title: Enzyme kinetics informatics: from instrument to browser.
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 kineticswizard, 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.
authors.affiliation: Manchester Centre for Integrative Systems Biology, University of Manchester, Manchester, UK. neil.swainston@manchester.ac.uk
authors.forename: Neil
authors.initials: N
authors.lastname: Swainston
authors.forename: Martin
authors.initials: M
authors.lastname: Golebiewski
authors.forename: Hanan L
authors.initials: HL
authors.lastname: Messiha
authors.forename: Naglis
authors.initials: N
authors.lastname: Malys
authors.forename: Renate
authors.initials: R
authors.lastname: Kania
authors.forename: Sylvestre
authors.initials: S
authors.lastname: Kengne
authors.forename: Olga
authors.initials: O
authors.lastname: Krebs
authors.forename: Saqib
authors.initials: S
authors.lastname: Mir
authors.forename: Heidrun
authors.initials: H
authors.lastname: Sauer-Danzwith
authors.forename: Kieran
authors.initials: K
authors.lastname: Smallbone
authors.forename: Andreas
authors.initials: A
authors.lastname: Weidemann
authors.forename: Ulrike
authors.initials: U
authors.lastname: Wittig
authors.forename: Douglas B
authors.initials: DB
authors.lastname: Kell
authors.forename: Pedro
authors.initials: P
authors.lastname: Mendes
authors.forename: Wolfgang
authors.initials: W
authors.lastname: Müller
authors.forename: Norman W
authors.initials: NW
authors.lastname: Paton
authors.forename: Isabel
authors.initials: I
authors.lastname: Rojas
mesh_terms: D057225:Data Mining; D030562:Databases, Protein; D001330:Electronic Data Processing; D004798:Enzymes / Q000378:metabolism*; D020407:Internet; D007700:Kinetics; D011994:Recombinant Proteins / Q000378:metabolism; D012984:Software; D049490:Systems Biology / Q000379:methods*
chemical_list: D004798:Enzymes; D011994:Recombinant Proteins