From molecular activities and processes to biological function.

TitleFrom molecular activities and processes to biological function.
Publication TypeJournal Article
Year of Publication2001
Authorsvan Helden, J., A. Naim, C. Lemer, R. Mancuso, M. Eldridge, and S. J. Wodak
JournalBrief Bioinform
Date Published2001 Mar
KeywordsAnimals, Classification, Computational Biology, Databases, Factual, Humans, Metabolism, Models, Biological, Molecular Biology

This paper describes how biological function can be represented in terms of molecular activities and processes. It presents several key features of a data model that is based on a conceptual description of the network of interactions between molecular entities within the cell and between cells. This model is implemented in the aMAZE database that presently deals with information on metabolic pathways, gene regulation, sub- or supracellular locations, and transport. It is shown that this model constitutes a useful generalisation of data representations currently implemented in metabolic pathway databases, and that it can furthermore include multiple schemes for categorising and classifying molecular entities, activities, processes and localisations. In particular, we highlight the flexibility offered by our system in representing multiple molecular activities and their control, in viewing biological function at different levels of resolution and in updating this view as our knowledge evolves.

Alternate JournalBrief. Bioinformatics
PubMed ID11465065