Scientific data management system - Revision history

Shawndouglas: Updated for 2024

2024-03-22T16:14:23Z

Updated for 2024

Shawndouglas: /* References */ Reflist

2022-01-18T20:03:35Z

References: Reflist

← Older revision		Revision as of 20:03, 18 January 2022
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	== References ==		== References ==
	~~<references />~~		{{Reflist\|colwidth=30em}}

	<!---Place all category tags here-->		<!---Place all category tags here-->
	[[Category:Laboratory informatics]]		[[Category:Laboratory informatics]]
	[[Category:Software systems]]		[[Category:Software systems]]

Shawndouglas: Minor updates for 2020

2020-03-21T22:58:25Z

Minor updates for 2020

← Older revision		Revision as of 22:58, 21 March 2020
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	[[File:NIST Testing standard interfaces.jpg\|right\|thumb\|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 notebook]]s) in a compliant, often pre-defined manner best suitable for its intended use, whether it be structured, unstructured, or semi-structured data.<ref name="HaywardExperts17">{{cite web \|url=https://www.laboratoryequipment.com/article/2017/05/experts-explain-rise-laboratory-data-lakes \|title=Experts Explain: The Rise of Laboratory Data Lakes \|author=Hayward, S. \|work=Laboratory Equipment \|publisher=Advantage Business Media \|date=15 May 2017 \|accessdate=~~29 September 2017~~}}</ref> The SDMS also acts as a gatekeeper, serving platform-independent data to informatics applications and/or other consumers.		[[File:NIST Testing standard interfaces.jpg\|right\|thumb\|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 notebook]]s) in a compliant, often pre-defined manner best suitable for its intended use, whether it be structured, unstructured, or semi-structured data.<ref name="HaywardExperts17">{{cite web \|url=https://www.laboratoryequipment.com/article/2017/05/experts-explain-rise-laboratory-data-lakes \|archiveurl=https://web.archive.org/web/20170516235859/http://www.laboratoryequipment.com/article/2017/05/experts-explain-rise-laboratory-data-lakes \|title=Experts Explain: The Rise of Laboratory Data Lakes \|author=Hayward, S. \|work=Laboratory Equipment \|publisher=Advantage Business Media \|date=15 May 2017 \|archivedate=16 May 2017 \|accessdate=21 March 2020}}</ref> 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:		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.<ref name="ElliottConsider03">{{cite web \|url=https://www.scientificcomputing.com/article/2003/10/considerations-management-laboratory-data \|title=Considerations for Management of Laboratory Data \|author=Elliott, M.H. \|work=Scientific Computing \|publisher=Advantage Business Media \|date=31 October 2003 \|accessdate=~~29 September 2017~~}}</ref>		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.<ref name="ElliottConsider03">{{cite web \|url=https://www.scientificcomputing.com/article/2003/10/considerations-management-laboratory-data \|archiveurl=https://web.archive.org/web/20170426150419/http://www.scientificcomputing.com/article/2003/10/considerations-management-laboratory-data \|title=Considerations for Management of Laboratory Data \|author=Elliott, M.H. \|work=Scientific Computing \|publisher=Advantage Business Media \|date=31 October 2003 \|archivedate=26 April 2017 \|accessdate=21 March 2020}}</ref>

	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.		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.
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	3. A SDMS is designed primarily for data consolidation, knowledge management, and knowledge asset realization.<ref name="WoodComp07">{{cite web \|url=https://www.it.uu.se/edu/course/homepage/lims/vt12/ComprehensiveLaboratoryInformatics.pdf \|archiveurl=https://web.archive.org/web/20170825181932/https://www.it.uu.se/edu/course/homepage/lims/vt12/ComprehensiveLaboratoryInformatics.pdf \|format=PDF \|title=Comprehensive Laboratory Informatics: A Multilayer Approach \|author=Wood, S. \|work=American Laboratory \|page=1 \|date=September 2007 \|archivedate=25 August 2017}}</ref>		3. A SDMS is designed primarily for data consolidation, knowledge management, and knowledge asset realization.<ref name="WoodComp07">{{cite web \|url=https://www.it.uu.se/edu/course/homepage/lims/vt12/ComprehensiveLaboratoryInformatics.pdf \|archiveurl=https://web.archive.org/web/20170825181932/https://www.it.uu.se/edu/course/homepage/lims/vt12/ComprehensiveLaboratoryInformatics.pdf \|format=PDF \|title=Comprehensive Laboratory Informatics: A Multilayer Approach \|author=Wood, S. \|work=American Laboratory \|page=1 \|date=September 2007 \|archivedate=25 August 2017}}</ref>

	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.<ref name="SciComp1">{{cite web \|url=~~https~~://www.~~scientificcomputing~~.com/~~article/2006/12/tomorrow%E2%80%99s~~-successful-research-organizations-face-critical-challenge \|author=Deutsch, S. \|title=Tomorrow’s Successful Research Organizations Face a Critical Challenge \|work=~~Scientific Computing~~ \|publisher=~~Advantage Business~~ Media \|date=31 December 2006 \|accessdate=~~29 September 2017~~}}</ref> 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.<ref name="SciComp1" />		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.<ref name="SciComp1">{{cite web \|url=http://www.rdworldonline.com/tomorrows-successful-research-organizations-face-a-critical-challenge/ \|author=Deutsch, S. \|title=Tomorrow’s Successful Research Organizations Face a Critical Challenge \|work=R&D World \|publisher=WTWH Media LLC \|date=31 December 2006 \|accessdate=21 March 2020}}</ref> 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.<ref name="SciComp1" />

	Some of the things a standard SDMS may be asked to do include, but are not limited to<ref name="SDMArch">{{cite web \|url=http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html \|archiveurl=http://web.archive.org/web/20120306015034/http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html \|author=Valle, Mario \|title=Scientific Data Management \|publisher=Swiss National Supercomputing Center \|archivedate=06 March 2012 \|accessdate=05 March 2013}}</ref><ref name="HetwardSelect09">{{cite web \|url=https://scholarworks.iupui.edu/handle/1805/2000 \|title=Selection of a Scientific Data Management System (SDMS) Based on User Requirements \|author=Heyward, J.E. II \|publisher=Indiana University-Purdue University Indianapolis \|date=05 November 2009 \|pages=5 \|accessdate=29 September 2017}}</ref>:		Some of the things a standard SDMS may be asked to do include, but are not limited to<ref name="SDMArch">{{cite web \|url=http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html \|archiveurl=http://web.archive.org/web/20120306015034/http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html \|author=Valle, Mario \|title=Scientific Data Management \|publisher=Swiss National Supercomputing Center \|archivedate=06 March 2012 \|accessdate=05 March 2013}}</ref><ref name="HetwardSelect09">{{cite web \|url=https://scholarworks.iupui.edu/handle/1805/2000 \|title=Selection of a Scientific Data Management System (SDMS) Based on User Requirements \|author=Heyward, J.E. II \|publisher=Indiana University-Purdue University Indianapolis \|date=05 November 2009 \|pages=5 \|accessdate=29 September 2017}}</ref>:

Shawndouglas: Tweak

2017-09-29T17:33:33Z

Tweak

← Older revision		Revision as of 17:33, 29 September 2017
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	[[File:NIST Testing standard interfaces.jpg\|right\|thumb\|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 notebook]]s) in a compliant manner. The SDMS also acts as a gatekeeper, serving platform-independent data to informatics applications and/or other consumers.		[[File:NIST Testing standard interfaces.jpg\|right\|thumb\|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 notebook]]s) in a compliant, often pre-defined manner best suitable for its intended use, whether it be structured, unstructured, or semi-structured data.<ref name="HaywardExperts17">{{cite web \|url=https://www.laboratoryequipment.com/article/2017/05/experts-explain-rise-laboratory-data-lakes \|title=Experts Explain: The Rise of Laboratory Data Lakes \|author=Hayward, S. \|work=Laboratory Equipment \|publisher=Advantage Business Media \|date=15 May 2017 \|accessdate=29 September 2017}}</ref> 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:		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:

Shawndouglas: Cleaned up citations

2017-09-29T17:25:00Z

Cleaned up citations

← Older revision		Revision as of 17:25, 29 September 2017
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	[[File:NIST Testing standard interfaces.jpg\|right\|thumb\|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 ~~a piece or package of~~ 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 notebook]]s) in a compliant manner. The SDMS also acts as a gatekeeper, serving platform-independent data to informatics applications and/or other consumers.		[[File:NIST Testing standard interfaces.jpg\|right\|thumb\|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 notebook]]s) in a compliant manner. 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:		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.<ref>{{cite web\|url=~~http~~://www.scientificcomputing.com/considerations-~~for~~-~~management.aspx \|author=Elliott, Michael H.~~\|title=Considerations for Management of Laboratory Data \|~~publisher~~=Scientific Computing \|date=~~15 September 2009~~ \|accessdate=~~04 May 2011~~}}</ref>		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.<ref name="ElliottConsider03">{{cite web \|url=https://www.scientificcomputing.com/article/2003/10/considerations-management-laboratory-data \|title=Considerations for Management of Laboratory Data \|author=Elliott, M.H. \|work=Scientific Computing \|publisher=Advantage Business Media \|date=31 October 2003 \|accessdate=29 September 2017}}</ref>

	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.		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. <ref>~~Wood, Simon (2007)~~. ~~[http~~://www.~~starlims~~.~~com~~/~~AL-Wood-Reprint-9-07~~.pdf "Comprehensive Laboratory Informatics: A Multilayer Approach"], ~~pp. 3~~.</ref>		3. A SDMS is designed primarily for data consolidation, knowledge management, and knowledge asset realization.<ref name="WoodComp07">{{cite web \|url=https://www.it.uu.se/edu/course/homepage/lims/vt12/ComprehensiveLaboratoryInformatics.pdf \|archiveurl=https://web.archive.org/web/20170825181932/https://www.it.uu.se/edu/course/homepage/lims/vt12/ComprehensiveLaboratoryInformatics.pdf \|format=PDF \|title=Comprehensive Laboratory Informatics: A Multilayer Approach \|author=Wood, S. \|work=American Laboratory \|page=1 \|date=September 2007 \|archivedate=25 August 2017}}</ref>

	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.<ref name="SciComp1">{{cite web\|url=~~http~~://www.scientificcomputing.com/~~tomorrows~~-successful-research~~.aspx~~ \|author=Deutsch, ~~Scott~~ \|title=Tomorrow’s Successful Research Organizations Face a Critical Challenge \|~~publisher~~=Scientific Computing \|date=~~30 July 2008~~ \|accessdate=~~04 May 2011~~}}</ref> 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 (~~SOPs~~, 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.<ref name="SciComp1" />		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.<ref name="SciComp1">{{cite web \|url=https://www.scientificcomputing.com/article/2006/12/tomorrow%E2%80%99s-successful-research-organizations-face-critical-challenge \|author=Deutsch, S. \|title=Tomorrow’s Successful Research Organizations Face a Critical Challenge \|work=Scientific Computing \|publisher=Advantage Business Media \|date=31 December 2006 \|accessdate=29 September 2017}}</ref> 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.<ref name="SciComp1" />

	Some of the things a standard SDMS may be asked to do include, but are not limited to<ref name="SDMArch">{{cite web \|url=http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html \|archiveurl=http://web.archive.org/web/20120306015034/http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html \|author=Valle, Mario \|title=Scientific Data Management \|publisher=Swiss National Supercomputing Center \|archivedate=06 March 2012 \|accessdate=05 March 2013}}</ref><ref>~~Heyward, Joseph E. II (2009). [~~https://scholarworks.iupui.edu/handle/1805/2000 "Selection of a Scientific Data Management System (SDMS) Based on User Requirements"], pp. ~~1–5 (PDF)~~.</ref>:		Some of the things a standard SDMS may be asked to do include, but are not limited to<ref name="SDMArch">{{cite web \|url=http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html \|archiveurl=http://web.archive.org/web/20120306015034/http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html \|author=Valle, Mario \|title=Scientific Data Management \|publisher=Swiss National Supercomputing Center \|archivedate=06 March 2012 \|accessdate=05 March 2013}}</ref><ref name="HetwardSelect09">{{cite web \|url=https://scholarworks.iupui.edu/handle/1805/2000 \|title=Selection of a Scientific Data Management System (SDMS) Based on User Requirements \|author=Heyward, J.E. II \|publisher=Indiana University-Purdue University Indianapolis \|date=05 November 2009 \|pages=5 \|accessdate=29 September 2017}}</ref>:

	* retrieve worklists from LIMS and convert them to sequence files		* retrieve worklists from LIMS and convert them to sequence files

Shawndouglas: Reverted edits by MediaWiki spam cleanup (talk) to last revision by Shawndouglas

2016-02-12T17:34:58Z

Reverted edits by MediaWiki spam cleanup (talk) to last revision by Shawndouglas

← Older revision		Revision as of 17:34, 12 February 2016
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	A '''scientific data management system''' (SDMS) is a piece or package of software that ~~captures~~, ~~catalogs~~, and ~~archives~~ data generated by [[laboratory]] instruments ([[HPLC]], [[mass spectrometry]]) and applications ([[LIMS]], analytical applications, [[electronic laboratory notebook]]s) in a compliant manner, serving platform-independent data to informatics applications and/or other consumers.		[[File:NIST Testing standard interfaces.jpg\|right\|thumb\|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 a piece or package of 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 notebook]]s) in a compliant manner. 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:		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.<ref>{{cite web\|url=http://www.scientificcomputing.com/considerations-for-management.aspx \|title=Considerations for Management of Laboratory Data \|publisher=Scientific Computing \|date=2009~~-09-15~~ \|accessdate=2011~~-05-04~~}}</ref>		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.<ref>{{cite web\|url=http://www.scientificcomputing.com/considerations-for-management.aspx \|author=Elliott, Michael H.\|title=Considerations for Management of Laboratory Data \|publisher=Scientific Computing \|date=15 September 2009 \|accessdate=04 May 2011}}</ref>

	2. A SDMS typically acts as a seamless "wrapper" for other data systems like LIMS and ELN in the laboratory.		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. <ref>Wood, Simon (2007). [http://www.starlims.com/AL-Wood-Reprint-9-07.pdf "Comprehensive Laboratory Informatics: A Multilayer Approach"], pp. 3.</ref>		3. A SDMS is designed primarily for data consolidation, knowledge management, and knowledge asset realization. <ref>Wood, Simon (2007). [http://www.starlims.com/AL-Wood-Reprint-9-07.pdf "Comprehensive Laboratory Informatics: A Multilayer Approach"], pp. 3.</ref>

	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.<ref name="SciComp1">{{cite web\|url=http://www.scientificcomputing.com/tomorrows-successful-research.aspx \|title=Tomorrow’s Successful Research Organizations Face a Critical Challenge \|publisher=Scientific Computing \|date=2008~~-07-30~~ \|accessdate=2011~~-05-04~~}}</ref> 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 (~~P&P~~, ~~for example~~) 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.<ref name="SciComp1" />		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.<ref name="SciComp1">{{cite web\|url=http://www.scientificcomputing.com/tomorrows-successful-research.aspx \|author=Deutsch, Scott \|title=Tomorrow’s Successful Research Organizations Face a Critical Challenge \|publisher=Scientific Computing \|date=30 July 2008 \|accessdate=04 May 2011}}</ref> 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 (SOPs, 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.<ref name="SciComp1" />

			Some of the things a standard SDMS may be asked to do include, but are not limited to<ref name="SDMArch">{{cite web \|url=http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html \|archiveurl=http://web.archive.org/web/20120306015034/http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html \|author=Valle, Mario \|title=Scientific Data Management \|publisher=Swiss National Supercomputing Center \|archivedate=06 March 2012 \|accessdate=05 March 2013}}</ref><ref>Heyward, Joseph E. II (2009). [https://scholarworks.iupui.edu/handle/1805/2000 "Selection of a Scientific Data Management System (SDMS) Based on User Requirements"], pp. 1–5 (PDF).</ref>:

	== ~~Modern features of a~~ SDMS ==		* 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 ==		== References ==
	<references />		<references />

			<!---Place all category tags here-->
			[[Category:Laboratory informatics]]
			[[Category:Software systems]]

MediaWiki spam cleanup: Reverting to last revision not containing links to *.ch

2016-02-04T16:49:27Z

Reverting to last revision not containing links to *.ch

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	~~[[File:NIST Testing standard interfaces.jpg\|right\|thumb\|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 a piece or package of 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 notebook]]s) in a compliant manner~~. The SDMS also acts as a gatekeeper~~, serving platform-independent data to informatics applications and/or other consumers.		A '''scientific data management system''' (SDMS) is a piece or package of software that captures, catalogs, and archives data generated by [[laboratory]] instruments ([[HPLC]], [[mass spectrometry]]) and applications ([[LIMS]], analytical applications, [[electronic laboratory notebook]]s) in a compliant manner, 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:		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.<ref>{{cite web\|url=http://www.scientificcomputing.com/considerations-for-management.aspx ~~\|author=Elliott, Michael H.~~\|title=Considerations for Management of Laboratory Data \|publisher=Scientific Computing \|date=15 ~~September 2009~~ \|accessdate=04 ~~May 2011~~}}</ref>		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.<ref>{{cite web\|url=http://www.scientificcomputing.com/considerations-for-management.aspx \|title=Considerations for Management of Laboratory Data \|publisher=Scientific Computing \|date=2009-09-15 \|accessdate=2011-05-04}}</ref>

	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~~.		2. A SDMS typically acts as a seamless "wrapper" for other data systems like LIMS and ELN in the laboratory.

	3. A SDMS is designed primarily for data consolidation, knowledge management, and knowledge asset realization. <ref>Wood, Simon (2007). [http://www.starlims.com/AL-Wood-Reprint-9-07.pdf "Comprehensive Laboratory Informatics: A Multilayer Approach"], pp. 3.</ref>		3. A SDMS is designed primarily for data consolidation, knowledge management, and knowledge asset realization. <ref>Wood, Simon (2007). [http://www.starlims.com/AL-Wood-Reprint-9-07.pdf "Comprehensive Laboratory Informatics: A Multilayer Approach"], pp. 3.</ref>

	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.<ref name="SciComp1">{{cite web\|url=http://www.scientificcomputing.com/tomorrows-successful-research.aspx ~~\|author=Deutsch, Scott~~ \|title=Tomorrow’s Successful Research Organizations Face a Critical Challenge \|publisher=Scientific Computing \|date=30 ~~July 2008~~ \|accessdate=04 ~~May 2011~~}}</ref> 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 (~~SOPs, 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.<ref name="SciComp1" />		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.<ref name="SciComp1">{{cite web\|url=http://www.scientificcomputing.com/tomorrows-successful-research.aspx \|title=Tomorrow’s Successful Research Organizations Face a Critical Challenge \|publisher=Scientific Computing \|date=2008-07-30 \|accessdate=2011-05-04}}</ref> 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 (P&P, for example) 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.<ref name="SciComp1" />

	Some of the things a standard SDMS may be asked to do include, but are not limited to<ref name="SDMArch">{{cite web \|url=http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html \|archiveurl=http://web.archive.org/web/20120306015034/http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html \|author=Valle, Mario \|title=Scientific Data Management \|publisher=Swiss National Supercomputing Center \|archivedate=06 March 2012 \|accessdate=05 March 2013}}</ref><ref>Heyward, Joseph E. II (2009). [https://scholarworks.iupui.edu/handle/1805/2000 "Selection of a Scientific Data Management System (SDMS) Based on User Requirements"], pp. 1–5 (PDF).</ref>:

	* retrieve worklists from LIMS and convert them to sequence files		== Modern features of a SDMS ==
	* 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 ==		== References ==
	<references />		<references />

	~~<!---Place all category tags here-->~~
	~~[[Category:Laboratory informatics]]~~
	~~[[Category:Software systems]]~~

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2014-10-20T16:47:36Z

Image caption

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	[[File:NIST Testing standard interfaces.jpg\|right\|thumb\|NIST ~~Testing~~ 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 a piece or package of 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 notebook]]s) in a compliant manner. The SDMS also acts as a gatekeeper, serving platform-independent data to informatics applications and/or other consumers.		[[File:NIST Testing standard interfaces.jpg\|right\|thumb\|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 a piece or package of 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 notebook]]s) in a compliant manner. 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:		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:

Shawndouglas: /* References */ Added cat

2014-08-06T18:58:52Z

References: Added cat

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	<!---Place all category tags here-->		<!---Place all category tags here-->
	[[Category:Laboratory informatics]]		[[Category:Laboratory informatics]]
			[[Category:Software systems]]

Shawndouglas: Internal link.

2013-09-13T22:07:51Z

Internal link.

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	3. A SDMS is designed primarily for data consolidation, knowledge management, and knowledge asset realization. <ref>Wood, Simon (2007). [http://www.starlims.com/AL-Wood-Reprint-9-07.pdf "Comprehensive Laboratory Informatics: A Multilayer Approach"], pp. 3.</ref>		3. A SDMS is designed primarily for data consolidation, knowledge management, and knowledge asset realization. <ref>Wood, Simon (2007). [http://www.starlims.com/AL-Wood-Reprint-9-07.pdf "Comprehensive Laboratory Informatics: A Multilayer Approach"], pp. 3.</ref>

	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.<ref name="SciComp1">{{cite web\|url=http://www.scientificcomputing.com/tomorrows-successful-research.aspx \|author=Deutsch, Scott \|title=Tomorrow’s Successful Research Organizations Face a Critical Challenge \|publisher=Scientific Computing \|date=30 July 2008 \|accessdate=04 May 2011}}</ref> 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 (SOPs, 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.<ref name="SciComp1" />		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.<ref name="SciComp1">{{cite web\|url=http://www.scientificcomputing.com/tomorrows-successful-research.aspx \|author=Deutsch, Scott \|title=Tomorrow’s Successful Research Organizations Face a Critical Challenge \|publisher=Scientific Computing \|date=30 July 2008 \|accessdate=04 May 2011}}</ref> 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 (SOPs, 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.<ref name="SciComp1" />

	Some of the things a standard SDMS may be asked to do include, but are not limited to<ref name="SDMArch">{{cite web \|url=http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html \|archiveurl=http://web.archive.org/web/20120306015034/http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html \|author=Valle, Mario \|title=Scientific Data Management \|publisher=Swiss National Supercomputing Center \|archivedate=06 March 2012 \|accessdate=05 March 2013}}</ref><ref>Heyward, Joseph E. II (2009). [https://scholarworks.iupui.edu/handle/1805/2000 "Selection of a Scientific Data Management System (SDMS) Based on User Requirements"], pp. 1–5 (PDF).</ref>:		Some of the things a standard SDMS may be asked to do include, but are not limited to<ref name="SDMArch">{{cite web \|url=http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html \|archiveurl=http://web.archive.org/web/20120306015034/http://personal.cscs.ch/~mvalle/sdm/scientific-data-management.html \|author=Valle, Mario \|title=Scientific Data Management \|publisher=Swiss National Supercomputing Center \|archivedate=06 March 2012 \|accessdate=05 March 2013}}</ref><ref>Heyward, Joseph E. II (2009). [https://scholarworks.iupui.edu/handle/1805/2000 "Selection of a Scientific Data Management System (SDMS) Based on User Requirements"], pp. 1–5 (PDF).</ref>: