was held that was attended by 65 scientists from 29 institutions including 22 universities and 5 national laboratories. The goals of the meeting were to look at major scientific challenges that could be addressed by computational modeling in environmental molecular sciences, and to identify the associated capability development needs. In addition, insights were sought into petascale computing developments in computational chemistry. During the meeting common themes were identified that will drive the need for the development of new or improved capabilities in NWChem. Crucial areas of development that the developer's team will be focusing on are (1) modeling of dynamics and kinetics in chemical transformations, (2) modeling of chemistry at interfaces and in the condensed phase, and (3) spanning longer time scales in biological processes modeled with molecular dynamics. Various computational chemistry methodologies were discussed during the meeting, which will provide the basis for the capability developments in the near or long term future of NWChem.

Computational error and complexity in science and engineering computational error and complexity

CERN Document Server

Lakshmikantham, Vangipuram; Chui, Charles K; Chui, Charles K

2005-01-01

The book "Computational Error and Complexity in Science and Engineering” pervades all the science and engineering disciplines where computation occurs. Scientific and engineering computation happens to be the interface between the mathematical model/problem and the real world application. One needs to obtain good quality numerical values for any real-world implementation. Just mathematical quantities symbols are of no use to engineers/technologists. Computational complexity of the numerical method to solve the mathematical model, also computed along with the solution, on the other hand, will tell us how much computation/computational effort has been spent to achieve that quality of result. Anyone who wants the specified physical problem to be solved has every right to know the quality of the solution as well as the resources spent for the solution. The computed error as well as the complexity provide the scientific convincing answer to these questions. Specifically some of the disciplines in which the book w...

Assessment of Examinations in Computer Science Doctoral Education

Science.gov (United States)

Straub, Jeremy

2014-01-01

This article surveys the examination requirements for attaining degree candidate (candidacy) status in computer science doctoral programs at all of the computer science doctoral granting institutions in the United States. It presents a framework for program examination requirement categorization, and categorizes these programs by the type or types…

Computer Science Professionals and Greek Library Science

Science.gov (United States)

Dendrinos, Markos N.

2008-01-01

This paper attempts to present the current state of computer science penetration into librarianship in terms of both workplace and education issues. The shift from material libraries into digital libraries is mirrored in the corresponding shift from librarians into information scientists. New library data and metadata, as well as new automated…

Science News of the Year.

Science.gov (United States)

Science News, 1983

1983-01-01

Highlights important 1983 news stories reported in Science News. Stories are categorized under: anthropology/paleontology; behavior; biology; chemistry; earth sciences; energy; environment; medicine; physics; science and society; space sciences and astronomy; and technology and computers. (JN)

Computing Whether She Belongs: Stereotypes Undermine Girls' Interest and Sense of Belonging in Computer Science

Science.gov (United States)

Master, Allison; Cheryan, Sapna; Meltzoff, Andrew N.

2016-01-01

Computer science has one of the largest gender disparities in science, technology, engineering, and mathematics. An important reason for this disparity is that girls are less likely than boys to enroll in necessary "pipeline courses," such as introductory computer science. Two experiments investigated whether high-school girls' lower…

Institute for Computer Applications in Science and Engineering (ICASE)

Science.gov (United States)

1984-01-01

Research conducted at the Institute for Computer Applications in Science and Engineering in applied mathematics, numerical analysis and computer science during the period April 1, 1983 through September 30, 1983 is summarized.

Hispanic Women Overcoming Deterrents to Computer Science: A Phenomenological Study

Science.gov (United States)

Herling, Lourdes

2011-01-01

The products of computer science are important to all aspects of society and are tools in the solution of the world's problems. It is, therefore, troubling that the United States faces a shortage in qualified graduates in computer science. The number of women and minorities in computer science is significantly lower than the percentage of the…

"Computer Science Can Feed a Lot of Dreams"

Science.gov (United States)

Educational Horizons, 2014

2014-01-01

Pat Yongpradit is the director of education at Code.org. He leads all education efforts, including professional development and curriculum creation, and he builds relationships with school districts. Pat joined "Educational Horizons" to talk about why it is important to teach computer science--even for non-computer science teachers. This…

Collaboration, Collusion and Plagiarism in Computer Science Coursework

Science.gov (United States)

Fraser, Robert

2014-01-01

We present an overview of the nature of academic dishonesty with respect to computer science coursework. We discuss the efficacy of various policies for collaboration with regard to student education, and we consider a number of strategies for mitigating dishonest behaviour on computer science coursework by addressing some common causes. Computer…

Case Studies of Liberal Arts Computer Science Programs

Science.gov (United States)

Baldwin, D.; Brady, A.; Danyluk, A.; Adams, J.; Lawrence, A.

2010-01-01

Many undergraduate liberal arts institutions offer computer science majors. This article illustrates how quality computer science programs can be realized in a wide variety of liberal arts settings by describing and contrasting the actual programs at five liberal arts colleges: Williams College, Kalamazoo College, the State University of New York…

New Pedagogies on Teaching Science with Computer Simulations

Science.gov (United States)

Khan, Samia

2011-01-01

Teaching science with computer simulations is a complex undertaking. This case study examines how an experienced science teacher taught chemistry using computer simulations and the impact of his teaching on his students. Classroom observations over 3 semesters, teacher interviews, and student surveys were collected. The data was analyzed for (1)…

Barbara Ryder to head Department of Computer Science

OpenAIRE

Daniilidi, Christina

2008-01-01

Barbara G. Ryder, professor of computer science at Rutgers, The State University of New Jersey, will become the computer science department head at Virginia Tech, starting in fall 2008. She is the first woman to serve as a department head in the history of the nationally ranked College of Engineering.

Research in Applied Mathematics, Fluid Mechanics and Computer Science

Science.gov (United States)

1999-01-01

This report summarizes research conducted at the Institute for Computer Applications in Science and Engineering in applied mathematics, fluid mechanics, and computer science during the period October 1, 1998 through March 31, 1999.

Journal of Computer Science and Its Application: Site Map

African Journals Online (AJOL)

Journal of Computer Science and Its Application: Site Map. Journal Home > About the Journal > Journal of Computer Science and Its Application: Site Map. Log in or Register to get access to full text downloads.

Journal of Computer Science and Its Application: Journal Sponsorship

African Journals Online (AJOL)

Journal of Computer Science and Its Application: Journal Sponsorship. Journal Home > About the Journal > Journal of Computer Science and Its Application: Journal Sponsorship. Log in or Register to get access to full text downloads.

African-American males in computer science---Examining the pipeline for clogs

Science.gov (United States)

Stone, Daryl Bryant

The literature on African-American males (AAM) begins with a statement to the effect that "Today young Black men are more likely to be killed or sent to prison than to graduate from college." Why are the numbers of African-American male college graduates decreasing? Why are those enrolled in college not majoring in the science, technology, engineering, and mathematics (STEM) disciplines? This research explored why African-American males are not filling the well-recognized industry need for Computer Scientist/Technologists by choosing college tracks to these careers. The literature on STEM disciplines focuses largely on women in STEM, as opposed to minorities, and within minorities, there is a noticeable research gap in addressing the needs and opportunities available to African-American males. The primary goal of this study was therefore to examine the computer science "pipeline" from the African-American male perspective. The method included a "Computer Science Degree Self-Efficacy Scale" be distributed to five groups of African-American male students, to include: (1) fourth graders, (2) eighth graders, (3) eleventh graders, (4) underclass undergraduate computer science majors, and (5) upperclass undergraduate computer science majors. In addition to a 30-question self-efficacy test, subjects from each group were asked to participate in a group discussion about "African-American males in computer science." The audio record of each group meeting provides qualitative data for the study. The hypotheses include the following: (1) There is no significant difference in "Computer Science Degree" self-efficacy between fourth and eighth graders. (2) There is no significant difference in "Computer Science Degree" self-efficacy between eighth and eleventh graders. (3) There is no significant difference in "Computer Science Degree" self-efficacy between eleventh graders and lower-level computer science majors. (4) There is no significant difference in "Computer Science Degree

International Developments in Computer Science.

Science.gov (United States)

1982-06-01

background on 52 53 China’s scientific research and on their computer science before 1978. A useful companion to the directory is another publication of the...bimonthly publication in Portuguese; occasional translation of foreign articles into Portuguese. Data News: A bimonthly industry newsletter. Sistemas ...computer-related topics; Spanish. Delta: Publication of local users group; Spanish. Sistemas : Publication of System Engineers of Colombia; Spanish. CUBA

A Bioethics Course for Biology and Science Education Students.

Science.gov (United States)

Bryant, John; la Velle, Linda Baggott

2003-01-01

Points out the importance of awareness among biologists and biology teachers of the ethical and social implications of their work. Describes the bioethics module established at the University of Exeter mainly targeting students majoring in biology and science education. (Contains 18 references.) (Author/YDS)

An Examination of Science High School Students' Motivation towards Learning Biology and Their Attitude towards Biology Lessons

Science.gov (United States)

Kisoglu, Mustafa

2018-01-01

The purpose of this study is to examine motivation of science high school students towards learning biology and their attitude towards biology lessons. The sample of the study consists of 564 high school students (308 females, 256 males) studying at two science high schools in Aksaray, Turkey. In the study, the relational scanning method, which is…

Computer science II essentials

CERN Document Server

Raus, Randall

2012-01-01

REA's Essentials provide quick and easy access to critical information in a variety of different fields, ranging from the most basic to the most advanced. As its name implies, these concise, comprehensive study guides summarize the essentials of the field covered. Essentials are helpful when preparing for exams, doing homework and will remain a lasting reference source for students, teachers, and professionals. Computer Science II includes organization of a computer, memory and input/output, coding, data structures, and program development. Also included is an overview of the most commonly

New Biological Sciences, Sociology and Education

Science.gov (United States)

Youdell, Deborah

2016-01-01

Since the Human Genome Project mapped the gene sequence, new biological sciences have been generating a raft of new knowledges about the mechanisms and functions of the molecular body. One area of work that has particular potential to speak to sociology of education, is the emerging field of epigenetics. Epigenetics moves away from the mapped…

Enabling Wide-Scale Computer Science Education through Improved Automated Assessment Tools

Science.gov (United States)

Boe, Bryce A.

There is a proliferating demand for newly trained computer scientists as the number of computer science related jobs continues to increase. University programs will only be able to train enough new computer scientists to meet this demand when two things happen: when there are more primary and secondary school students interested in computer science, and when university departments have the resources to handle the resulting increase in enrollment. To meet these goals, significant effort is being made to both incorporate computational thinking into existing primary school education, and to support larger university computer science class sizes. We contribute to this effort through the creation and use of improved automated assessment tools. To enable wide-scale computer science education we do two things. First, we create a framework called Hairball to support the static analysis of Scratch programs targeted for fourth, fifth, and sixth grade students. Scratch is a popular building-block language utilized to pique interest in and teach the basics of computer science. We observe that Hairball allows for rapid curriculum alterations and thus contributes to wide-scale deployment of computer science curriculum. Second, we create a real-time feedback and assessment system utilized in university computer science classes to provide better feedback to students while reducing assessment time. Insights from our analysis of student submission data show that modifications to the system configuration support the way students learn and progress through course material, making it possible for instructors to tailor assignments to optimize learning in growing computer science classes.

Advances in unconventional computing

CERN Document Server

2017-01-01

The unconventional computing is a niche for interdisciplinary science, cross-bred of computer science, physics, mathematics, chemistry, electronic engineering, biology, material science and nanotechnology. The aims of this book are to uncover and exploit principles and mechanisms of information processing in and functional properties of physical, chemical and living systems to develop efficient algorithms, design optimal architectures and manufacture working prototypes of future and emergent computing devices. This first volume presents theoretical foundations of the future and emergent computing paradigms and architectures. The topics covered are computability, (non-)universality and complexity of computation; physics of computation, analog and quantum computing; reversible and asynchronous devices; cellular automata and other mathematical machines; P-systems and cellular computing; infinity and spatial computation; chemical and reservoir computing. The book is the encyclopedia, the first ever complete autho...

How do biological systems escape 'chaotic' state?

Indian Academy of Sciences (India)

B J Rao

2018-02-13

Feb 13, 2018 ... Lorencova 2016), sociology, physics, computer science, economics and even biology ... dynamic complexity associated with them at multiple levels? .... Social anthropology and the science of chaos (Oxford: Berghahn Books).

Biological sciences teaching undergraduates’ environmental knowledge: a critical analysis

Directory of Open Access Journals (Sweden)

Silvana do Nascimento Silva

2013-12-01

Full Text Available Nowadays, environmental issues have been addressed in a way that goes beyond the natural impacts, embracing socio-economic, political and cultural aspects. This paper makes a description of the types of environmental conceptions, giving special emphasis to the interactions that permeate it, and develops an empirical work by analyzing the conceptions about the environmental knowledge of students majoring in a teacher preparation course on biological sciences of a university in the State of Bahia, Brazil. In a qualitative research, data were collected by application of a questionnaire with open questions with answers in text and drawings. The results revealed a predominance of naturalistic conceptions, while socio-environmental conceptions of systemic or socio-metabolic characteristics were not found. These findings lead to the need for the integration of these critical approaches about the environmental issue in Sciences and Biology teachers’ training, emphasizing the interactions between work, nature and society. Finally, some suggestions also emerge for future research, among which to analyze the biological sciences university teachers’ environmental conceptions and an action-research with these investigated undergraduates concerning environmental critical approaches.

Arguing for Computer Science in the School Curriculum

Science.gov (United States)

Fluck, Andrew; Webb, Mary; Cox, Margaret; Angeli, Charoula; Malyn-Smith, Joyce; Voogt, Joke; Zagami, Jason

2016-01-01

Computer science has been a discipline for some years, and its position in the school curriculum has been contested differently in several countries. This paper looks at its role in three countries to illustrate these differences. A reconsideration of computer science as a separate subject both in primary and secondary education is suggested. At…

Life sciences and environmental sciences

Energy Technology Data Exchange (ETDEWEB)

1992-02-01

The DOE laboratories play a unique role in bringing multidisciplinary talents -- in biology, physics, chemistry, computer sciences, and engineering -- to bear on major problems in the life and environmental sciences. Specifically, the laboratories utilize these talents to fulfill OHER's mission of exploring and mitigating the health and environmental effects of energy use, and of developing health and medical applications of nuclear energy-related phenomena. At Lawrence Berkeley Laboratory (LBL) support of this mission is evident across the spectrum of OHER-sponsored research, especially in the broad areas of genomics, structural biology, basic cell and molecular biology, carcinogenesis, energy and environment, applications to biotechnology, and molecular, nuclear and radiation medicine. These research areas are briefly described.

Life sciences and environmental sciences

Energy Technology Data Exchange (ETDEWEB)

1992-02-01

The DOE laboratories play a unique role in bringing multidisciplinary talents -- in biology, physics, chemistry, computer sciences, and engineering -- to bear on major problems in the life and environmental sciences. Specifically, the laboratories utilize these talents to fulfill OHER`s mission of exploring and mitigating the health and environmental effects of energy use, and of developing health and medical applications of nuclear energy-related phenomena. At Lawrence Berkeley Laboratory (LBL) support of this mission is evident across the spectrum of OHER-sponsored research, especially in the broad areas of genomics, structural biology, basic cell and molecular biology, carcinogenesis, energy and environment, applications to biotechnology, and molecular, nuclear and radiation medicine. These research areas are briefly described.

World Congress on Engineering and Computer Science 2014

CERN Document Server

Amouzegar, Mahyar; Ao, Sio-long

2015-01-01

This volume contains thirty-nine revised and extended research articles, written by prominent researchers participating in the World Congress on Engineering and Computer Science 2014, held in San Francisco, October 22-24 2014. Topics covered include engineering mathematics, electrical engineering, circuit design, communications systems, computer science, chemical engineering, systems engineering, and applications of engineering science in industry. This book describes some significant advances in engineering technologies, and also serves as an excellent source of reference for researchers and graduate students.

Women in computer science: An interpretative phenomenological analysis exploring common factors contributing to women's selection and persistence in computer science as an academic major

Science.gov (United States)

Thackeray, Lynn Roy

The purpose of this study is to understand the meaning that women make of the social and cultural factors that influence their reasons for entering and remaining in study of computer science. The twenty-first century presents many new challenges in career development and workforce choices for both men and women. Information technology has become the driving force behind many areas of the economy. As this trend continues, it has become essential that U.S. citizens need to pursue a career in technologies, including the computing sciences. Although computer science is a very lucrative profession, many Americans, especially women, are not choosing it as a profession. Recent studies have shown no significant differences in math, technical and science competency between men and women. Therefore, other factors, such as social, cultural, and environmental influences seem to affect women's decisions in choosing an area of study and career choices. A phenomenological method of qualitative research was used in this study, based on interviews of seven female students who are currently enrolled in a post-secondary computer science program. Their narratives provided meaning into the social and cultural environments that contribute to their persistence in their technical studies, as well as identifying barriers and challenges that are faced by female students who choose to study computer science. It is hoped that the data collected from this study may provide recommendations for the recruiting, retention and support for women in computer science departments of U.S. colleges and universities, and thereby increase the numbers of women computer scientists in industry. Keywords: gender access, self-efficacy, culture, stereotypes, computer education, diversity.

Programmers, professors, and parasites: credit and co-authorship in computer science.

Science.gov (United States)

Solomon, Justin

2009-12-01

This article presents an in-depth analysis of past and present publishing practices in academic computer science to suggest the establishment of a more consistent publishing standard. Historical precedent for academic publishing in computer science is established through the study of anecdotes as well as statistics collected from databases of published computer science papers. After examining these facts alongside information about analogous publishing situations and standards in other scientific fields, the article concludes with a list of basic principles that should be adopted in any computer science publishing standard. These principles would contribute to the reliability and scientific nature of academic publications in computer science and would allow for more straightforward discourse in future publications.

RISE OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY IN INDIA: A LOOK THROUGH PUBLICATIONS

Directory of Open Access Journals (Sweden)

Anjali Srivastava

2017-09-01

Full Text Available Computational biology and bioinformatics have been part and parcel of biomedical research for few decades now. However, the institutionalization of bioinformatics research took place with the establishment of Distributed Information Centres (DISCs in the research institutions of repute in various disciplines by the Department of Biotechnology, Government of India. Though, at initial stages, this endeavor was mainly focused on providing infrastructure for using information technology and internet based communication and tools for carrying out computational biology and in-silico assisted research in varied arena of research starting from disease biology to agricultural crops, spices, veterinary science and many more, the natural outcome of establishment of such facilities resulted into new experiments with bioinformatics tools. Thus, Biotechnology Information Systems (BTIS grew into a solid movement and a large number of publications started coming out of these centres. In the end of last century, bioinformatics started developing like a full-fledged research subject. In the last decade, a need was felt to actually make a factual estimation of the result of this endeavor of DBT which had, by then, established about two hundred centres in almost all disciplines of biomedical research. In a bid to evaluate the efforts and outcome of these centres, BTIS Centre at CSIR-CDRI, Lucknow was entrusted with collecting and collating the publications of these centres. However, when the full data was compiled, the DBT task force felt that the study must include Non-BTIS centres also so as to expand the report to have a glimpse of bioinformatics publications from the country.

Building confidence: an exploration of nurses undertaking a postgraduate biological science course.

Science.gov (United States)

Van Wissen, Kim; McBride-Henry, Karen

2010-01-01

This study aimed to explore the impact of studying biological science at a postgraduate level and how this impacted on nursing practice. The term biological sciences in this research encompasses elements of physiology, genetics, biochemistry and pathophysiology. A qualitative research study was designed, that involved the dissemination of a pre- and post-course semi-structured questionnaire for a biological science course, as part of a Master of Nursing programme at a New Zealand University, thus exploring the impact of undertaking a postgraduate biological sciences course. The responses were analysed into themes, based on interpretive concepts. The primary themes revealed improvement in confidence as: confidence in communication, confidence in linking nursing theoretical knowledge to practice and confidence in clinical nursing knowledge. This study highlights the need to privilege clinically-derived nursing knowledge, and that confidence in this nursing knowledge and clinical practice can be instilled through employing the model of theory-guided practice.

From darwin to the census of marine life: marine biology as big science.

Science.gov (United States)

Vermeulen, Niki

2013-01-01

With the development of the Human Genome Project, a heated debate emerged on biology becoming 'big science'. However, biology already has a long tradition of collaboration, as natural historians were part of the first collective scientific efforts: exploring the variety of life on earth. Such mappings of life still continue today, and if field biology is gradually becoming an important subject of studies into big science, research into life in the world's oceans is not taken into account yet. This paper therefore explores marine biology as big science, presenting the historical development of marine research towards the international 'Census of Marine Life' (CoML) making an inventory of life in the world's oceans. Discussing various aspects of collaboration--including size, internationalisation, research practice, technological developments, application, and public communication--I will ask if CoML still resembles traditional collaborations to collect life. While showing both continuity and change, I will argue that marine biology is a form of natural history: a specific way of working together in biology that has transformed substantially in interaction with recent developments in the life sciences and society. As a result, the paper does not only give an overview of transformations towards large scale research in marine biology, but also shines a new light on big biology, suggesting new ways to deepen the understanding of collaboration in the life sciences by distinguishing between different 'collective ways of knowing'.

From darwin to the census of marine life: marine biology as big science.

Directory of Open Access Journals (Sweden)

Niki Vermeulen

Full Text Available With the development of the Human Genome Project, a heated debate emerged on biology becoming 'big science'. However, biology already has a long tradition of collaboration, as natural historians were part of the first collective scientific efforts: exploring the variety of life on earth. Such mappings of life still continue today, and if field biology is gradually becoming an important subject of studies into big science, research into life in the world's oceans is not taken into account yet. This paper therefore explores marine biology as big science, presenting the historical development of marine research towards the international 'Census of Marine Life' (CoML making an inventory of life in the world's oceans. Discussing various aspects of collaboration--including size, internationalisation, research practice, technological developments, application, and public communication--I will ask if CoML still resembles traditional collaborations to collect life. While showing both continuity and change, I will argue that marine biology is a form of natural history: a specific way of working together in biology that has transformed substantially in interaction with recent developments in the life sciences and society. As a result, the paper does not only give an overview of transformations towards large scale research in marine biology, but also shines a new light on big biology, suggesting new ways to deepen the understanding of collaboration in the life sciences by distinguishing between different 'collective ways of knowing'.

Notions of similarity for computational biology models

KAUST Repository

Waltemath, Dagmar

2016-03-21

Computational models used in biology are rapidly increasing in complexity, size, and numbers. To build such large models, researchers need to rely on software tools for model retrieval, model combination, and version control. These tools need to be able to quantify the differences and similarities between computational models. However, depending on the specific application, the notion of similarity may greatly vary. A general notion of model similarity, applicable to various types of models, is still missing. Here, we introduce a general notion of quantitative model similarities, survey the use of existing model comparison methods in model building and management, and discuss potential applications of model comparison. To frame model comparison as a general problem, we describe a theoretical approach to defining and computing similarities based on different model aspects. Potentially relevant aspects of a model comprise its references to biological entities, network structure, mathematical equations and parameters, and dynamic behaviour. Future similarity measures could combine these model aspects in flexible, problem-specific ways in order to mimic users\\' intuition about model similarity, and to support complex model searches in databases.

Notions of similarity for computational biology models

KAUST Repository

Waltemath, Dagmar; Henkel, Ron; Hoehndorf, Robert; Kacprowski, Tim; Knuepfer, Christian; Liebermeister, Wolfram

2016-01-01

Computational models used in biology are rapidly increasing in complexity, size, and numbers. To build such large models, researchers need to rely on software tools for model retrieval, model combination, and version control. These tools need to be able to quantify the differences and similarities between computational models. However, depending on the specific application, the notion of similarity may greatly vary. A general notion of model similarity, applicable to various types of models, is still missing. Here, we introduce a general notion of quantitative model similarities, survey the use of existing model comparison methods in model building and management, and discuss potential applications of model comparison. To frame model comparison as a general problem, we describe a theoretical approach to defining and computing similarities based on different model aspects. Potentially relevant aspects of a model comprise its references to biological entities, network structure, mathematical equations and parameters, and dynamic behaviour. Future similarity measures could combine these model aspects in flexible, problem-specific ways in order to mimic users' intuition about model similarity, and to support complex model searches in databases.

Challenges of medical and biological engineering and science

Energy Technology Data Exchange (ETDEWEB)

Magjarevic, R [University of Zagreb, Faculty of Electrical Engineering and Computing, Zagreb (Croatia)

2004-07-01

All aspects of biomedical engineering and science, from research and development, education and training, implementation in health care systems, internationalisation and globalisation, and other, new issues are present in the strategy and in action plans of the International Federation for Medical and Biological Engineering (IFMBE) which, with help of a large number of highly motivated volunteers, will stay in leading position in biomedical engineering and science.

Challenges of medical and biological engineering and science

International Nuclear Information System (INIS)

Magjarevic, R.

2004-01-01

All aspects of biomedical engineering and science, from research and development, education and training, implementation in health care systems, internationalisation and globalisation, and other, new issues are present in the strategy and in action plans of the International Federation for Medical and Biological Engineering (IFMBE) which, with help of a large number of highly motivated volunteers, will stay in leading position in biomedical engineering and science

New trends in networking, computing, e-learning, systems sciences, and engineering

CERN Document Server

Sobh, Tarek

2015-01-01

This book includes a set of rigorously reviewed world-class manuscripts addressing and detailing state-of-the-art research projects in the areas of Computer Science, Informatics, and Systems Sciences, and Engineering. It includes selected papers form the conference proceedings of the Ninth International Joint Conferences on Computer, Information, and Systems Sciences, and Engineering (CISSE 2013). Coverage includes topics in: Industrial Electronics, Technology & Automation, Telecommunications and Networking, Systems, Computing Sciences and Software Engineering, Engineering Education, Instructional Technology, Assessment, and E-learning.  • Provides the latest in a series of books growing out of the International Joint Conferences on Computer, Information, and Systems Sciences, and Engineering; • Includes chapters in the most advanced areas of Computing, Informatics, Systems Sciences, and Engineering; • Accessible to a wide range of readership, including professors, researchers, practitioners and...

Approaching Gender Parity: Women in Computer Science at Afghanistan's Kabul University

Science.gov (United States)

Plane, Jandelyn

2010-01-01

This study explores the representation of women in computer science at the tertiary level through data collected about undergraduate computer science education at Kabul University in Afghanistan. Previous studies have theorized reasons for underrepresentation of women in computer science, and while many of these reasons are indeed present in…

Meta!Blast computer game: a pipeline from science to 3D art to education

Science.gov (United States)

Schneller, William; Campbell, P. J.; Bassham, Diane; Wurtele, Eve Syrkin

2012-03-01

Meta!Blast (http://www.metablast.org) is designed to address the challenges students often encounter in understanding cell and metabolic biology. Developed by faculty and students in biology, biochemistry, computer science, game design, pedagogy, art and story, Meta!Blast is being created using Maya (http://usa.autodesk.com/maya/) and the Unity 3D (http://unity3d.com/) game engine, for Macs and PCs in classrooms; it has also been exhibited in an immersive environment. Here, we describe the pipeline from protein structural data and holographic information to art to the threedimensional (3D) environment to the game engine, by which we provide a publicly-available interactive 3D cellular world that mimics a photosynthetic plant cell.

2012 International Conference on Teaching and Computational Science (ICTCS 2012)

CERN Document Server

Advanced Technology in Teaching

2013-01-01

2012 International Conference on Teaching and Computational Science (ICTCS 2012) is held on April 1-2, 2012, Macao.   This volume contains 120 selected papers presented at 2012 International Conference on Teaching and Computational Science (ICTCS 2012), which is to bring together researchers working in many different areas of teaching and computational Science to foster international collaborations and exchange of new ideas.   This volume book can be divided into two sections on the basis of the classification of manuscripts considered. The first section deals with teaching. The second section of this volume consists of computational Science.   We hope that all the papers here published can benefit you in the related researching fields.

77 FR 4568 - Annual Computational Science Symposium; Public Conference

Science.gov (United States)

2012-01-30

...] Annual Computational Science Symposium; Public Conference AGENCY: Food and Drug Administration, HHS... with the Pharmaceutical Users Software Exchange (PhUSE), is announcing a public conference entitled ``The FDA/PhUSE Annual Computational Science Symposium.'' The purpose of the conference is to help the...

6th International Conference on Computer Science and its Applications

CERN Document Server

Stojmenovic, Ivan; Jeong, Hwa; Yi, Gangman

2015-01-01

The 6th FTRA International Conference on Computer Science and its Applications (CSA-14) will be held in Guam, USA, Dec. 17 - 19, 2014. CSA-14 presents a comprehensive conference focused on the various aspects of advances in engineering systems in computer science, and applications, including ubiquitous computing, U-Health care system, Big Data, UI/UX for human-centric computing, Computing Service, Bioinformatics and Bio-Inspired Computing and will show recent advances on various aspects of computing technology, Ubiquitous Computing Services and its application.

30th International Symposium on Computer and Information Sciences

CERN Document Server

Gelenbe, Erol; Gorbil, Gokce; Lent, Ricardo

2016-01-01

The 30th Anniversary of the ISCIS (International Symposium on Computer and Information Sciences) series of conferences, started by Professor Erol Gelenbe at Bilkent University, Turkey, in 1986, will be held at Imperial College London on September 22-24, 2015. The preceding two ISCIS conferences were held in Krakow, Poland in 2014, and in Paris, France, in 2013.   The Proceedings of ISCIS 2015 published by Springer brings together rigorously reviewed contributions from leading international experts. It explores new areas of research and technological development in computer science, computer engineering, and information technology, and presents new applications in fast changing fields such as information science, computer science and bioinformatics.   The topics covered include (but are not limited to) advances in networking technologies, software defined networks, distributed systems and the cloud, security in the Internet of Things, sensor systems, and machine learning and large data sets.

Report on Computing and Networking in the Space Science Laboratory by the SSL Computer Committee

Science.gov (United States)

Gallagher, D. L. (Editor)

1993-01-01

The Space Science Laboratory (SSL) at Marshall Space Flight Center is a multiprogram facility. Scientific research is conducted in four discipline areas: earth science and applications, solar-terrestrial physics, astrophysics, and microgravity science and applications. Representatives from each of these discipline areas participate in a Laboratory computer requirements committee, which developed this document. The purpose is to establish and discuss Laboratory objectives for computing and networking in support of science. The purpose is also to lay the foundation for a collective, multiprogram approach to providing these services. Special recognition is given to the importance of the national and international efforts of our research communities toward the development of interoperable, network-based computer applications.

The Information Science Experiment System - The computer for science experiments in space

Science.gov (United States)

Foudriat, Edwin C.; Husson, Charles

1989-01-01

The concept of the Information Science Experiment System (ISES), potential experiments, and system requirements are reviewed. The ISES is conceived as a computer resource in space whose aim is to assist computer, earth, and space science experiments, to develop and demonstrate new information processing concepts, and to provide an experiment base for developing new information technology for use in space systems. The discussion covers system hardware and architecture, operating system software, the user interface, and the ground communication link.

Brains--Computers--Machines: Neural Engineering in Science Classrooms

Science.gov (United States)

Chudler, Eric H.; Bergsman, Kristen Clapper

2016-01-01

Neural engineering is an emerging field of high relevance to students, teachers, and the general public. This feature presents online resources that educators and scientists can use to introduce students to neural engineering and to integrate core ideas from the life sciences, physical sciences, social sciences, computer science, and engineering…

Computer algebra applications

International Nuclear Information System (INIS)

Calmet, J.

1982-01-01

A survey of applications based either on fundamental algorithms in computer algebra or on the use of a computer algebra system is presented. Recent work in biology, chemistry, physics, mathematics and computer science is discussed. In particular, applications in high energy physics (quantum electrodynamics), celestial mechanics and general relativity are reviewed. (Auth.)

The science of computing shaping a discipline

CERN Document Server

Tedre, Matti

2014-01-01

The identity of computing has been fiercely debated throughout its short history. Why is it still so hard to define computing as an academic discipline? Is computing a scientific, mathematical, or engineering discipline? By describing the mathematical, engineering, and scientific traditions of computing, The Science of Computing: Shaping a Discipline presents a rich picture of computing from the viewpoints of the field's champions. The book helps readers understand the debates about computing as a discipline. It explains the context of computing's central debates and portrays a broad perspecti

The impact of an introductory college-level biology class on biology self-efficacy and attitude towards science

Science.gov (United States)

Thomas, Megan Elizabeth

Self-efficacy theory was first introduced in a seminal article by Albert Bandura in 1977 entitled "Self-efficacy: Toward a unifying theory of behavioral change". Since its original introduction, self-efficacy has been a major focus of academic performance, anxiety, career development, and teacher retention research. Self-efficacy can be defined as the belief an individual possesses about their ability to perform a given task. Bandura proposed that self-efficacy should be measured at the highest level of specificity due to the fact that different people are efficacious in different areas. Interested in students' efficacy toward biology, Ebert-May, Baldwin, & Allred (1997) created and validated a survey to measure students' biology self-efficacy. Their survey was modeled after the guidelines for science literacy, and loaded to three sub-factors; methods of biology, generalization to other science courses, and application of the concepts. As self-efficacy theory has been related to effort expenditure and persistence (Bandura, 1977; 1997), one might think it would have some effect on students' attitudes toward the topic at hand. The current research investigated what changes in biology self-efficacy occurred after an introductory biology course with an inquiry based laboratory learning environment. In addition, changes in students' attitudes towards science were explored and how self-efficacy might affect them.

Emerging Trends in Computing, Informatics, Systems Sciences, and Engineering

CERN Document Server

Elleithy, Khaled

2013-01-01

Emerging Trends in Computing, Informatics, Systems Sciences, and Engineering includes a set of rigorously reviewed world-class manuscripts addressing and detailing state-of-the-art research projects in the areas of  Industrial Electronics, Technology & Automation, Telecommunications and Networking, Systems, Computing Sciences and Software Engineering, Engineering Education, Instructional Technology, Assessment, and E-learning. This book includes the proceedings of the International Joint Conferences on Computer, Information, and Systems Sciences, and Engineering (CISSE 2010). The proceedings are a set of rigorously reviewed world-class manuscripts presenting the state of international practice in Innovative Algorithms and Techniques in Automation, Industrial Electronics and Telecommunications.

Structure, function, and behaviour of computational models in systems biology.

Science.gov (United States)

Knüpfer, Christian; Beckstein, Clemens; Dittrich, Peter; Le Novère, Nicolas

2013-05-31

Systems Biology develops computational models in order to understand biological phenomena. The increasing number and complexity of such "bio-models" necessitate computer support for the overall modelling task. Computer-aided modelling has to be based on a formal semantic description of bio-models. But, even if computational bio-models themselves are represented precisely in terms of mathematical expressions their full meaning is not yet formally specified and only described in natural language. We present a conceptual framework - the meaning facets - which can be used to rigorously specify the semantics of bio-models. A bio-model has a dual interpretation: On the one hand it is a mathematical expression which can be used in computational simulations (intrinsic meaning). On the other hand the model is related to the biological reality (extrinsic meaning). We show that in both cases this interpretation should be performed from three perspectives: the meaning of the model's components (structure), the meaning of the model's intended use (function), and the meaning of the model's dynamics (behaviour). In order to demonstrate the strengths of the meaning facets framework we apply it to two semantically related models of the cell cycle. Thereby, we make use of existing approaches for computer representation of bio-models as much as possible and sketch the missing pieces. The meaning facets framework provides a systematic in-depth approach to the semantics of bio-models. It can serve two important purposes: First, it specifies and structures the information which biologists have to take into account if they build, use and exchange models. Secondly, because it can be formalised, the framework is a solid foundation for any sort of computer support in bio-modelling. The proposed conceptual framework establishes a new methodology for modelling in Systems Biology and constitutes a basis for computer-aided collaborative research.

Innovations and advances in computing, informatics, systems sciences, networking and engineering

CERN Document Server

Elleithy, Khaled

2015-01-01

Innovations and Advances in Computing, Informatics, Systems Sciences, Networking and Engineering  This book includes a set of rigorously reviewed world-class manuscripts addressing and detailing state-of-the-art research projects in the areas of Computer Science, Informatics, and Systems Sciences, and Engineering. It includes selected papers from the conference proceedings of the Eighth and some selected papers of the Ninth International Joint Conferences on Computer, Information, and Systems Sciences, and Engineering (CISSE 2012 & CISSE 2013). Coverage includes topics in: Industrial Electronics, Technology & Automation, Telecommunications and Networking, Systems, Computing Sciences and Software Engineering, Engineering Education, Instructional Technology, Assessment, and E-learning.  ·       Provides the latest in a series of books growing out of the International Joint Conferences on Computer, Information, and Systems Sciences, and Engineering; ·       Includes chapters in the most a...

Mentoring Women in the Biological Sciences: Is Informatics Leading ...

Indian Academy of Sciences (India)

Yet mathematics, science, and high technology—the building blocks of informatics—are not typically consid- ... rior scientific skills but also highly ana- lytic modeling and computer science skills? The answer is twofold: ... Training, and Mentoring of Science. Communities.” Pennington, the pri- mary investigator for this project, ...

The ISCB Student Council Internship Program: Expanding computational biology capacity worldwide.

Science.gov (United States)

Anupama, Jigisha; Francescatto, Margherita; Rahman, Farzana; Fatima, Nazeefa; DeBlasio, Dan; Shanmugam, Avinash Kumar; Satagopam, Venkata; Santos, Alberto; Kolekar, Pandurang; Michaut, Magali; Guney, Emre

2018-01-01

Education and training are two essential ingredients for a successful career. On one hand, universities provide students a curriculum for specializing in one's field of study, and on the other, internships complement coursework and provide invaluable training experience for a fruitful career. Consequently, undergraduates and graduates are encouraged to undertake an internship during the course of their degree. The opportunity to explore one's research interests in the early stages of their education is important for students because it improves their skill set and gives their career a boost. In the long term, this helps to close the gap between skills and employability among students across the globe and balance the research capacity in the field of computational biology. However, training opportunities are often scarce for computational biology students, particularly for those who reside in less-privileged regions. Aimed at helping students develop research and academic skills in computational biology and alleviating the divide across countries, the Student Council of the International Society for Computational Biology introduced its Internship Program in 2009. The Internship Program is committed to providing access to computational biology training, especially for students from developing regions, and improving competencies in the field. Here, we present how the Internship Program works and the impact of the internship opportunities so far, along with the challenges associated with this program.

The ISCB Student Council Internship Program: Expanding computational biology capacity worldwide.

Directory of Open Access Journals (Sweden)

Jigisha Anupama

2018-01-01

Full Text Available Education and training are two essential ingredients for a successful career. On one hand, universities provide students a curriculum for specializing in one's field of study, and on the other, internships complement coursework and provide invaluable training experience for a fruitful career. Consequently, undergraduates and graduates are encouraged to undertake an internship during the course of their degree. The opportunity to explore one's research interests in the early stages of their education is important for students because it improves their skill set and gives their career a boost. In the long term, this helps to close the gap between skills and employability among students across the globe and balance the research capacity in the field of computational biology. However, training opportunities are often scarce for computational biology students, particularly for those who reside in less-privileged regions. Aimed at helping students develop research and academic skills in computational biology and alleviating the divide across countries, the Student Council of the International Society for Computational Biology introduced its Internship Program in 2009. The Internship Program is committed to providing access to computational biology training, especially for students from developing regions, and improving competencies in the field. Here, we present how the Internship Program works and the impact of the internship opportunities so far, along with the challenges associated with this program.

Academic computer science and gender: A naturalistic study investigating the causes of attrition

Science.gov (United States)

Declue, Timothy Hall

Far fewer women than men take computer science classes in high school, enroll in computer science programs in college, or complete advanced degrees in computer science. The computer science pipeline begins to shrink for women even before entering college, but it is at the college level that the "brain drain" is the most evident numerically, especially in the first class taken by most computer science majors called "Computer Science 1" or CS-I. The result, for both academia and industry, is a pronounced technological gender disparity in academic and industrial computer science. The study revealed the existence of several factors influencing success in CS-I. First, and most clearly, the effect of attribution processes seemed to be quite strong. These processes tend to work against success for females and in favor of success for males. Likewise, evidence was discovered which strengthens theories related to prior experience and the perception that computer science has a culture which is hostile to females. Two unanticipated themes related to the motivation and persistence of successful computer science majors. The findings did not support the belief that females have greater logistical problems in computer science than males, or that females tend to have a different programming style than males which adversely affects the females' ability to succeed in CS-I.

Physical Computing and Its Scope--Towards a Constructionist Computer Science Curriculum with Physical Computing

Science.gov (United States)

Przybylla, Mareen; Romeike, Ralf

2014-01-01

Physical computing covers the design and realization of interactive objects and installations and allows students to develop concrete, tangible products of the real world, which arise from the learners' imagination. This can be used in computer science education to provide students with interesting and motivating access to the different topic…

Studies in Mathematics, Volume 22. Studies in Computer Science.

Science.gov (United States)

Pollack, Seymour V., Ed.

The nine articles in this collection were selected because they represent concerns central to computer science, emphasize topics of particular interest to mathematicians, and underscore the wide range of areas deeply and continually affected by computer science. The contents consist of: "Introduction" (S. V. Pollack), "The…

Novel opportunities for computational biology and sociology in drug discovery☆

Science.gov (United States)

Yao, Lixia; Evans, James A.; Rzhetsky, Andrey

2013-01-01

Current drug discovery is impossible without sophisticated modeling and computation. In this review we outline previous advances in computational biology and, by tracing the steps involved in pharmaceutical development, explore a range of novel, high-value opportunities for computational innovation in modeling the biological process of disease and the social process of drug discovery. These opportunities include text mining for new drug leads, modeling molecular pathways and predicting the efficacy of drug cocktails, analyzing genetic overlap between diseases and predicting alternative drug use. Computation can also be used to model research teams and innovative regions and to estimate the value of academy–industry links for scientific and human benefit. Attention to these opportunities could promise punctuated advance and will complement the well-established computational work on which drug discovery currently relies. PMID:20349528

Novel opportunities for computational biology and sociology in drug discovery

Science.gov (United States)

Yao, Lixia

2009-01-01

Drug discovery today is impossible without sophisticated modeling and computation. In this review we touch on previous advances in computational biology and by tracing the steps involved in pharmaceutical development, we explore a range of novel, high value opportunities for computational innovation in modeling the biological process of disease and the social process of drug discovery. These opportunities include text mining for new drug leads, modeling molecular pathways and predicting the efficacy of drug cocktails, analyzing genetic overlap between diseases and predicting alternative drug use. Computation can also be used to model research teams and innovative regions and to estimate the value of academy-industry ties for scientific and human benefit. Attention to these opportunities could promise punctuated advance, and will complement the well-established computational work on which drug discovery currently relies. PMID:19674801

A Thai pre-service teacher's understanding of nature of science in biology teaching

Science.gov (United States)

Srisawat, Akkarawat; Aiemsum-ang, Napapan; Yuenyong, Chokchai

2018-01-01

This study was conducted on the effect of understanding and instruction of the nature of science of Ms. Wanida, a pre-service student under science education program in biology, Faculty of Education, Khon Kaen University. Wanida was a teaching practicum student majoring in biology at Khon Kaen University Demonstration School (Modindaeng). She was teaching biology for 38 Grade 10 students. Methodology regarded interpretive paradigm. The study aimed to examine 1) Wanida's understanding of the nature of science, 2) Wanida's instruction of the nature of science, 3 students' understanding of the nature of science from Wanida's instruction, and 4) the effects of Wanida's understanding and instruction of the nature of science on students' understanding of the nature of science from Wanida's instruction. Tools of interpretation included teaching observation, a semi-structured interview, open-ended questionnaire, and an observation record form for the instruction of the nature of science. The data obtained was interpreted, encoded, and classified, using the descriptive statistics. The findings indicated that Wanida held good understanding of the nature of science. She could apply the deficient nature of science approach mostly, followed by the implicit nature of science approach. Unfortunately, she could not show her teaching as explicit nature of science. However, her students' the understanding of the nature of science was good.

The Impact of Agricultural Science Education on Performance in a Biology Course

Science.gov (United States)

Ernest, Byron L.

The lack of student achievement in science is often cited in U.S. educational reports. At the study site, low student achievement in science has been an ongoing concern for administrators. The purpose of this mixed methods study was to investigate the impact of agricultural science education on student performance in a Biology course. Vygotsky's constructivist theory and Gardner's multiple intelligences theory provided the framework for the study. The quantitative research question examined the relationship between the completion of Fundamentals of Agriculture Science and Business course and student performance in Biology I. Teacher perceptions and experiences regarding the integration of science and agricultural curriculum and traditional science curriculum were examined qualitatively. A sequential explanatory design was employed using 3 years of data collected from 486 high school students and interviews with 10 teachers. Point-biserial correlation and chi square tests revealed statistically significant relationships between whether or not students completed Fundamentals of Agriculture Science and Business and Biology I course performance, as measured by the end of course assessment and the course grade. In the qualitative sequence, typological and inductive data analyses were applied to the interview data, and themes of student impact and teacher experience emerged. Social change implications may be possible through improved science education for students in this program. Agriculture science courses may be used to facilitate learning of complex science concepts, designing teacher collaboration and professional development for teaching science in a relevant context, and resultant improved student performance in science.

Peculiarities of organization of project and research activity of students in computer science, physics and technology

Science.gov (United States)

Stolyarov, I. V.

2017-01-01

The author of this article manages a project and research activity of students in the areas of computer science, physics, engineering and biology, basing on the acquired experience in these fields. Pupils constantly become winners of competitions and conferences of different levels, for example, three of the finalists of Intel ISEF in 2013 in Phoenix (Arizona, USA) and in 2014 in Los Angeles (California, USA). In 2013 A. Makarychev received the "Small Nobel prize" in Computer Science section and special award sponsors - the company's CAST. Scientific themes and methods suggested by the author and developed in joint publications of students from Russia, Germany and Austria are the patents for invention and certificates for registration in the ROSPATENT. The article presents the results of the implementation of specific software and hardware systems in physics, engineering and medicine.

Innovations and Advances in Computer, Information, Systems Sciences, and Engineering

CERN Document Server

Sobh, Tarek

2013-01-01

Innovations and Advances in Computer, Information, Systems Sciences, and Engineering includes the proceedings of the International Joint Conferences on Computer, Information, and Systems Sciences, and Engineering (CISSE 2011). The contents of this book are a set of rigorously reviewed, world-class manuscripts addressing and detailing state-of-the-art research projects in the areas of  Industrial Electronics, Technology and Automation, Telecommunications and Networking, Systems, Computing Sciences and Software Engineering, Engineering Education, Instructional Technology, Assessment, and E-learning.

Synthetic Biology: Knowledge Accessed by Everyone (Open Sources)

Science.gov (United States)

Sánchez Reyes, Patricia Margarita

2016-01-01

Using the principles of biology, along with engineering and with the help of computer, scientists manage to copy. DNA sequences from nature and use them to create new organisms. DNA is created through engineering and computer science managing to create life inside a laboratory. We cannot dismiss the role that synthetic biology could lead in…

Computational protein design-the next generation tool to expand synthetic biology applications.

Science.gov (United States)

Gainza-Cirauqui, Pablo; Correia, Bruno Emanuel

2018-05-02

One powerful approach to engineer synthetic biology pathways is the assembly of proteins sourced from one or more natural organisms. However, synthetic pathways often require custom functions or biophysical properties not displayed by natural proteins, limitations that could be overcome through modern protein engineering techniques. Structure-based computational protein design is a powerful tool to engineer new functional capabilities in proteins, and it is beginning to have a profound impact in synthetic biology. Here, we review efforts to increase the capabilities of synthetic biology using computational protein design. We focus primarily on computationally designed proteins not only validated in vitro, but also shown to modulate different activities in living cells. Efforts made to validate computational designs in cells can illustrate both the challenges and opportunities in the intersection of protein design and synthetic biology. We also highlight protein design approaches, which although not validated as conveyors of new cellular function in situ, may have rapid and innovative applications in synthetic biology. We foresee that in the near-future, computational protein design will vastly expand the functional capabilities of synthetic cells. Copyright © 2018. Published by Elsevier Ltd.

Curricular Influences on Female Afterschool Facilitators' Computer Science Interests and Career Choices

Science.gov (United States)

Koch, Melissa; Gorges, Torie

2016-10-01

Underrepresented populations such as women, African-Americans, and Latinos/as often come to STEM (science, technology, engineering, and mathematics) careers by less traditional paths than White and Asian males. To better understand how and why women might shift toward STEM, particularly computer science, careers, we investigated the education and career direction of afterschool facilitators, primarily women of color in their twenties and thirties, who taught Build IT, an afterschool computer science curriculum for middle school girls. Many of these women indicated that implementing Build IT had influenced their own interest in technology and computer science and in some cases had resulted in their intent to pursue technology and computer science education. We wanted to explore the role that teaching Build IT may have played in activating or reactivating interest in careers in computer science and to see whether in the years following implementation of Build IT, these women pursued STEM education and/or careers. We reached nine facilitators who implemented the program in 2011-12 or shortly after. Many indicated that while facilitating Build IT, they learned along with the participants, increasing their interest in and confidence with technology and computer science. Seven of the nine participants pursued further STEM or computer science learning or modified their career paths to include more of a STEM or computer science focus. Through interviews, we explored what aspects of Build IT influenced these facilitators' interest and confidence in STEM and when relevant their pursuit of technology and computer science education and careers.

Approaching gender parity: Women in computer science at Afghanistan's Kabul University

Science.gov (United States)

Plane, Jandelyn

This study explores the representation of women in computer science at the tertiary level through data collected about undergraduate computer science education at Kabul University in Afghanistan. Previous studies have theorized reasons for underrepresentation of women in computer science, and while many of these reasons are indeed present in Afghanistan, they appear to hinder advancement to degree to a lesser extent. Women comprise at least 36% of each graduating class from KU's Computer Science Department; however, in 2007 women were 25% of the university population. In the US, women comprise over 50% of university populations while only graduating on average 25% women in undergraduate computer science programs. Representation of women in computer science in the US is 50% below the university rate, but at KU, it is 50% above the university rate. This mixed methods study of KU was conducted in the following three stages: setting up focus groups with women computer science students, distributing surveys to all students in the CS department, and conducting a series of 22 individual interviews with fourth year CS students. The analysis of the data collected and its comparison to literature on university/department retention in Science, Technology, Engineering and Mathematics gender representation and on women's education in underdeveloped Islamic countries illuminates KU's uncharacteristic representation of women in its Computer Science Department. The retention of women in STEM through the education pipeline has several characteristics in Afghanistan that differ from countries often studied in available literature. Few Afghan students have computers in their home and few have training beyond secretarial applications before considering studying CS at university. University students in Afghanistan are selected based on placement exams and are then assigned to an area of study, and financially supported throughout their academic career, resulting in a low attrition rate

Making Science Work.

Science.gov (United States)

Thomas, Lewis

1981-01-01

Presents a viewpoint concerning the impact of recent scientific advances on society. Discusses biological discoveries, space exploration, computer technology, development of new astronomical theories, the behavioral sciences, and basic research. Challenges to keeping science current with technological advancement are also discussed. (DS)

Reproductive science as an essential component of conservation biology.

Science.gov (United States)

Holt, William V; Brown, Janine L; Comizzoli, Pierre

2014-01-01

In this chapter we argue that reproductive science in its broadest sense has never been more important in terms of its value to conservation biology, which itself is a synthetic and multidisciplinary topic. Over recent years the place of reproductive science in wildlife conservation has developed massively across a wide and integrated range of cutting edge topics. We now have unprecedented insight into the way that environmental change affects basic reproductive functions such as ovulation, sperm production, pregnancy and embryo development through previously unsuspected influences such as epigenetic modulation of the genome. Environmental change in its broadest sense alters the quality of foodstuffs that all animals need for reproductive success, changes the synchrony between breeding seasons and reproductive events, perturbs gonadal and embryo development through the presence of pollutants in the environment and drives species to adapt their behaviour and phenotype. In this book we explore many aspects of reproductive science and present wide ranging and up to date accounts of the scientific and technological advances that are currently enabling reproductive science to support conservation biology.

Mathematics for engineering, technology and computing science

CERN Document Server

Martin, Hedley G

1970-01-01

Mathematics for Engineering, Technology and Computing Science is a text on mathematics for courses in engineering, technology, and computing science. It covers linear algebra, ordinary differential equations, and vector analysis, together with line and multiple integrals. This book consists of eight chapters and begins with a discussion on determinants and linear equations, with emphasis on how the value of a determinant is defined and how it may be obtained. Solution of linear equations and the dependence between linear equations are also considered. The next chapter introduces the reader to

From computer to brain foundations of computational neuroscience

CERN Document Server

Lytton, William W

2002-01-01

Biology undergraduates, medical students and life-science graduate students often have limited mathematical skills. Similarly, physics, math and engineering students have little patience for the detailed facts that make up much of biological knowledge. Teaching computational neuroscience as an integrated discipline requires that both groups be brought forward onto common ground. This book does this by making ancillary material available in an appendix and providing basic explanations without becoming bogged down in unnecessary details. The book will be suitable for undergraduates and beginning graduate students taking a computational neuroscience course and also to anyone with an interest in the uses of the computer in modeling the nervous system.

Annual report of R and D activities in Center for Computational Science and e-Systems from April 1, 2006 to March 31, 2007

International Nuclear Information System (INIS)

2008-03-01

This report provides an overview of the research and development activities of the Center for Computational Science and e-Systems (CCSE), JAEA in fiscal year 2006 (April 1, 2006 - March 31, 2007). These research and development activities have been performed by the Simulation Technology Research and Development Office and the Computer Science Research and Development Office. The primary results of the research and development activities are the development of simulation techniques for a virtual earthquake testbed, an intelligent infrastructure for atomic energy research, computational biological disciplines to predict DNA repair function of protein, and material models for a neutron detection device, crack propagation, and gas bubble formation in nuclear fuel. (author)

[Research activities in applied mathematics, fluid mechanics, and computer science

Science.gov (United States)

1995-01-01

This report summarizes research conducted at the Institute for Computer Applications in Science and Engineering in applied mathematics, fluid mechanics, and computer science during the period April 1, 1995 through September 30, 1995.

Journal of Computer Science and Its Application: About this journal

African Journals Online (AJOL)

Journal of Computer Science and Its Application: About this journal. Journal Home > Journal of Computer Science and Its Application: About this journal. Log in or Register to get access to full text downloads.

Using spatial principles to optimize distributed computing for enabling the physical science discoveries.

Science.gov (United States)

Yang, Chaowei; Wu, Huayi; Huang, Qunying; Li, Zhenlong; Li, Jing

2011-04-05

Contemporary physical science studies rely on the effective analyses of geographically dispersed spatial data and simulations of physical phenomena. Single computers and generic high-end computing are not sufficient to process the data for complex physical science analysis and simulations, which can be successfully supported only through distributed computing, best optimized through the application of spatial principles. Spatial computing, the computing aspect of a spatial cyberinfrastructure, refers to a computing paradigm that utilizes spatial principles to optimize distributed computers to catalyze advancements in the physical sciences. Spatial principles govern the interactions between scientific parameters across space and time by providing the spatial connections and constraints to drive the progression of the phenomena. Therefore, spatial computing studies could better position us to leverage spatial principles in simulating physical phenomena and, by extension, advance the physical sciences. Using geospatial science as an example, this paper illustrates through three research examples how spatial computing could (i) enable data intensive science with efficient data/services search, access, and utilization, (ii) facilitate physical science studies with enabling high-performance computing capabilities, and (iii) empower scientists with multidimensional visualization tools to understand observations and simulations. The research examples demonstrate that spatial computing is of critical importance to design computing methods to catalyze physical science studies with better data access, phenomena simulation, and analytical visualization. We envision that spatial computing will become a core technology that drives fundamental physical science advancements in the 21st century.

Enduring Influence of Stereotypical Computer Science Role Models on Women's Academic Aspirations

Science.gov (United States)

Cheryan, Sapna; Drury, Benjamin J.; Vichayapai, Marissa

2013-01-01

The current work examines whether a brief exposure to a computer science role model who fits stereotypes of computer scientists has a lasting influence on women's interest in the field. One-hundred undergraduate women who were not computer science majors met a female or male peer role model who embodied computer science stereotypes in appearance…

High Performance Computing in Science and Engineering '14

CERN Document Server

Kröner, Dietmar; Resch, Michael

2015-01-01

This book presents the state-of-the-art in supercomputer simulation. It includes the latest findings from leading researchers using systems from the High Performance Computing Center Stuttgart (HLRS). The reports cover all fields of computational science and engineering ranging from CFD to computational physics and from chemistry to computer science with a special emphasis on industrially relevant applications. Presenting findings of one of Europe’s leading systems, this volume covers a wide variety of applications that deliver a high level of sustained performance. The book covers the main methods in high-performance computing. Its outstanding results in achieving the best performance for production codes are of particular interest for both scientists and   engineers. The book comes with a wealth of color illustrations and tables of results.  

Computer Science and the Liberal Arts: A Philosophical Examination

Science.gov (United States)

Walker, Henry M.; Kelemen, Charles

2010-01-01

This article explores the philosophy and position of the discipline of computer science within the liberal arts, based upon a discussion of the nature of computer science and a review of the characteristics of the liberal arts. A liberal arts environment provides important opportunities for undergraduate programs, but also presents important…

Decomposing dendrophilia. Comment on “Toward a computational framework for cognitive biology: Unifying approaches from cognitive neuroscience and comparative cognition” by W. Tecumseh Fitch

Science.gov (United States)

Honing, Henkjan; Zuidema, Willem

2014-09-01

The future of cognitive science will be about bridging neuroscience and behavioral studies, with essential roles played by comparative biology, formal modeling, and the theory of computation. Nowhere will this integration be more strongly needed than in understanding the biological basis of language and music. We thus strongly sympathize with the general framework that Fitch [1] proposes, and welcome the remarkably broad and readable review he presents to support it.

Computer science and operations research

CERN Document Server

Balci, Osman

1992-01-01

The interface of Operation Research and Computer Science - although elusive to a precise definition - has been a fertile area of both methodological and applied research. The papers in this book, written by experts in their respective fields, convey the current state-of-the-art in this interface across a broad spectrum of research domains which include optimization techniques, linear programming, interior point algorithms, networks, computer graphics in operations research, parallel algorithms and implementations, planning and scheduling, genetic algorithms, heuristic search techniques and dat

Computer science education for medical informaticians.

Science.gov (United States)

Logan, Judith R; Price, Susan L

2004-03-18

The core curriculum in the education of medical informaticians remains a topic of concern and discussion. This paper reports on a survey of medical informaticians with Master's level credentials that asked about computer science (CS) topics or skills that they need in their employment. All subjects were graduates or "near-graduates" of a single medical informatics Master's program that they entered with widely varying educational backgrounds. The survey instrument was validated for face and content validity prior to use. All survey items were rated as having some degree of importance in the work of these professionals, with retrieval and analysis of data from databases, database design and web technologies deemed most important. Least important were networking skills and object-oriented design and concepts. These results are consistent with other work done in the field and suggest that strong emphasis on technical skills, particularly databases, data analysis, web technologies, computer programming and general computer science are part of the core curriculum for medical informatics.

Is Computer Science Compatible with Technological Literacy?

Science.gov (United States)

Buckler, Chris; Koperski, Kevin; Loveland, Thomas R.

2018-01-01

Although technology education evolved over time, and pressure increased to infuse more engineering principles and increase links to STEM (science technology, engineering, and mathematics) initiatives, there has never been an official alignment between technology and engineering education and computer science. There is movement at the federal level…

Cognitive computing and eScience in health and life science research: artificial intelligence and obesity intervention programs.

Science.gov (United States)

Marshall, Thomas; Champagne-Langabeer, Tiffiany; Castelli, Darla; Hoelscher, Deanna

2017-12-01

To present research models based on artificial intelligence and discuss the concept of cognitive computing and eScience as disruptive factors in health and life science research methodologies. The paper identifies big data as a catalyst to innovation and the development of artificial intelligence, presents a framework for computer-supported human problem solving and describes a transformation of research support models. This framework includes traditional computer support; federated cognition using machine learning and cognitive agents to augment human intelligence; and a semi-autonomous/autonomous cognitive model, based on deep machine learning, which supports eScience. The paper provides a forward view of the impact of artificial intelligence on our human-computer support and research methods in health and life science research. By augmenting or amplifying human task performance with artificial intelligence, cognitive computing and eScience research models are discussed as novel and innovative systems for developing more effective adaptive obesity intervention programs.

The Case for Improving U.S. Computer Science Education

Science.gov (United States)

Nager, Adams; Atkinson, Robert

2016-01-01

Despite the growing use of computers and software in every facet of our economy, not until recently has computer science education begun to gain traction in American school systems. The current focus on improving science, technology, engineering, and mathematics (STEM) education in the U.S. School system has disregarded differences within STEM…

Stateless Programming as a Motif for Teaching Computer Science

Science.gov (United States)

Cohen, Avi

2004-01-01

With the development of XML Web Services, the Internet could become an integral part of and the basis for teaching computer science and software engineering. The approach has been applied to a university course for students studying introduction to computer science from the point of view of software development in a stateless, Internet…

A comprehensive approach to decipher biological computation to achieve next generation high-performance exascale computing.

Energy Technology Data Exchange (ETDEWEB)

James, Conrad D.; Schiess, Adrian B.; Howell, Jamie; Baca, Michael J.; Partridge, L. Donald; Finnegan, Patrick Sean; Wolfley, Steven L.; Dagel, Daryl James; Spahn, Olga Blum; Harper, Jason C.; Pohl, Kenneth Roy; Mickel, Patrick R.; Lohn, Andrew; Marinella, Matthew

2013-10-01

The human brain (volume=1200cm3) consumes 20W and is capable of performing > 10^16 operations/s. Current supercomputer technology has reached 1015 operations/s, yet it requires 1500m^3 and 3MW, giving the brain a 10^12 advantage in operations/s/W/cm^3. Thus, to reach exascale computation, two achievements are required: 1) improved understanding of computation in biological tissue, and 2) a paradigm shift towards neuromorphic computing where hardware circuits mimic properties of neural tissue. To address 1), we will interrogate corticostriatal networks in mouse brain tissue slices, specifically with regard to their frequency filtering capabilities as a function of input stimulus. To address 2), we will instantiate biological computing characteristics such as multi-bit storage into hardware devices with future computational and memory applications. Resistive memory devices will be modeled, designed, and fabricated in the MESA facility in consultation with our internal and external collaborators.

Scientific Grand Challenges: Challenges in Climate Change Science and the Role of Computing at the Extreme Scale

Energy Technology Data Exchange (ETDEWEB)

Khaleel, Mohammad A.; Johnson, Gary M.; Washington, Warren M.

2009-07-02

The U.S. Department of Energy (DOE) Office of Biological and Environmental Research (BER) in partnership with the Office of Advanced Scientific Computing Research (ASCR) held a workshop on the challenges in climate change science and the role of computing at the extreme scale, November 6-7, 2008, in Bethesda, Maryland. At the workshop, participants identified the scientific challenges facing the field of climate science and outlined the research directions of highest priority that should be pursued to meet these challenges. Representatives from the national and international climate change research community as well as representatives from the high-performance computing community attended the workshop. This group represented a broad mix of expertise. Of the 99 participants, 6 were from international institutions. Before the workshop, each of the four panels prepared a white paper, which provided the starting place for the workshop discussions. These four panels of workshop attendees devoted to their efforts the following themes: Model Development and Integrated Assessment; Algorithms and Computational Environment; Decadal Predictability and Prediction; Data, Visualization, and Computing Productivity. The recommendations of the panels are summarized in the body of this report.

The Virtual Institute for Integrative Biology (VIIB)

International Nuclear Information System (INIS)

Rivera, G.; Gonzalez-Nieto, F.; Perez-Acle, T.; Isea, R.; Holmes, D. S.

2007-01-01

The Virtual Institute for Integrative Biology (VII B) is a Latin American initiative for achieving global collaborative e-Science in the areas of bioinformatics, genome biology, systems biology, Metagenomic, medical applications and nanobiotechnolgy. The scientific agenda of VIIB includes: construction of databases for comparative genomic, the AlterORF database for alternate open reading frames discovery in genomes, bioinformatics services and protein simulations for biotechnological and medical applications. Human resource development has been promoted through co-sponsored students and shared teaching and seminars via video conferencing. E-Science challenges include: inter operability and connectivity concerns, high performance computing limitations, and the development of customized computational frameworks and flexible work flows to efficiently exploit shared resources without causing impediments to the user. Outreach programs include training workshops and classes for high school teachers and students and the new Adopt-a-Gene initiative. The VIIB has proved an effective way for small teams to transcend the critical mass problem, to overcome geographic limitations, to harness the power of large scale, collaborative science and improve the visibility of Latin American science It may provide a useful paradigm for developing further e-Science initiatives in Latin America and other emerging regions. (Author)

Reconstruction of biological networks based on life science data integration.

Science.gov (United States)

Kormeier, Benjamin; Hippe, Klaus; Arrigo, Patrizio; Töpel, Thoralf; Janowski, Sebastian; Hofestädt, Ralf

2010-10-27

For the implementation of the virtual cell, the fundamental question is how to model and simulate complex biological networks. Therefore, based on relevant molecular database and information systems, biological data integration is an essential step in constructing biological networks. In this paper, we will motivate the applications BioDWH--an integration toolkit for building life science data warehouses, CardioVINEdb--a information system for biological data in cardiovascular-disease and VANESA--a network editor for modeling and simulation of biological networks. Based on this integration process, the system supports the generation of biological network models. A case study of a cardiovascular-disease related gene-regulated biological network is also presented.

Converting differential-equation models of biological systems to membrane computing.

Science.gov (United States)

Muniyandi, Ravie Chandren; Zin, Abdullah Mohd; Sanders, J W

2013-12-01

This paper presents a method to convert the deterministic, continuous representation of a biological system by ordinary differential equations into a non-deterministic, discrete membrane computation. The dynamics of the membrane computation is governed by rewrite rules operating at certain rates. That has the advantage of applying accurately to small systems, and to expressing rates of change that are determined locally, by region, but not necessary globally. Such spatial information augments the standard differentiable approach to provide a more realistic model. A biological case study of the ligand-receptor network of protein TGF-β is used to validate the effectiveness of the conversion method. It demonstrates the sense in which the behaviours and properties of the system are better preserved in the membrane computing model, suggesting that the proposed conversion method may prove useful for biological systems in particular. Copyright © 2013 Elsevier Ireland Ltd. All rights reserved.

A DDC Bibliography on Computers in Information Sciences. Volume II. Information Sciences Series.

Science.gov (United States)

Defense Documentation Center, Alexandria, VA.

The unclassified and unlimited bibliography compiles references dealing specifically with the role of computers in information sciences. The volume contains 239 annotated references grouped under three major headings: Artificial and Programming Languages, Computer Processing of Analog Data, and Computer Processing of Digital Data. The references…

Chinese Herbal Medicine Meets Biological Networks of Complex Diseases: A Computational Perspective

OpenAIRE

Shuo Gu; Jianfeng Pei

2017-01-01

With the rapid development of cheminformatics, computational biology, and systems biology, great progress has been made recently in the computational research of Chinese herbal medicine with in-depth understanding towards pharmacognosy. This paper summarized these studies in the aspects of computational methods, traditional Chinese medicine (TCM) compound databases, and TCM network pharmacology. Furthermore, we chose arachidonic acid metabolic network as a case study to demonstrate the regula...

Biological Evolution and the History of the Earth Are Foundations of Science

Science.gov (United States)

2008-01-01

AGU affirms the central importance of including scientific theories of Earth history and biological evolution in science education. Within the scientific community, the theory of biological evolution is not controversial, nor have ``alternative explanations'' been found. This is why no competing theories are required by the U.S. National Science Education Standards. Explanations of natural phenomena that appeal to the supernatural or are based on religious doctrine-and therefore cannot be tested through scientific inquiry-are not scientific, and have no place in the science classroom.

Combining Art and Science in "Arts and Sciences" Education

Science.gov (United States)

Needle, Andrew; Corbo, Christopher; Wong, Denise; Greenfeder, Gary; Raths, Linda; Fulop, Zoltan

2007-01-01

Two of this article's authors--an art professor and a biology professor--shared a project for advanced biology, art, nursing, and computer science majors involving scientific research that used digital imaging of the brain of the zebrafish, a newly favored laboratory animal. These contemporary and innovative teaching and learning practices were a…

Ambient belonging: how stereotypical cues impact gender participation in computer science.

Science.gov (United States)

Cheryan, Sapna; Plaut, Victoria C; Davies, Paul G; Steele, Claude M

2009-12-01

People can make decisions to join a group based solely on exposure to that group's physical environment. Four studies demonstrate that the gender difference in interest in computer science is influenced by exposure to environments associated with computer scientists. In Study 1, simply changing the objects in a computer science classroom from those considered stereotypical of computer science (e.g., Star Trek poster, video games) to objects not considered stereotypical of computer science (e.g., nature poster, phone books) was sufficient to boost female undergraduates' interest in computer science to the level of their male peers. Further investigation revealed that the stereotypical broadcast a masculine stereotype that discouraged women's sense of ambient belonging and subsequent interest in the environment (Studies 2, 3, and 4) but had no similar effect on men (Studies 3, 4). This masculine stereotype prevented women's interest from developing even in environments entirely populated by other women (Study 2). Objects can thus come to broadcast stereotypes of a group, which in turn can deter people who do not identify with these stereotypes from joining that group.

Impact of Interdisciplinary Undergraduate Research in mathematics and biology on the development of a new course integrating five STEM disciplines.

Science.gov (United States)

Caudill, Lester; Hill, April; Hoke, Kathy; Lipan, Ovidiu

2010-01-01

Funded by innovative programs at the National Science Foundation and the Howard Hughes Medical Institute, University of Richmond faculty in biology, chemistry, mathematics, physics, and computer science teamed up to offer first- and second-year students the opportunity to contribute to vibrant, interdisciplinary research projects. The result was not only good science but also good science that motivated and informed course development. Here, we describe four recent undergraduate research projects involving students and faculty in biology, physics, mathematics, and computer science and how each contributed in significant ways to the conception and implementation of our new Integrated Quantitative Science course, a course for first-year students that integrates the material in the first course of the major in each of biology, chemistry, mathematics, computer science, and physics.

Abstraction ability as an indicator of success for learning computing science?

DEFF Research Database (Denmark)

Bennedsen, Jens; Caspersen, Michael Edelgaard

2008-01-01

Computing scientists generally agree that abstract thinking is a crucial component for practicing computer science. We report on a three-year longitudinal study to confirm the hypothesis that general abstraction ability has a positive impact on performance in computing science. Abstraction ability...... is operationalized as stages of cognitive development for which validated tests exist. Performance in computing science is operationalized as grade in the final assessment of ten courses of a bachelor's degree programme in computing science. The validity of the operationalizations is discussed. We have investigated...... the positive impact overall, for two groupings of courses (a content-based grouping and a grouping based on SOLO levels of the courses' intended learning outcome), and for each individual course. Surprisingly, our study shows that there is hardly any correlation between stage of cognitive development...

Computer Science Concept Inventories: Past and Future

Science.gov (United States)

Taylor, C.; Zingaro, D.; Porter, L.; Webb, K. C.; Lee, C. B.; Clancy, M.

2014-01-01

Concept Inventories (CIs) are assessments designed to measure student learning of core concepts. CIs have become well known for their major impact on pedagogical techniques in other sciences, especially physics. Presently, there are no widely used, validated CIs for computer science. However, considerable groundwork has been performed in the form…

Parallel metaheuristics in computational biology: an asynchronous cooperative enhanced scatter search method

OpenAIRE

Penas, David R.; González, Patricia; Egea, José A.; Banga, Julio R.; Doallo, Ramón

2015-01-01

Metaheuristics are gaining increased attention as efficient solvers for hard global optimization problems arising in bioinformatics and computational systems biology. Scatter Search (SS) is one of the recent outstanding algorithms in that class. However, its application to very hard problems, like those considering parameter estimation in dynamic models of systems biology, still results in excessive computation times. In order to reduce the computational cost of the SS and improve its success...

Gravitational biology and space life sciences: Current status and ...

Indian Academy of Sciences (India)

Gravitational and space biology organizations and journals. American Institute of ... of Scientific Unions (now the International Council for. Science). COSPAR ... Greek Aerospace Medical Association & Space Research. (GASMA). Provides ...

The Virtual Cell: a software environment for computational cell biology.

Science.gov (United States)

Loew, L M; Schaff, J C

2001-10-01

The newly emerging field of computational cell biology requires software tools that address the needs of a broad community of scientists. Cell biological processes are controlled by an interacting set of biochemical and electrophysiological events that are distributed within complex cellular structures. Computational modeling is familiar to researchers in fields such as molecular structure, neurobiology and metabolic pathway engineering, and is rapidly emerging in the area of gene expression. Although some of these established modeling approaches can be adapted to address problems of interest to cell biologists, relatively few software development efforts have been directed at the field as a whole. The Virtual Cell is a computational environment designed for cell biologists as well as for mathematical biologists and bioengineers. It serves to aid the construction of cell biological models and the generation of simulations from them. The system enables the formulation of both compartmental and spatial models, the latter with either idealized or experimentally derived geometries of one, two or three dimensions.

Group Projects and the Computer Science Curriculum

Science.gov (United States)

Joy, Mike

2005-01-01

Group projects in computer science are normally delivered with reference to good software engineering practice. The discipline of software engineering is rapidly evolving, and the application of the latest 'agile techniques' to group projects causes a potential conflict with constraints imposed by regulating bodies on the computer science…