ms-lims

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ms-lims
Ms-lims logo.jpg
Developer(s) ms-lims development group
Initial release Unknown
Stable release

7.7.7  (October 18, 2012; 6 years ago (2012-10-18))

[±]
Preview release none [±]
Written in Java
Operating system Cross-platform
Type Laboratory informatics software
License(s) Apache License 2.0
Website code.google.com/p/ms-lims

ms-lims is free open-source laboratory informatics software that automates the processing, identification, quantification, and interpretation of mass spectrometry-based proteomics data.

Product history

Development of ms-lims began in 2003 via the Department of Biochemistry – Ghent University and the Department of Medical Protein Research - VIB.[1] Development began out of a need for automation of mass spectrometer-related proteomics data management and processing within a dynamic client-server architecture.[2] At an unknown point, the ms-lims project moved to Google Project Hosting as a public open-source project.

The following table shows the dates of various releases, based on a listing of download files and release notes on the site.[3][4] Many releases were made before this (shown in this changelog), though release dates are not currently known:

Version Release date
7.7.7 18 October 2012
7.7.6 30 July 2012
7.7.5 23 May 2012
7.7.4 06 April 2012
7.7.3 28 March 2012
7.7.2 21 March 2012
7.7.1 12 March 2012
7.6.10 01 February 2012
7.6.9 01 February 2012
7.6.8 21 December 2011
7.6.7 20 December 2011
7.6.6 25 August 2011
7.6.5 11 August 2011
7.6.4 04 July 2011
7.6.3 01 July 2011
7.6.2 20 June 2011
7.6.1 03 May 2011
7.6.0 24 April 2011
7.5.5 24 March 2011
7.5.4 21 March 2011
7.5.2 03 November 2010
7.5.1 21 October 2010
7.5.0 08 October 2010
7.4.1 09 August 2010
7.4.0 23 June 2010
7.3.3 27 May 2010
7.3.2 21 May 2010
7.3.1 18 May 2010
7.3.0 05 May 2010

Features

Features of ms-lims include[5]:

  • project management
  • mass spectra storage
  • spectra merging
  • extract identifications from dat-file
  • extract quantitations from quantitation files
  • manually validate with built-in peptizer
  • query support
  • binary file storage
  • project analysis tools
  • automated validation of quantitation files

Hardware/software requirements

Installation requirements for ms-lims include:

  • Java 5 or later
  • MySQL (latest)

More installation information can be found in the user manual.

Videos, screenshots, and other media

Entities using ms-lims

Further reading

  • Helsens, Kenny; Colaert, Niklaas; Barsnes, Harald; Muth, Thilo; Flikka, Kristian; Staes, An; Timmerman, Evy; Wortelkamp, Steffi; Sickmann, Albert; Vandekerckhove, Joël; Gevaert, Kris; Martens, Lennart (2010). "ms_lims, a simple yet powerful open source laboratory information management system for MS-driven proteomics". Proteomics 6 (10): 1261–1264. doi:10.1002/pmic.200900409. PMID 20058248. 

External links

References

  1. Helsens, Kenny (15 March 2009). "ms-lims and friends: Tools to store and analyze proteomics information". Ghent University. http://estrellapolar.cnb.csic.es/proteored/Biblioteca/Ficheros/91042909_8-MS-LIMS_and_friends_tools_to_store_and_analyze_large_scale_proteomics_data..pdf. Retrieved 12 October 2012. 
  2. Helsens, Kenny; Colaert, Niklaas; Barsnes, Harald; Muth, Thilo; Flikka, Kristian; Staes, An; Timmerman, Evy; Wortelkamp, Steffi; Sickmann, Albert; Vandekerckhove, Joël; Gevaert, Kris; Martens, Lennart (2010). "ms_lims, a simple yet powerful open source laboratory information management system for MS-driven proteomics". Proteomics 6 (10): 1261–1264. doi:10.1002/pmic.200900409. http://onlinelibrary.wiley.com/doi/10.1002/pmic.200900409/full. 
  3. "Downloads - ms-lims". Google Project Hosting. http://code.google.com/p/ms-lims/downloads/list?can=1&q=&colspec=Filename+Summary+Uploaded+ReleaseDate+Size+DownloadCount. Retrieved 12 October 2012. 
  4. "ReleaseNotes - ms-lims". Google Project Hosting. http://code.google.com/p/ms-lims/wiki/ReleaseNotes. Retrieved 12 October 2012. 
  5. Helsens, Kenny; Colaert, Niklaas; Wortelkamp, Steffi; Barsnes, Harald; Vaudel, Marc; Martens, Lennart. "ms-lims Manual". Ghent University. http://ms-lims.googlecode.com/files/ms_lims_manual.pdf. Retrieved 12 October 2012.