Applying Open-Source Software to Laboratory Data Management

Murray, Glenn A.; Crocker, David P.

doi:10.1016/j.jala.2010.04.005

Cited by 2 publications

(2 citation statements)

References 9 publications

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“…To avoid difficult data exchange and simplify data processing, an open-source software platform is a much more attractive solution. 1–3 To accommodate these demands, we have written an open-source platform for saving, logging, treating, and visualizing experimental data.…”

Section: Introductionmentioning

confidence: 99%

An Open-Source Data Storage and Visualization Back End for Experimental Data

et al. 2014

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In this article, a flexible free and open-source software system for data logging and presentation will be described. The system is highly modular and adaptable and can be used in any laboratory in which continuous and/or ad hoc measurements require centralized storage. A presentation component for the data back end has furthermore been written that enables live visualization of data on any device capable of displaying Web pages. The system consists of three parts: data-logging clients, a data server, and a data presentation Web site. The logging of data from independent clients leads to high resilience to equipment failure, whereas the central storage of data dramatically eases backup and data exchange. The visualization front end allows direct monitoring of acquired data to see live progress of long-duration experiments. This enables the user to alter experimental conditions based on these data and to interfere with the experiment if needed. The data stored consist both of specific measurements and of continuously logged system parameters. The latter is crucial to a variety of automation and surveillance features, and three cases of such features are described: monitoring system health, getting status of long-duration experiments, and implementation of instant alarms in the event of failure.

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Section: Introductionmentioning

confidence: 99%

An Open-Source Data Storage and Visualization Back End for Experimental Data

et al. 2014

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“…Online research helped determine that there are open-source and commercial solutions that meet these requirements. Other groups working on scientific and human health research have had success developing LIMS in-house using open-source software and database applications such as Microsoft Access 2,3 (Microsoft Corporation, Redmond, WA).…”

Section: Introductionmentioning

confidence: 99%

Integration of Data Systems and Technology Improves Research and Collaboration for a Superfund Research Center

Hobbie

Peterson²,

Bartoň³

et al. 2012

SLAS Technology

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Large collaborative centers are a common model for accomplishing integrated environmental health research. These centers often include various types of scientific domains (e.g. chemistry, biology, bioinformatics) that are integrated to solve some of the nation’s key economic or public health concerns. The Superfund Research Center (SRP) at Oregon State University (OSU) is one such center established in 2008 to study the emerging health risks of polycyclic aromatic hydrocarbons while utilizing new technologies both in the field and laboratory. With outside collaboration at remote institutions, success for the center as a whole depends on the ability to effectively integrate data across all research projects and support cores. Therefore, the OSU SRP center developed a system that integrates environmental monitoring data with analytical chemistry data and downstream bioinformatics and statistics to enable complete ‘source to outcome’ data modeling and information management. This article describes the development of this integrated information management system that includes commercial software for operational laboratory management and sample management in addition to open source custom built software for bioinformatics and experimental data management.

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Applying Open-Source Software to Laboratory Data Management

Cited by 2 publications

References 9 publications

An Open-Source Data Storage and Visualization Back End for Experimental Data

An Open-Source Data Storage and Visualization Back End for Experimental Data

Integration of Data Systems and Technology Improves Research and Collaboration for a Superfund Research Center

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