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Updated: May 29, 2026
08:01
A Web Tool for Generating High Quality Machine-readable Biological Pathways
Published on: February 8, 2017
The SEEK: a platform for sharing data and models in systems biology
Katy Wolstencroft1, Stuart Owen, Franco du Preez
1School of Computer Science, University of Manchester, Manchester, United Kingdom.
Methods in Enzymology
|September 28, 2011
Summary
The SEEK platform facilitates systems biology research by enabling the management and exchange of heterogeneous experimental data and mathematical models. It promotes data sharing and reuse within consortia and the wider scientific community.
Area of Science:
- Systems biology
- Bioinformatics
- Computational biology
Background:
- Systems biology research involves multidisciplinary, distributed teams generating heterogeneous, high-throughput 'omics' data.
- Iterative model development from experimental data and literature necessitates efficient data and model exchange.
- There is a growing need to record, share, and reuse research outputs, including data, models, and protocols.
Purpose of the Study:
- To present the SEEK platform as an open-source, Web-based solution for managing and exchanging systems biology data and models.
- To highlight SEEK's functionalities and methods for overcoming barriers to adopting standard data formats.
- To promote SEEK as an adaptable tool for diverse systems biology projects.
Main Methods:
- Development of an open-source, Web-based platform (SEEK) for data and model management.
- Integration of community tools like JWS Online and PubMed plug-ins.
- Implementation of features encouraging data sharing, annotation, and use of standard formats.
Main Results:
- SEEK provides an indexed resource and gateway to systems biology tools and services.
- It facilitates linking publications to supporting data and author profiles.
- The platform encourages, but does not mandate, adherence to community standards for data and model exchange.
Conclusions:
- SEEK offers a pragmatic solution for data management in systems biology research consortia.
- The platform addresses the increasing need to record, manage, and exploit growing volumes of biological data.
- SEEK is adaptable to specific project needs, promoting data dissemination and reuse.
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