Scientific data management system

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NIST tests standard interfaces for its lab equipment. SDMSs allow labs to integrate equipment data with other types of data.
A scientific data management system (SDMS) is software that acts as a document management system (DMS), capturing, cataloging, and archiving data generated by laboratory instruments (HPLC, mass spectrometry) and applications (LIMS, analytical applications, electronic laboratory notebooks) in a compliant, often pre-defined manner best suitable for its intended use, whether it be structured, unstructured, or semi-structured data.[1] The SDMS also acts as a gatekeeper, serving platform-independent data to informatics applications and/or other consumers.

As with many other laboratory informatics tools, the lines between a LIMS, ELN, and an SDMS are at times blurred. However, there are some essential qualities that an SDMS owns that distinguishes it from other informatics systems:

1. While a LIMS has traditionally been built to handle structured, mostly homogeneous data, a SDMS (and systems like it) is built to handle unstructured, mostly heterogeneous data.[2]

2. A SDMS typically acts as a seamless "wrapper" for other data systems like LIMS and ELN in the laboratory, though sometimes the SDMS software is readily apparent.

3. A SDMS is designed primarily for data consolidation, knowledge management, and knowledge asset realization.[3]

An SDMS can be seen as one potential solution for handling unstructured data, which can make up nearly 75 percent of a research and development unit's data.[4] This includes PDF files, images, instrument data, spreadsheets, and other forms of data rendered in many environments in the laboratory. Traditional SDMSs have focused on acting as a nearly invisible blanket or wrapper that integrate information from corporate offices (standard operating procedures, safety documents, etc.) with data from lab devices and other data management tools, all to be indexed and searchable from a central database. An SDMS also must be focused on increasing research productivity without sacrificing data sharing and collaboration efforts.[4]

Some of the things a standard SDMS may be asked to do include, but are not limited to[5][6]:

  • retrieve worklists from LIMS and convert them to sequence files
  • interact real-time with simple and complex laboratory instruments
  • analyze and create reports on laboratory instrument functions
  • perform complex calculations and comparisons of two different sample groups
  • monitor environmental conditions and react when base operating parameters are out of range
  • act as an operational database that allows selective importation/exportation of ELN data
  • manage workflows based on data imported into the SDMS
  • validate other computer systems and software in the laboratory

SDMS vendors

See the SDMS vendor page for a list of SDMS vendors past and present.

References

  1. Hayward, S. (15 May 2017). "Experts Explain: The Rise of Laboratory Data Lakes". Laboratory Equipment. Advantage Business Media. https://www.laboratoryequipment.com/article/2017/05/experts-explain-rise-laboratory-data-lakes. Retrieved 29 September 2017. 
  2. Elliott, M.H. (31 October 2003). "Considerations for Management of Laboratory Data". Scientific Computing. Advantage Business Media. https://www.scientificcomputing.com/article/2003/10/considerations-management-laboratory-data. Retrieved 29 September 2017. 
  3. Wood, S. (September 2007). "Comprehensive Laboratory Informatics: A Multilayer Approach" (PDF). American Laboratory. p. 1. Archived from the original on 25 August 2017. https://web.archive.org/web/20170825181932/https://www.it.uu.se/edu/course/homepage/lims/vt12/ComprehensiveLaboratoryInformatics.pdf. 
  4. 4.0 4.1 Deutsch, S. (31 December 2006). "Tomorrow’s Successful Research Organizations Face a Critical Challenge". Scientific Computing. Advantage Business Media. https://www.scientificcomputing.com/article/2006/12/tomorrow%E2%80%99s-successful-research-organizations-face-critical-challenge. Retrieved 29 September 2017. 
  5. Valle, Mario. "Scientific Data Management". Swiss National Supercomputing Center. Archived from the original on 06 March 2012. http://web.archive.org/web/20120306015034/http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html. Retrieved 05 March 2013. 
  6. Heyward, J.E. II (05 November 2009). "Selection of a Scientific Data Management System (SDMS) Based on User Requirements". Indiana University-Purdue University Indianapolis. pp. 5. https://scholarworks.iupui.edu/handle/1805/2000. Retrieved 29 September 2017.