The DOI matches its Crossref record; 6 of the 6 references it cites were found in a registry or an index.
Regulatory network construction in Arabidopsis by using genome-wide gene expression quantitative trait loci
Open accessAbstract
Accessions of a plant species can show considerable genetic differences that are analyzed effectively by using recombinant inbred line (RIL) populations. Here we describe the results of genome-wide expression variation analysis in an RIL population of Arabidopsis thaliana . For many genes, variation in expression could be explained by expression quantitative trait loci (eQTLs). The nature and consequences of this variation are discussed based on additional genetic parameters, such as heritability and transgression and by examining the genomic position of eQTLs versus gene position, polymorphism frequency, and gene ontology. Furthermore, we developed an approach for genetic regulatory network construction by combining eQTL mapping and regulator candidate gene selection. The power of our method was shown in a case study of genes associated with flowering time, a well studied regulatory network in Arabidopsis . Results that revealed clusters of coregulated genes and their most likely regulators were in agreement with published data, and unknown relationships could be predicted.
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Cites
Smyth, G. K. (2004) · Statistical Applications in Genetics and Molecular Biology · doi:10.2202/1544-6115.1027 · Cited by 11,829
The control of the false discovery rate in multiple testing under dependency
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Statistical significance for genomewide studies
Storey, J. D., & Tibshirani, R. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1530509100 · Cited by 9,692
Genetics of global gene expression
Rockman, M. V., & Kruglyak, L. (2006) · Nature Reviews Genetics · doi:10.1038/nrg1964 · Cited by 666
The landscape of genetic complexity across 5,700 gene expression traits in yeast
Brem, R. B., & Kruglyak, L. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0408709102 · Cited by 603
The genetics of plant metabolism
Keurentjes, J. J. B., Fu, J., de Vos, C. H. R., Lommen, A., Hall, R. D., Bino, R. J., van der Plas, L. H. W., Jansen, R. C., Vreugdenhil, D., & Koornneef, M. (2006) · Nature Genetics · doi:10.1038/ng1815 · Cited by 499
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Cited by
The role of regulatory variation in complex traits and disease
Albert, F. W., & Kruglyak, L. (2015) · Nature Reviews Genetics · doi:10.1038/nrg3891 · Cited by 1,047
Mapping complex disease traits with global gene expression
Cookson, W., Liang, L., Abecasis, G., Moffatt, M., & Lathrop, M. (2009) · Nature Reviews Genetics · doi:10.1038/nrg2537 · Cited by 849
Comparative analysis of proteome and transcriptome variation in mouse
Ghazalpour, A., Bennett, B., Petyuk, V. A., Orozco, L., Hagopian, R., Mungrue, I. N., Farber, C. R., Sinsheimer, J., Kang, H. M., Furlotte, N., et al. (2011) · PLoS Genetics · doi:10.1371/journal.pgen.1001393 · Cited by 624
“For example, ‘‘genetical genomics’’ studies examine transcript levels as a function of genetic variation and use this information to construct models, such as interaction networks, to explain complex phenotypes [1–8].”
BackgroundMetabolomics-assisted breeding: a viable option for crop improvement?
Fernie, A. R., & Schauer, N. (2009) · Trends in Genetics · doi:10.1016/j.tig.2008.10.010 · Cited by 550
What Has Natural Variation Taught Us about Plant Development, Physiology, and Adaptation?
Alonso-Blanco, C., Aarts, M. G. M., Bentsink, L., Keurentjes, J. J. B., Reymond, M., Vreugdenhil, D., & Koornneef, M. (2009) · The Plant Cell · doi:10.1105/tpc.109.068114 · Cited by 478
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Metadata
- Authors
- Keurentjes, J. J. B., Fu, J., Terpstra, I. R., Garcia, J. M., van den Ackerveken, G., Snoek, L. B., Peeters, A. J. M., Vreugdenhil, D., Koornneef, M., & Jansen, R. C.
- Venue
- Proceedings of the National Academy of Sciences
- Published
- 2007-01-30
- Volume
- 104
- Issue
- 5
- Pages
- 1708-1713
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- OpenAlex
- W2115078845
- Cited by
- 340
- References
- 6
- FWCI
- 16.41
- Type
- journal article
- Language
- en
- Open access
- green
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- Keurentjes, J. J. B., Fu, J., Terpstra, I. R., Garcia, J. M., van den Ackerveken, G., Snoek, L. B., Peeters, A. J. M., Vreugdenhil, D., Koornneef, M., & Jansen, R. C. (2007). Regulatory network construction in Arabidopsis by using genome-wide gene expression quantitative trait loci. Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.0610429104
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
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