scholarly journals BioTracs: A transversal framework for computational workflow standardization and traceability

2020 ◽  
Author(s):  
Josephine Abi-Ghanem ◽  
Djomangan Adama Ouattara
Keyword(s):  
Clinical Studies ◽  
Large Scale ◽  
Object Oriented ◽  
Digital Tools ◽  
Open Architecture ◽  
Open Framework ◽  
Computational Workflow ◽  
Object Oriented Languages ◽  
Project Level ◽  
The Way

Background: The need of digital tools for integrative analysis is today important in most scientific areas. It leads to several community-driven initiatives to standardize the sharing of data and computational workflows. However, there exists no open agnostic framework to model and implement computation workflows, in particular in bioinformatics. It is therefore difficult for data scientists to share transparently and integrate heterogeneous analysis processes coming from different scientific domains, programing languages, projects or teams. Results: We present here BioTracs, a transversal framework for computational workflow standardization and traceability. It is based on PRISM architecture (Process Resource Interfacing SysteM), an agnostic open architecture we introduce here to standardize the way processes and resources can be modelled and interfaced in computational workflows to ensure traceability, reproducibility and facilitate sharing. BioTracs is today implemented in MATLAB and available under open source license on GitHub. Several BioTracs-derived applications are also available online. They were successfully applied to large-scale metabolomics and clinical studies and demonstrated flexibility and robustness. Conclusions: As an implementation of the PRISM architecture, BioTracs paved the way to an open framework in which bioinformatics could specify ad model workflows. PRISM architecture is designed to provide scalability and transparency from the code to the project level we less efforts. It could also be implemented using open object-oriented languages such as Python, C++ or java.

scholarly journals BioTracs: A transversal framework for computational workflow standardization and traceability

2019 ◽  
Author(s):  
Joséphine Abi-Ghanem ◽  
Djomangan Adama Ouattara
Keyword(s):  
Clinical Studies ◽  
Large Scale ◽  
Object Oriented ◽  
Digital Tools ◽  
Open Architecture ◽  
Open Framework ◽  
Computational Workflow ◽  
Object Oriented Languages ◽  
Project Level ◽  
The Way

Abstract Background The need of digital tools for integrative analysis is today important in most scientific areas. It leads to several community-driven initiatives to standardize the sharing of data and computational workflows. However, there exists no open agnostic framework to model and implement computation workflows, in particular in bioinformatics. It is therefore difficult for data scientists to share transparently and integrate heterogeneous analysis processes coming from different scientific domains, programing languages, projects or teams.Results We present here BioTracs, a transversal framework for computational workflow standardization and traceability. It is based on PRISM architecture (Process Resource Interfacing SysteM), an agnostic open architecture we introduce here to standardize the way processes and resources can be modelled and interfaced in computational workflows to ensure traceability, reproducibility and facilitate sharing. BioTracs is today implemented in MATLAB and available under open source license on GitHub. Several BioTracs-derived applications are also available online. They were successfully applied to large-scale metabolomics and clinical studies and demonstrated flexibility and robustness.Conclusions As an implementation of the PRISM architecture, BioTracs paved the way to an open framework in which bioinformatics could specify ad model workflows. PRISM architecture is designed to provide scalability and transparency from the code to the project level we less efforts. It could also be implemented using open object-oriented languages such as Python, C++ or java.

Methods for the Quantification of Salivary Cortisol and of a-amylase in Biosensors and Portable Devices

2018 ◽  
Vol 68 (12) ◽  
pp. 2857-2859
Author(s):  
Cristina Mihaela Ghiciuc ◽  
Andreea Silvana Szalontay ◽  
Luminita Radulescu ◽  
Sebastian Cozma ◽  
Catalina Elena Lupusoru ◽  
...  
Keyword(s):  
Real Time ◽  
Medical Practice ◽  
Salivary Cortisol ◽  
Clinical Studies ◽  
Large Scale ◽  
Psychological Research ◽  
Portable Devices ◽  
Salivary Amylase ◽  
Specificity And Sensitivity

There is an increasing interest in the analysis of salivary biomarkers for medical practice. The objective of this article was to identify the specificity and sensitivity of quantification methods used in biosensors or portable devices for the determination of salivary cortisol and salivary a-amylase. There are no biosensors and portable devices for salivary amylase and cortisol that are used on a large scale in clinical studies. These devices would be useful in assessing more real-time psychological research in the future.

An object-oriented optimization framework for large-scale inverse problems

2021 ◽  
pp. 104790
Author(s):  
Ettore Biondi ◽  
Guillaume Barnier ◽  
Robert G. Clapp ◽  
Francesco Picetti ◽  
Stuart Farris
Keyword(s):  
Inverse Problems ◽  
Large Scale ◽  
Object Oriented ◽  
Optimization Framework

Electric Toothbrushes–For Whom are They Designed?

2002 ◽  
Vol 16 (1) ◽  
pp. 6-8 ◽  
Author(s):  
Sebastian Ciancio
Keyword(s):  
Clinical Studies ◽  
Large Scale ◽  
Economic Status ◽  
New Technology ◽  
Ease Of Use ◽  
Special Populations ◽  
Gingival Health

Powered toothbrushes were first introduced on a large scale in the early 1960s. However, because of a clear lack of superiority compared with manual brushes, and problems with mechanical breakdowns, their sales decreased significantly. However, recommendation for their use continued in special populations with dexterity and cognition problems. The 1990s ushered in an era of new technology, and studies began to suggest superiority of some powered brushes, particularly those using oscillating-rotating or counter-rotational actions. Some studies have shown interproximal cleansing abilities superior to those of manual brushes and yielding results similar to those achieved with the use of a manual brush and floss. Both controlled and open-labeled studies have suggested that electric brushes improve gingival health with patients who routinely used manual brushes prior to using these new powered brushes, and safety has been clearly established. In recommending powered toothbrushes, practitioners should familiarize themselves with the products available, with the clinical studies supporting their benefits compared with manual brushes, their safety and ease of use, and the patient's economic status.

scholarly journals An algebraic approach to the design of compilers for object-oriented languages

2009 ◽  
Vol 22 (5) ◽  
pp. 489-535 ◽  
Author(s):  
Adolfo Duran ◽  
Ana Cavalcanti ◽  
Augusto Sampaio
Keyword(s):  
Algebraic Approach ◽  
Object Oriented ◽  
Object Oriented Languages

Extending object-oriented languages with backward error recovery integrated support

2010 ◽  
Vol 36 (2) ◽  
pp. 123-141 ◽  
Author(s):  
Daniel Fernández Lanvin ◽  
Raúl Izquierdo Castanedo ◽  
Aquilino Adolfo Juan Fuente ◽  
Alberto Manuel Fernández Álvarez
Keyword(s):  
Object Oriented ◽  
Error Recovery ◽  
Backward Error ◽  
Object Oriented Languages

HyperGear: An Object Oriented Design Program for Single Stage Gear Box Design

1991 ◽  
Author(s):  
Gary A. Gabriele ◽  
Agustî Maria I. Serrano
Keyword(s):  
Computer Aided Design ◽  
Object Oriented ◽  
Design Tool ◽  
Single Stage ◽  
Design Tools ◽  
Object Oriented Design ◽  
Computer Aided ◽  
Gear Box ◽  
Aided Design ◽  
Object Oriented Languages

Abstract The need for superior design tools has lead to the development of better and more complex computer aided design programs. Two of the more important new developments in application tools being investigation are Object Oriented Languages, and HyperMedia. Object Oriented Languages allow the development of CAD tools where the parts being designed and the design procedures specified are conceptualized as objects. This allows for the development of design aids that are non-procedural and more readily manipulated by the user trying to accomplish a design task. HyperMedia allows for the easy inclusion of many different types of data, such as design charts and graphs, into the tool that are normally difficult to include in design tools programmed with more conventional programming languages. This paper explores the development of a computer aided design tool for the design of a single stage gear box using the development HyperCard® environment and the HyperTalk® programming language. The resulting program provides a user friendly interface, the ability to handle several kinds of design information including graphic and textual, and a non-procedural design tool to help the user design simple, one stage gear boxes. Help facilities in the program make it suitable for undergraduate instruction in a machine elements design course.

God’s Marketeer

2021 ◽  
Vol 30 (2) ◽  
Author(s):  
Jan Martijn Abrahamse
Keyword(s):  
The Netherlands ◽  
Large Scale ◽  
Social Groups ◽  
Press Coverage ◽  
Significant Shift ◽  
Dutch Society ◽  
Content Type ◽  
Billy Graham ◽  
The Way ◽  
Newspaper Articles

Summary This article deals with the reception of Billy Graham and modern evangelicalism in the fragmented society of the Netherlands in 1954. It takes its departure from the stream of newspaper articles published between February and June in response to the Greater London Crusade and Graham’s first large scale rally in Amsterdam’s Olympic Stadium. The analysis of the reports in different newspapers, which represent the different social groups (catholic, protestant, socialist and liberal) in Dutch society, reveals a significant shift in the way Billy Graham was perceived: from initial scepticism to mild appreciation. This change in press coverage, it is concluded, is mainly due to the different way in which Billy Graham presented himself compared with the large-scale publicity which surrounded his campaign.

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