Enzyme kinetics informatics: from instrument to browser

Swainston, Neil and Golebiewski, Martin and Messiha, Hanan L. and Malys, Naglys and Kania, Renate and Kengne, Sylvestre and Krebs, Olga and Mir, Saqib and Sauer-Danzwith, Heidrun and Smallbone, Kieran and Weidemann, Andreas and Wittig, Ulrike and Kell, Douglas B. and Mendes, Pedro and Müller, Wolfgang and Paton, Norman W. and Rojas, Isabel (2010) Enzyme kinetics informatics: from instrument to browser. FEBS Journal, 277. pp. 3769-3779.

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Abstract

A limited number of publicly available resources provide access to enzyme kinetic parameters. These have been compiled through manual data mining of published papers, not from the original, raw experimental data from which the parameters were calculated. This is largely due to the lack of software or standards to support the capture, analysis, storage and dissemination of such experimental data. Introduced here is an integrative system to manage experimental enzyme kinetics data from instrument to browser. The approach is based on two interrelated databases: the existing SABIO- RK database, containing kinetic data and corresponding metadata, and the newly introduced experimental raw data repository, MeMo-RK. Both systems are publicly available by web browser and web service interfaces and are configurable to ensure privacy of unpublished data. Users of this system are provided with the ability to view both kinetic parameters and the experimental raw data from which they are calculated, providing increased confidence in the data. A data analysis and submission tool, the kinetics- wizard, has been developed to allow the experimentalist to perform data collection, analysis and submission to both data resources. The system is designed to be extensible, allowing integration with other manufacturer instruments covering a range of analytical techniques.

Item Type: Article
Uncontrolled Keywords: data analysis; database; enzyme; kinetics; metadata
Subjects: MSC 2010, the AMS's Mathematics Subject Classification > 92 Biology and other natural sciences
Depositing User: Dr Kieran Smallbone
Date Deposited: 14 Sep 2010
Last Modified: 20 Oct 2017 14:12
URI: http://eprints.maths.manchester.ac.uk/id/eprint/1522

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