Computational Science and Engineering Online (CSE-Online):  A Cyber-Infrastructure for Scientific Computing

Truong, Thanh N.; Nayak, Manohar; Huynh, Hung Quang; Cook, Tom; Mahajan, Priya; Tran, Le-Thuy T.; Bharath, Jannu; Jain, Shrish; Pham, Ha; Boonyasiriwat, Chaiwoot; Nguyen, Nhat Minh; Andersen, E; Kim, Yong; Choe, Suengkeol; Choi, J. W.; Cheatham, Thomas E.; Facelli, Julio C.

doi:10.1021/ci0503917

Cited by 22 publications

(23 citation statements)

References 7 publications

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“…14 caBIG will provide tools and infrastructure for institutions to map their data to a common data model and to control access to their data. Similar collaborative computer environments are under development to support large and flexible virtual organizations with multiple stakeholders in need of access to information technology resources, including physical science researchers 15 and first respondents to weather-related emergencies. 16 Use of caBIG tools and infrastructure, or similar cyber-infrastructure tools, may be particularly useful for automating data capture from clinical information systems to a registry for heritable disorders.…”

Section: Informatics Infrastructurementioning

confidence: 99%

Developing a National Registry for conditions identifiable through newborn screening

Botkin

Anderson

Staes

et al. 2009

Genetics in Medicine

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Purpose: State newborn screening programs are rapidly expanding with the inclusion of a large number of uncommon conditions. There remains significant uncertainty about many aspects of these conditions including their natural history, variability, treatment modalities being used, genotype-phenotype correlations, developmental outcomes, effect on families, and costs of care, among others. Data on these important outcome variables are not collected systematically through state programs. Recently, the American Academy of Pediatrics and the federal Health Resources and Services Administration have promoted the development of a data collection system on the long-term outcomes of children with conditions identified through newborn screening. This article provides an overview of the justification for such a system and recommendations for a design. Methods: Recommendations were developed through a multidisciplinary collaboration of regional and national scholars supported through a Health Resources and Services Administration funded project. Results: We propose a registry system with data inputs from subspecialists, the Medical Home, families, and schools. Further, the proposed system would utilize emerging communication technology to provide an interactive web-based system to support families and professionals in their care of children with these complex conditions. Genet Key Words: registry, newborn screening, informatics, public health N ewborn dried bloodspot screening (NDBS) programs are state-based systems for early identification of children affected with heritable and congenital conditions. In recent years, programs have expanded rapidly due to the implementation of new screening technologies, primarily tandem mass spectroscopy. The state-based organization of these public health programs has led to a wide variation from state to state in many aspects of the programs. 1 Although most programs provide short-term follow-up of out of range results to assure that a diagnosis has been made and treatment initiated, there have been only limited efforts to conduct long-term surveillance of children with detected disorders within state programs. A recent study by Hoff et al. 2 found that 56% of NDBS programs responded that they collected no long-term follow-up (LTFU) data. More than two-thirds of state programs employed little or no use of LTFU data. When LTFU data were collected, states report using the information to track the clinical outcome of patients, track the number of individuals lost to follow-up, evaluate the performance of care providers, assess the needs of families, and to conduct research. 2 Hoff et al. 3 also identified several barriers to LTFU data collection, including lack of quality assurance practices, outsourcing of program components, funding constraints, and communication challenges with care providers for affected children.The surveys by Hoff et al. 2,3 help confirm what is common knowledge in the field, that is, most states do not systematically collect information on the longer-term outcomes o...

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Section: Informatics Infrastructurementioning

confidence: 99%

Developing a National Registry for conditions identifiable through newborn screening

Botkin

Anderson

Staes

et al. 2009

Genetics in Medicine

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“…CSE-Online is a Java-based environment which allows access to various applications, tools, data and computing resources from one's desktop (Truong et al, 2006). CSE-Online is a client application which requires no additional software beyond the Java runtime environment and is platform independent.…”

Section: Generalmentioning

confidence: 99%

“…CSE-Online is based on the client-server model shown in Fig. 2 (Truong et al, 2006). The server side contains the central CSE-Online server, private servers, third-party servers and remote computing resources.…”

Section: Architecturementioning

confidence: 99%

A cyberenvironment for crystallography and materials science and an integrated user interface to the Crystallography Open Database and Predicted Crystallography Open Database

et al. 2008

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With the advent and subsequent evolution of the Internet the ways in which computational crystallographic research is conducted have dramatically changed. Consequently, secure, robust and efficient means of accessing remote data and computational resources have become a necessity. At present scientists in computational crystallography access remote data and resources via separate technologies, namely SSH and Web services. Computational Science and Engineering Online (CSE-Online) combines these two methods into a single seamless environment while simultaneously addressing issues such as stability with regard to Internet interruption. Presently CSE-Online contains several applications which are useful to crystallographers; however, continued development of new tools is necessary.

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“…The research team from the University of Utah developed the CSE-Online [5] (Computational Science and Engineering Online) platform. CSE-online is built based on the clientserver architecture, where the workloads are distributed to the clients as well as the servers.…”

Section: B Cse-onlinementioning

confidence: 99%

The grid desktop for signal processing research

Prugsupachart

Achalakul

2008

2008 5th International Conference on Electrical Engineering/Electronics, Computer, Telecommunications and Information Technolog

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This paper presents a study on the concept of "grid desktop" as well as a design and development of a signal processing package based on the concept.Our application framework is a client-server architecture built based on the CSE-Online platform.The server is running on the grid infrastructure and the client can be any typical workstation or personal computer. The users can use our signal processing package through a web browser just like a desktop application.The key concept of our design is to provide an integrated grid enabled environment seamlessly for collaborative research in signal processing. We plan to include typical image processing functions, domain transformation tools, and sound analysis functions. All the computations will be performed on the grid environment transparently to users. Moreover, the users can work with our package without a network connection, which should enhance the ease of use.

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Computational Science and Engineering Online (CSE-Online): A Cyber-Infrastructure for Scientific Computing

Cited by 22 publications

References 7 publications

Developing a National Registry for conditions identifiable through newborn screening

Developing a National Registry for conditions identifiable through newborn screening

A cyberenvironment for crystallography and materials science and an integrated user interface to the Crystallography Open Database and Predicted Crystallography Open Database

The grid desktop for signal processing research

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