STRENDA
STRENDA stands for "Standards for Reporting Enzymology Data"
Enzyme activity data are published in the scientific literature and collected in biological databases. However, the comparison of data which were measured under different experimental conditions, e.g., temperatures, pH, ionic strength, enzyme and substrate concentrations, activators and inhibitors is often difficult and very time consuming. A complete description of the experimental conditions including the used materials and applied methods is necessary for the comparison and for the reproducibility of enzyme activity data. In particular in Systems Biology published data are used to model the behavior of metabolic systems, cellular behavior and the interaction of cells within tissues and organs which requires reliable data to create a high quality of simulation data.
Based on the realization of the inconsistency of published kinetic data for enzymes, and after the participants of the first Beilstein Symposium on Experimental Standard Conditions of Enzyme Characterization have confirmed the prevailing opinion that the standardization of both the procedures and reporting of experimental designs and methods is overdue the Beilstein-Institut initiated the STRENDA project in 2003 with a smaller task force – the STRENDA Commission – being formed as an acting body in 2004.
STRENDA Guidelines[edit]
The STRENDA Commission has developed recommendations to authors for the reporting of enzymology data – the STRENDA Guidelines.[1] - in tight consultation with the science community [2]. These guidelines give the author a set of parameters that should be made available when enzymology data are published in order to provide all relevant information to allow the interpretation, validation and reuse of the data. In 2008 the Guidelines where published but they are still under reviewing on a regular basis by the commission. [3] The aim of the STRENDA Guidelines is to improve the quality of enzymology data published in the scientific literature and available in biological databases. Reliable enzymology data improve the potential to compare, evaluate, interpret and reproduce experimental research results from literature and databases.
As of September 2019 more than 50 international biochemistry journals[4] included the STRENDA Guidelines in the authors guidelines as recommnedations for reporting enzymology data. The STRENDA Guidelines are part of the FAIRDOM Guidelines for systems biology and registered with FAIRsharing.org [5]
STRENDA DB[edit]
To facilitate and improve the reviewing process for scientific journals the STRENDA Guidelines are implemented in STRENDA DB to provide the scientific community with a web-based data assessment tool that combines the check of functional enzyme data in a manuscript during the paper reviewing process. [6]
STRENDA DB requires the input of a defined set of data including the protein examined, the assay conditions, methodologies and techniques applied and the experimental results data as part of a publication to a journal. The system automatically checks the submitted data on compliance with the STRENDA Guidelines and ensures that these data sets are complete and valid. After successful submission a STRENDA Registry Number (SRN) is awarded, a fact sheet (PDF) is created containing all submitted data, and each dataset is assigned a DOI that allows reference and tracking of the data. The data become publicly available in STRENDA DB only after the corresponding article has been peer-reviewed and published in a journal.
The first version of STRENDA DB [7] has been released at the end of 2016 and is freely accessible [8]. Since its release, the first dozen biochemistry journals recommend their authors to use STRENDA DB as a validation tool as well as data repository. STRENDA DB became a repository recommended by re3data and OpenDOAR and is harvested by OpenAIRE.
References[edit]
- ↑ "STRENDA Guidelines".
- ↑ Kettner, C (2007). "Good publication practice as a prerequisite for comparable enzyme data?". In silico biology. 7 (2 Suppl): S57–64. PMID 17822391.
- ↑ Tipton, Keith F.; Armstrong, Richard N.; Bakker, Barbara M.; Bairoch, Amos; Cornish-Bowden, Athel; Halling, Peter J.; Hofmeyr, Jan-Hendrik; Leyh, Thomas S.; Kettner, Carsten; Raushel, Frank M.; Rohwer, Johann; Schomburg, Dietmar; Steinbeck, Christoph (May 2014). "Standards for Reporting Enzyme Data: The STRENDA Consortium: What it aims to do and why it should be helpful". Perspectives in Science. 1 (1–6): 131–137. doi:10.1016/j.pisc.2014.02.012.
- ↑ "STRENDA Journals".
- ↑ "Standards for Reporting Enzymology Data Guidelines". FAIRsharing.org.
- ↑ Apweiler, R; Armstrong, R; Bairoch, A; Cornish-Bowden, A; Halling, PJ; Hofmeyr, JH; Kettner, C; Leyh, TS; Rohwer, J; Schomburg, D; Steinbeck, C; Tipton, K (November 2010). "A large-scale protein-function database". Nature chemical biology. 6 (11): 785. doi:10.1038/nchembio.460. PMID 20956966.
- ↑ "STRENDA DB".
- ↑ Swainston, N; Baici, A; Bakker, BM; Cornish-Bowden, A; Fitzpatrick, PF; Halling, P; Leyh, TS; O'Donovan, C; Raushel, FM; Reschel, U; Rohwer, JM; Schnell, S; Schomburg, D; Tipton, KF; Tsai, MD; Westerhoff, HV; Wittig, U; Wohlgemuth, R; Kettner, C (June 2018). "STRENDA DB: enabling the validation and sharing of enzyme kinetics data". The FEBS journal. 285 (12): 2193–2204. doi:10.1111/febs.14427. PMID 29498804.
External References[edit]
- STRENDA website [1]
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