Research article
Inferring transcriptional gene regulation network of starch metabolism in Arabidopsis thaliana leaves using graphical Gaussian model
1 School of Bioresources and Technology, King Mongkut’s University of Technology Thonburi, Bangkok, 10140, Thailand
2 National Center for Genetic Engineering and Biotechnology, Pathumthani, 12120, Thailand
3 Department of Statistics, Faculty of Science, Chiang Mai University, Chiang Mai, 50200, Thailand
4 Department of Chemical Engineering, Faculty of Engineering, King Mongkut’s University of Technology Thonburi, Bangkok, 10140, Thailand
5 Department of Computer Science, Faculty of Science, Chiang Mai University, Chiang Mai, 50200, Thailand
6 RIKEN Plant Science Center, Yokohama, 230-0045, Japan
7 Department of Biochemistry & Molecular Biology, Michigan State University, 603 Wilson Rd, East Lansing, MI, 48824, USA
BMC Systems Biology 2012, 6:100 doi:10.1186/1752-0509-6-100
Published: 16 August 2012Additional files
Additional file 1:
Figure S1. The gene association network of 11 carbon-related metabolisms inferred from GGM (Q < 0.05).
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Additional file 2:
Table S1. Genes in the starch sub-network.
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Additional file 3:
Table S2. Prediction of TF binding sites in 12 starch metabolic genes (2 kb-upstream).
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Additional file 4:
Figure S2. Expression patterns of 2 TFs, At3g07650 (COL9) and At1g05805 (bHLH), and their target genes.
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Additional file 5:
Figure S3. Expression patterns of starch genes in other regulatory modules.
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Additional file 6:
Figure S4. Expression pattern of C2H2 gene in the wild type, Atidd5, and col mutants quantified by qRT-PCR.
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Additional file 7:
Table S3. Descriptive statistics of chloroplast morphology, starch granule morphology, and starch granule number in the wild type, Atidd5, and col mutants.
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Additional file 8:
Table S4. T-DNA insertion lines of 6 candidate TFs that were utilized in this experiment.
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Additional file 9:
Table S5. Primer pairs for quantitative RT-PCR.
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