Research article
Articulation of three core metabolic processes in Arabidopsis: Fatty acid biosynthesis, leucine catabolism and starch metabolism
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* Corresponding author: Eve S Wurtele mash@iastate.edu
1 CRS4 Bioinformatics Laboratory, Loc. Piscinamanna, 09010 Pula (CA), Italy
2 Department of Genetics, Development and Cell Biology, Iowa State University, Ames, IA 50011, USA
3 Department of Biochemistry, Biophysics and Molecular Biology, Iowa State University, Ames, IA 50011, USA
BMC Plant Biology 2008, 8:76 doi:10.1186/1471-2229-8-76
Published: 11 July 2008Additional files
Additional file 1:
Genes used in the study. Table lists names, Affy IDs, Locus IDs and references for genes used in the study. Genes that form coexpressed modules at 0.6 correlation threshold (Fig. 2B) are depicted on the color background (blue: fatty acid biosynthesis; red: leucine catabolism; green: starch metabolism).
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Additional file 2:
Metadata for the microarray experiments included in the study.
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Additional file 3:
Genes in the supermodule containing the leucine catabolism pathway. Table lists genes in the supermodule containing the leucine catabolism pathway (shown in Fig. 8), identified as intersection of lists of all genes that are correlated above 0.5 threshold with each of eight genes from leucine catabolism module.
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Additional file 4:
Permutation-based support for the correlations in the co-expression network. Figure shows the permutation-based support for the correlations in the co-expression network of 126 genes in Fig. 2B. For each pair of genes with Pearson correlation above 0.6 this real correlation value (red stars) is compared to the distribution of correlation values obtained in 10,000 permutations of the corresponding expression data vectors (green star, maximum; black star, mean; blue star, minimum; orange bar, values between upper and lower hinges).
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