Riet De Smet

Postdoc
(Group member from 2011 until 2017)


+ 32 (0) 9 331 3758

VIB / Ghent University
Bioinformatics & Systems Biology
Technologiepark 927
B-9052 Gent
BELGIUM

Papers

(17) Kerchev, P.I., Waszczak, C., Lewandowska, A., Willems, A., Shapiguzov, A., Li, Z., Alseekh, S., Mühlenbock, P., Hoebrichts, F., Huang, J., Van Der Kelen, K., Kangasjarvi, J., Fernie, A., De Smet, R., Van de Peer, Y., Messens, W., Van Breusegem, F. (2016) Lack of GLYCOLATE OXIDASE 1, but not GLYCOLATE OXIDASE 2, attenuates the photorespiratory phenotype of CATALASE2-deficient Arabidopsis. Plant Physiol. 171(3):1704-19.

(16) Li, Z., Defoort, J., Tasdighian, S., Maere, S., Van de Peer, Y., De Smet, R. (2015) Gene duplicability of core genes is highly consistent across all angiosperms. The Plant Cell 28(2):326-44.

(15) De Smet, R., Adams, K., Vandepoele, K., Van Montagu, M., Maere, S., Van de Peer, Y. (2013) Convergent gene loss following gene and genome duplications creates single-copy families in flowering plants. PNAS 110(8):2898-903.

(14) De Smet, R., Van de Peer, Y. (2012) Redundancy and rewiring of genetic networks following genome-wide duplication events. Curr. Opin. Plant Biol. 15(2):168-76.

(13) De Smet, R., Marchal, K. (2011) An ensemble biclustering approach for querying gene expression compendia with experimental lists. Bioinformatics 27, 1948-1956.

(12) Engelen, K., Fu, Q., Meysman, P., Sanchez-Rodriguez, A., De Smet, R., Lemmens, K., Marchal, K. (2011) COLOMBOS: Access Port for Cross-Platform Bacterial Expression Compendia. PLoS One 6, 1948-1956.

(11) Zhao, Q., Cloots, L., Van den Bulcke, T., Wu, H.-J., De Smet, R., Storms, V., Meysman, P., Engelen, K., Marchal, K. (2011) Query-based biclustering of gene expression data using Probabilistic Relational Models. BMC Bioinformatics 12 Suppl 1:S37.

(10) Cloots, L., Zhao, H., Van den Bulcke, T., Wu, Y., De Smet, R., Storms, V., Meysman, P., Engelen, K., Marchal, K. (2011) Query-based biclustering of gene expression data using Probabilistic Relational Models. BMC Bioinformatics 12(Suppl 1): S37.

(9) Meysman, P., D. Thanh, H., Laukens, K., De Smet, R., Wu, Y., Marchal, K., Engelen, K. (2011) Use of structural DNA properties for the prediction of transcription-factor binding sites in Escherichia coli. Nucleic Acids Res. 39, 1245.

(8) Meysman, P., Dang, T. H., Laukens, K., De Smet, R., Wu, H.-J., Marchal, K., Engelen, K. (2011) Use of structural DNA properties for the prediction of transcription factor binding sites. Nucleic Acids Res. 39(2):e6.

(7) De Smet, R., Marchal, K. (2010) An ensemble method for querying gene expression compendia with experimental lists. Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine (BIBM2010) 314-318, Hong Kong, China.

(6) De Smet, R., Marchal, K. (2010) Advantages and limitations of current network inference methods. Nat. Rev. Microbiol. 8(10):717-29.

(5) De Smet, R., Lemmens, K., Fierro, A.C., Marchal, K. (2010) Systems Microbiology: Gaining Insights in Transcriptional Networks. Infectious Disease Informatics (Book Chapter, Ed. Sintchenko V.),93-122.

(4) Michoel, T., De Smet, R., Joshi, A., Van de Peer, Y., Marchal, K. (2009) Comparative analysis of module-based versus direct methods for reverse-engineering transcriptional regulatory networks. BMC Syst. Biol. 3:49.

(3) Michoel, T., De Smet, R., Joshi, A., Marchal, K., Van de Peer, Y. (2009) Reverse-engineering transcriptional modules from gene expression data. Ann. NY. Acad. Sci. 1158:36-43.

(2) Joshi, A., De Smet, R., Marchal, K., Van de Peer, Y., Michoel, T. (2009) Module networks revisited: computational assessment and prioritization of model predictions. Bioinformatics 25(4):490-6.

(1) Sheng, Q., Moreau, Y., De Smet, R., Marchal, K., De Moor, B. (2005) Advances in cluster analysis of microarray data. In: Azuaje F., Dopazo J. (Eds.), Data analysis and visualization in genomics and proteomics, Chapt. 10. Chichester, UK: John Wiley & Sons Ltd. 153-173.











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Bioinformatics & Evolutionary Genomics
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B-9052 Gent
BELGIUM
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