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Int. J. Environ. Res. Public Health 2015, 12(6), 6352-6366; doi:10.3390/ijerph120606352

SaDA: From Sampling to Data Analysis—An Extensible Open Source Infrastructure for Rapid, Robust and Automated Management and Analysis of Modern Ecological High-Throughput Microarray Data

1
School of Biosciences and Veterinary Medicine, University of Camerino, Via Gentile III da Varano Camerino 62032, Italy
2
Next Generation Bioinformatics s.r.l Camerino 62032, Italy
3
School of Science and Technology, University of Camerino, Via Madonna delle Carceri Camerino 62032, Italy
*
Author to whom correspondence should be addressed.
Academic Editor: Paul B. Tchounwou
Received: 15 February 2015 / Revised: 21 May 2015 / Accepted: 29 May 2015 / Published: 3 June 2015
View Full-Text   |   Download PDF [2258 KB, uploaded 3 June 2015]   |  

Abstract

One of the most crucial characteristics of day-to-day laboratory information management is the collection, storage and retrieval of information about research subjects and environmental or biomedical samples. An efficient link between sample data and experimental results is absolutely important for the successful outcome of a collaborative project. Currently available software solutions are largely limited to large scale, expensive commercial Laboratory Information Management Systems (LIMS). Acquiring such LIMS indeed can bring laboratory information management to a higher level, but most of the times this requires a sufficient investment of money, time and technical efforts. There is a clear need for a light weighted open source system which can easily be managed on local servers and handled by individual researchers. Here we present a software named SaDA for storing, retrieving and analyzing data originated from microorganism monitoring experiments. SaDA is fully integrated in the management of environmental samples, oligonucleotide sequences, microarray data and the subsequent downstream analysis procedures. It is simple and generic software, and can be extended and customized for various environmental and biomedical studies. View Full-Text
Keywords: software; data management; microarrays; ecological assessment; environmental studies; LIMS; open source system software; data management; microarrays; ecological assessment; environmental studies; LIMS; open source system
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

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MDPI and ACS Style

Singh, K.S.; Thual, D.; Spurio, R.; Cannata, N. SaDA: From Sampling to Data Analysis—An Extensible Open Source Infrastructure for Rapid, Robust and Automated Management and Analysis of Modern Ecological High-Throughput Microarray Data. Int. J. Environ. Res. Public Health 2015, 12, 6352-6366.

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Int. J. Environ. Res. Public Health EISSN 1660-4601 Published by MDPI AG, Basel, Switzerland RSS E-Mail Table of Contents Alert
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