Abstract:
:Arabidopsis thaliana is a reference plant that has been studied intensively for several decades. Recent advances in high-throughput experimental technology have enabled the generation of an unprecedented amount of data from A. thaliana, which has facilitated data-driven approaches to unravel the genetic organization of plant phenotypes. We previously published a description of a genome-scale functional gene network for A. thaliana, AraNet, which was constructed by integrating multiple co-functional gene networks inferred from diverse data types, and we demonstrated the predictive power of this network for complex phenotypes. More recently, we have observed significant growth in the availability of omics data for A. thaliana as well as improvements in data analysis methods that we anticipate will further enhance the integrated database of co-functional networks. Here, we present an updated co-functional gene network for A. thaliana, AraNet v2 (available at http://www.inetbio.org/aranet), which covers approximately 84% of the coding genome. We demonstrate significant improvements in both genome coverage and accuracy. To enhance the usability of the network, we implemented an AraNet v2 web server, which generates functional predictions for A. thaliana and 27 nonmodel plant species using an orthology-based projection of nonmodel plant genes on the A. thaliana gene network.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Lee T,Yang S,Kim E,Ko Y,Hwang S,Shin J,Shim JE,Shim H,Kim H,Kim C,Lee Idoi
10.1093/nar/gku1053subject
Has Abstractpub_date
2015-01-01 00:00:00pages
D996-1002issue
Database issueeissn
0305-1048issn
1362-4962pii
gku1053journal_volume
43pub_type
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