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Identification of genes required for cellulose synthesis by regression analysis of public microarray data sets
Open accessAbstract
Coexpression patterns of gene expression across many microarray data sets may reveal networks of genes involved in linked processes. To identify factors involved in cellulose biosynthesis, we used a regression method to analyze 408 publicly available Affymetrix Arabidopsis microarrays. Expression of genes previously implicated in cellulose synthesis, as well as several uncharacterized genes, was highly coregulated with expression of cellulose synthase (CESA) genes. Four candidate genes, which were coexpressed with CESA genes implicated in secondary cell wall synthesis, were investigated by mutant analysis. Two mutants exhibited irregular xylem phenotypes similar to those observed in mutants with defects in secondary cellulose synthesis and were designated irx8 and irx13 . Thus, the general approach developed here is useful for identification of elements of multicomponent processes.
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Cites
Cluster analysis and display of genome-wide expression patterns
Eisen, M. B., Spellman, P. T., Brown, P. O., & Botstein, D. (1998) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.95.25.14863 · Cited by 16,184
Cited by
Cosgrove, D. J. (2005) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm1746 · Cited by 3,308
Microarray data analysis: from disarray to consolidation and consensus
Allison, D. B., Cui, X., Page, G. P., & Sabripour, M. (2006) · Nature Reviews Genetics · doi:10.1038/nrg1749 · Cited by 1,339
Self-citationEvolving Views of Pectin Biosynthesis
Atmodjo, M. A., Hao, Z., & Mohnen, D. (2013) · Annual Review of Plant Biology · doi:10.1146/annurev-arplant-042811-105534 · Cited by 625
Decoding genes with coexpression networks and metabolomics – ‘majority report by precogs’
Saito, K., Hirai, M. Y., & Yonekura-Sakakibara, K. (2008) · Trends in Plant Science · doi:10.1016/j.tplants.2007.10.006 · Cited by 327
Comparative study of RNA-seq- and Microarray-derived coexpression networks in Arabidopsis thaliana
Giorgi, F. M., Del Fabbro, C., & Licausi, F. (2013) · Bioinformatics · doi:10.1093/bioinformatics/btt053 · Cited by 103
“Received on September 10, 2012; revised on January 19, 2013; accepted on January 28, 2013”
Metadata
- Authors
- Persson, S., Wei, H., Milne, J., Page, G. P., & Somerville, C. R.
- Venue
- Proceedings of the National Academy of Sciences
- Published
- 2005-06-02
- Volume
- 102
- Issue
- 24
- Pages
- 8633-8638
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- OpenAlex
- W2074403192
- Cited by
- 595
- References
- 1
- FWCI
- 44.74
- Type
- journal article
- Language
- en
- Open access
- green
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- Persson, S., Wei, H., Milne, J., Page, G. P., & Somerville, C. R. (2005). Identification of genes required for cellulose synthesis by regression analysis of public microarray data sets. Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.0503392102
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