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ChlamyCyc – a comprehensive database and web-portal centered on Chlamydomonas reinhardtii

Jan-Ole Christian¹, Patrick May¹, Stefan Kempa² & Dirk Walther¹

Correspondence: (Login to view email address)

1. Max Planck Institut of Molecular Plant Physiology, Potsdam, Germany
2. Institute of Biology and Biochemistry, University Potsdam, Germany

PPT (1.4 MB) PDF (852.9 KB)

Document Type:

Poster

Date:

Received 20 April 2009 23:01 UTC; Posted 21 April 2009

Subjects:

Genetics & Genomics, Bioinformatics, Plant Biology

Tags:

• MetaCyc
• BioCyc
• pathway
• Tools
• database
• blast
• mapman
• ontology
• omics
• high-throughput
• protein
• RNA
• Chlamydomonas reinhardtii
• metabolic pathways
• web portal
• genome browser
• Search tool
• enzymatic reactions
• systems biology
• download sequences
• ChlamyCyc
• data curation
• biocuration

Abstract:

Background – The unicellular green alga Chlamydomonas reinhardtii is an important eukaryotic model organism for the study of photosynthesis and growth, as well as flagella development and other cellular processes. In the era of high-throughput technologies there is an imperative need to integrate large-scale data sets from high-throughput experimental techniques using computational methods and database resources to provide comprehensive information about the whole cellular system of a single organism.
Results – In the framework of the German Systems Biology initiative GoFORSYS a pathway/genome database and web-portal for Chlamydomonas reinhardtii (ChlamyCyc) was established, which currently features about 270 metabolic pathways with related genes, enzymes, and compound information. ChlamyCyc was assembled using an integrative approach combining the recently published genome sequence, bioinformatics methods, and experimental data from metabolomics and proteomics experiments. We analyzed and integrated a combination of primary and secondary database resources, such as existing genome annotations from JGI, EST collections, orthology information, and MapMan classification.
Conclusion – Chlamycyc provides a curated and integrated systems biology repository that will enable and assist in systematic studies of fundamental cellular processes in Chlamydomonas reinhardtii. The ChlamyCyc database and web-portal is freely available under http://chlamycyc.mpimp-golm.mpg.de.

Collection:

3rd International Biocuration Conference

Presented at:

3rd International Biocuration Conference, 16 April 2009

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Additional information

License:

This document is licensed to the public under the Creative Commons Attribution 3.0 License

How to cite this document:

Christian, Jan-Ole , May, Patrick, Kempa, Stefan, and Walther, Dirk. ChlamyCyc – a comprehensive database and web-portal centered on Chlamydomonas reinhardtii. Available from Nature Precedings <http://dx.doi.org/10.1038/npre.2009.3108.1> (2009)

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