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SABIO-RK specifications


Unique identifier OMICS_32387
Restrictions to use None
Community driven No
Data access Browse
User data submission Not allowed
Maintained Yes



  • person_outline Ulrike Wittig

Publications for SABIO-RK

SABIO-RK citations


A review of computational tools for design and reconstruction of metabolic pathways

PMCID: 5851934
PMID: 29552648
DOI: 10.1016/j.synbio.2017.11.002

[…] rning algorithms can give better predictions with more correctly labeled “big data”. Hence, a database of DNA sequences and the corresponding enzyme substrate and enzyme activity (such as BRENDA and SABIO-RK ) should be included in machine learning workflow to predict enzyme-substrate pairs with high likelihood for interaction.When natural enzymes fail to perform the predicted reaction steps, pro […]


SABIO RK: an updated resource for manually curated biochemical reaction kinetics

Nucleic Acids Res
PMCID: 5753344
PMID: 29092055
DOI: 10.1093/nar/gkx1065

[…] ms for organisms, tissues, kinetic parameters or kinetic rate laws. A partial screenshot of the Visual search containing the diagrams for organisms and tissues is shown in Figure .Search results of a SABIO-RK query can be selected for export by collecting database entries in an export cart. Data can be exported in standard exchange formats including SBML (), BioPAX (), SBPAX (), MatLab (http://www […]


Predictive Modeling of Drug Treatment in the Area of Personalized Medicine

Cancer Inform
PMCID: 4671548
PMID: 26692759
DOI: 10.4137/CIN.S1933

[…] perform enrichment or overrepresentation analysis, eg, of patient molecular data. BioModels and JWS are repositories for mathematical models of biological systems, while databases such as Brenda and SABIO-RK provide additional information on reaction kinetics and kinetic parameters. Detailed information on molecular species and drugs can be found in databases such as ChEMBL. An overview of the fr […]


Elucidation of the molecular mechanisms underlying adverse reactions associated with a kinase inhibitor using systems toxicology

NPJ Syst Biol Appl
PMCID: 5516806
PMID: 28725458
DOI: 10.1038/npjsba.2015.5

[…] and glycogen and G6P content, as measured at the end of the simulation. The kinetic behavior of the pentose–phosphate pathway was described by the kinetic laws published in a previous report and the SABIO-RK database. These kinetic data were implemented into a model formed using systems biology markup language (File S2). Simulations based on this model were performed using MATLAB 2012b. The gluta […]


HEPNet: A Knowledge Base Model of Human Energy Pool Network for Predicting the Energy Availability Status of an Individual

PLoS One
PMCID: 4460090
PMID: 26053019
DOI: 10.1371/journal.pone.0127918

[…] of metabolism from a number of organisms [,]. Enzymes and their kinetic properties are found in various generic and model organism-specific databases which are curated and are included in Uniprot [], SABIO-RK [].A combination of tools is required to model a biological system mathematically []. The process begins by mapping the information for each biochemical reaction and its parameters from its s […]


BioModels: Content, Features, Functionality, and Use

PMCID: 4360671
PMID: 26225232
DOI: 10.1002/psp4.3

[…] ived from pathway resources (Figure A(b)). The pathway information from data resources such as the Kyoto Encyclopedia of Genes and Genomics, BioCarta/Nature Pathway Interaction Database, MetaCyc, and SABIO-RK are automatically converted into standard-compliant computational models. Multiple biological processes, described in 2,616 organisms, were converted into computational models encoded in the […]


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SABIO-RK institution(s)
Scientific Databases and Visualization Group, Heidelberg Institute for Theoretical Studies (HITS gGmbH), Heidelberg, Germany; Modelling of Biological Processes, Centre for Organismal Studies, University of Heidelberg, Heidelberg, Germany
SABIO-RK funding source(s)
Supported by the Klaus Tschira Foundation, German Federal Ministry of Education and Research within de NBI [031A540].

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