The DOI matches its Crossref record; 43 of the 43 references it cites were found in a registry or an index.
DNA-binding specificities of plant transcription factors and their potential to define target genes
Open accessAbstract
Significance: We described the high-throughput identification of DNA-binding specificities of 63 plant transcription factors (TFs) and their relevance as cis- regulatory elements in vivo. Almost half of the TFs recognized secondary motifs partially or completely differing from their corresponding primary ones. Analysis of coregulated genes, transcriptomic data, and chromatin hypersensitive regions revealed the biological relevance of more than 80% of the binding sites identified. Our combined analysis allows the prediction of the function of a particular TF as activator or repressor through a particular DNA sequence. The data support the correlation between cis- regulatory elements in vivo and the sequence determined in vitro. Moreover, it provides a framework to explore regulatory networks in plants and contributes to decipher the transcriptional regulatory code.
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Cites
An integrated encyclopedia of DNA elements in the human genome
The ENCODE Project Consortium (2012) · Nature · doi:10.1038/nature11247 · Cited by 18,072
MYB transcription factors in Arabidopsis
Dubos, C., Stracke, R., Grotewold, E., Weisshaar, B., Martin, C., & Lepiniec, L. (2010) · Trends in Plant Science · doi:10.1016/j.tplants.2010.06.005 · Cited by 4,865
Arabidopsis Transcription Factors: Genome-Wide Comparative Analysis Among Eukaryotes
Riechmann, J. L., Heard, J., Martin, G., Reuber, L., Jiang, C.-Z., Keddie, J., Adam, L., Pineda, O., Ratcliffe, O. J., Samaha, R. R., et al. (2000) · Science · doi:10.1126/science.290.5499.2105 · Cited by 2,807
The accessible chromatin landscape of the human genome
Thurman, R. E., Rynes, E., Humbert, R., Vierstra, J., Maurano, M. T., Haugen, E., Sheffield, N. C., Stergachis, A. B., Wang, H., Vernot, B., et al. (2012) · Nature · doi:10.1038/nature11232 · Cited by 2,679
Transcriptional regulatory code of a eukaryotic genome
Harbison, C. T., Gordon, D. B., Lee, T. I., Rinaldi, N. J., Macisaac, K. D., Danford, T. W., Hannett, N. M., Tagne, J.-B., Reynolds, D. B., Yoo, J., et al. (2004) · Nature · doi:10.1038/nature02800 · Cited by 2,143
Genevestigator V3: A Reference Expression Database for the Meta‐Analysis of Transcriptomes
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bZIP transcription factors in Arabidopsis
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DNA-Binding Specificities of Human Transcription Factors
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Cited by
Mathelier, A., Fornes, O., Arenillas, D. J., Chen, C.-Y., Denay, G., Lee, J., Shi, W., Shyr, C., Tan, G., Worsley-Hunt, R., et al. (2016) · Nucleic Acids Research · doi:10.1093/nar/gkv1176 · Cited by 937
Multi-level engineering facilitates the production of phenylpropanoid compounds in tomato
Zhang, Y., Butelli, E., Alseekh, S., Tohge, T., Rallapalli, G., Luo, J., Kawar, P. G., Hill, L., Santino, A., Fernie, A. R., et al. (2015) · Nature Communications · doi:10.1038/ncomms9635 · Cited by 365
Abundant clock proteins point to missing molecular regulation in the plant circadian clock
(2025) · doi:10.1038/s44320-025-00086-5 · Cited by 4
Metadata
- Authors
- Franco-Zorrilla, J. M., López-Vidriero, I., Carrasco, J. L., Godoy, M., Vera, P., & Solano, R.
- Venue
- Proceedings of the National Academy of Sciences
- Published
- 2014-01-29
- Volume
- 111
- Issue
- 6
- Pages
- 2367-2372
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- OpenAlex
- W2024058212
- Cited by
- 746
- References
- 43
- FWCI
- 65.96
- Type
- journal article
- Language
- en
- Open access
- bronze
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