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  ChlamyCyc: an integrative systems biology database and web-portal for Chlamydomonas reinhardtii

May, P., Christian, J. O., Kempa, S., & Walther, D. (2009). ChlamyCyc: an integrative systems biology database and web-portal for Chlamydomonas reinhardtii. BMC Genomics, 10, 209. doi:10.1186/1471-2164-10-209.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-0014-2548-7 Version Permalink: http://hdl.handle.net/11858/00-001M-0000-0014-2549-5
Genre: Journal Article

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May-2009-ChlamyCyc_ an integr.pdf (Any fulltext), 815KB
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May, P.1, Author              
Christian, J. O.1, Author              
Kempa, S.2, Author
Walther, D.1, Author              
Affiliations:
1BioinformaticsCIG, Infrastructure Groups and Service Units, Max Planck Institute of Molecular Plant Physiology, Max Planck Society, ou_1753303              
2External Organizations, ou_persistent22              

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Free keywords: biochemical pathway database gene-expression data quantitative proteomics metabolic pathways genome annotation ortholog groups messenger-rna tool mapman alignment
 Abstract: Background: The unicellular green alga Chlamydomonas reinhardtii is an important eukaryotic model organism for the study of photosynthesis and plant growth. In the era of modern 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 molecular and cellular organization of a single organism. Results: In the framework of the German Systems Biology initiative GoFORSYS, a pathway database and web-portal for Chlamydomonas (ChlamyCyc) was established, which currently features about 250 metabolic pathways with associated 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. The ChlamyCyc database and web-portal is freely available under http://chlamycyc.mpimp-golm.mpg.de.

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Language(s): eng - English
 Dates: 2009-05-042009
 Publication Status: Published in print
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 Identifiers: ISI: ISI:000266859800001
DOI: 10.1186/1471-2164-10-209
ISSN: 1471-2164 (Electronic) 1471-2164 (Linking)
URI: ://000266859800001 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2688524/pdf/1471-2164-10-209.pdf?tool=pmcentrez
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Title: BMC Genomics
Source Genre: Journal
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Pages: - Volume / Issue: 10 Sequence Number: - Start / End Page: 209 Identifier: -