On the Consistency between Gene Expression and the Gene Regulatory Network of Corynebacterium glutamicum

Parise D, Parise MTD, Kataka E, Kato RB, List M, Tauch A, Azevedo VA de C, Baumbach J (2021)
Network and systems medicine 4(1): 51-59.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
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Autor*in
Parise, Doglas; Parise, Mariana Teixeira Dornelles; Kataka, Evans; Kato, Rodrigo Bentes; List, Markus; Tauch, AndreasUniBi; Azevedo, Vasco Ariston de Carvalho; Baumbach, Jan
Abstract / Bemerkung
Background: Transcriptional regulation of gene expression is crucial for the adaptation and survival of bacteria. Regulatory interactions are commonly modeled as Gene Regulatory Networks (GRNs) derived from experiments such as RNA-seq, microarray and ChIP-seq. While the reconstruction of GRNs is fundamental to decipher cellular function, even GRNs of economically important bacteria such as Corynebacterium glutamicum are incomplete. Materials and Methods: Here, we analyzed the predictive power of GRNs if used as in silico models for gene expression and investigated the consistency of the C. glutamicum GRN with gene expression data from the GEO database. Results: We assessed the consistency of the C. glutamicum GRN using real, as well as simulated, expression data and showed that GRNs alone cannot explain the expression profiles well. Conclusion: Our results suggest that more sophisticated mechanisms such as a combination of transcriptional, post-transcriptional regulation and signaling should be taken into consideration when analyzing and constructing GRNs. © Doglas Parise et al., 2021; Published by Mary Ann Liebert, Inc.
Erscheinungsjahr
2021
Zeitschriftentitel
Network and systems medicine
Band
4
Ausgabe
1
Seite(n)
51-59
ISSN
2690-5949
Page URI
https://pub.uni-bielefeld.de/record/2953592

Zitieren

Parise D, Parise MTD, Kataka E, et al. On the Consistency between Gene Expression and the Gene Regulatory Network of Corynebacterium glutamicum. Network and systems medicine. 2021;4(1):51-59.
Parise, D., Parise, M. T. D., Kataka, E., Kato, R. B., List, M., Tauch, A., Azevedo, V. A. de C., et al. (2021). On the Consistency between Gene Expression and the Gene Regulatory Network of Corynebacterium glutamicum. Network and systems medicine, 4(1), 51-59. https://doi.org/10.1089/nsm.2020.0014
Parise, D., Parise, M. T. D., Kataka, E., Kato, R. B., List, M., Tauch, A., Azevedo, V. A. de C., and Baumbach, J. (2021). On the Consistency between Gene Expression and the Gene Regulatory Network of Corynebacterium glutamicum. Network and systems medicine 4, 51-59.
Parise, D., et al., 2021. On the Consistency between Gene Expression and the Gene Regulatory Network of Corynebacterium glutamicum. Network and systems medicine, 4(1), p 51-59.
D. Parise, et al., “On the Consistency between Gene Expression and the Gene Regulatory Network of Corynebacterium glutamicum”, Network and systems medicine, vol. 4, 2021, pp. 51-59.
Parise, D., Parise, M.T.D., Kataka, E., Kato, R.B., List, M., Tauch, A., Azevedo, V.A. de C., Baumbach, J.: On the Consistency between Gene Expression and the Gene Regulatory Network of Corynebacterium glutamicum. Network and systems medicine. 4, 51-59 (2021).
Parise, Doglas, Parise, Mariana Teixeira Dornelles, Kataka, Evans, Kato, Rodrigo Bentes, List, Markus, Tauch, Andreas, Azevedo, Vasco Ariston de Carvalho, and Baumbach, Jan. “On the Consistency between Gene Expression and the Gene Regulatory Network of Corynebacterium glutamicum”. Network and systems medicine 4.1 (2021): 51-59.

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