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Database of Biological Systems

Tutorial and training materials by OpenHelix

BioSystems is a new NCBI database of biological systems. It contains a tremendous variety of information regarding groups of molecules that interact in many types of biological systems. Biological systems, or BioSystems, are broadly defined to include not only the more traditional signaling pathways, but also diseases, and more. Many associated components are described, including genes, proteins, small molecules, biomarkers and drugs. You can use this database to find all the molecules in a specific pathway, to find pathways in which a specific molecule is involved, or to find structures for associate protein components, for example. BioSystems can be searched with very simple keyword or ID queries, or you can utilize some of the many types of advanced searches offered. Because BioSystems is part of NCBIs Entrez system of databases you have access to a tremendous variety of tools to customize your searches and results, and to find more information. The links to related data are extensive, and allow you to further your explorations by linking to the biological systems associated literature, molecular and chemical data.

You'll learn:

  • to perform basic searches and to understand your results
  • to link out to a variety of related information in many different fields
  • about some Entrez tools that you can use to customize your searches and results
  • how to access and customize full-size pathway images
  • some advanced searching techniques, including Boolean queries and batch searching


View additional tutorials for resources in

  • Pathways
  • NCBI : This category includes all resources maintained at the National Center for Biotechnology Information (NCBI)

Recent BioMed Central research articles citing this resource

Stevens Adam et al., Can network biology unravel the aetiology of congenital hyperinsulinism?. Orphanet Journal of Rare Diseases (2013) doi:10.1186/1750-1172-8-21

Iourov Y Ivan et al., Molecular karyotyping by array CGH in a Russian cohort of children with intellectual disability, autism, epilepsy and congenital anomalies. Molecular Cytogenetics (2012) doi:10.1186/1755-8166-5-46

Cui Guangyu et al., Prediction of protein-protein interactions between viruses and human by an SVM model Advanced intelligent computing theories and their applications in bioinformatics. Proceedings of the 2011 International Conference on Intelligent Computing (ICIC 2011) The 2011 International Conference on Intelligent Computing (ICIC 2011). BMC Bioinformatics (2012) doi:10.1186/1471-2105-13-S7-S5

Gruszka Damian et al., The barley EST DNA Replication and Repair Database (bEST-DRRD) as a tool for the identification of the genes involved in DNA replication and repair. BMC Plant Biology (2012) doi:10.1186/1471-2229-12-88

Zhang Shannon et al., Was the Scanner Calibration Slide used for its intended purpose?. BMC Bioinformatics (2011) doi:10.1186/1471-2105-12-110

More about the resource:

BioSystems is brought to you by The National Center for Biotechnology Information (NCBI) which is part of the National Library of Medicine (NLM) at the National Institutes of Health (NIH). Currently BioSystems imports data from KEGG, and the EcoCyc subset of BioCyc. BioSystems will expand to include more data sources in the future, as more data becomes available.

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The materials and slides offered can not be resold or used for profit purposes. Reproduction, distribution and/or use is strictly limited to instructional purposes only and can not be used for for monetary gain or wide distribution.
Copyright 2009, OpenHelix, LLC.

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