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  PhytoNet: comparative co-expression network analyses across phytoplankton and land plants

Ferrari, C., Proost, S., Ruprecht, C., & Mutwil, M. (2018). PhytoNet: comparative co-expression network analyses across phytoplankton and land plants. Nucleic Acids Research, 46(W1), W76-W83. doi:10.1093/nar/gky298.

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Item Permalink: http://hdl.handle.net/21.11116/0000-0001-4DBA-8 Version Permalink: http://hdl.handle.net/21.11116/0000-0001-E8CE-2
Genre: Journal Article

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 Creators:
Ferrari, Camilla, Author
Proost, Sebastian, Author
Ruprecht, Colin1, Author              
Mutwil, Marek, Author
Affiliations:
1Fabian Pfrengle, Biomolekulare Systeme, Max Planck Institute of Colloids and Interfaces, Max Planck Society, ou_1863303              

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 Abstract: Phytoplankton consists of autotrophic, photosynthesizing microorganisms that are a crucial component of freshwater and ocean ecosystems. However, despite being the major primary producers of organic compounds, accounting for half of the photosynthetic activity worldwide and serving as the entry point to the food chain, functions of most of the genes of the model phytoplankton organisms remain unknown. To remedy this, we have gathered publicly available expression data for one chlorophyte, one rhodophyte, one haptophyte, two heterokonts and four cyanobacteria and integrated it into our PlaNet (Plant Networks) database, which now allows mining gene expression profiles and identification of co-expressed genes of 19 species. We exemplify how the co-expressed gene networks can be used to reveal functionally related genes and how the comparative features of PhytoNet allow detection of conserved transcriptional programs between cyanobacteria, green algae, and land plants. Additionally, we illustrate how the database allows detection of duplicated transcriptional programs within an organism, as exemplified by two putative DNA repair programs within Chlamydomonas reinhardtii. PhytoNet is available from www.gene2function.de.

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 Dates: 2018-042018-07-02
 Publication Status: Published in print
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 Identifiers: DOI: 10.1093/nar/gky298
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Title: Nucleic Acids Research
  Other : Nucleic Acids Res
Source Genre: Journal
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Publ. Info: Oxford : Oxford University Press
Pages: - Volume / Issue: 46 (W1) Sequence Number: - Start / End Page: W76 - W83 Identifier: ISSN: 0305-1048