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  1. Article

    Open Access

    Comparative analysis of module-based versus direct methods for reverse-engineering transcriptional regulatory networks

    A myriad of methods to reverse-engineer transcriptional regulatory networks have been developed in recent years. Direct methods directly reconstruct a network of pairwise regulatory interactions while module-b...

    Tom Michoel, Riet De Smet, Anagha Joshi, Yves Van de Peer in BMC Systems Biology (2009)

  2. No Access

    Article

    Advantages and limitations of current network inference methods

  3. Recently several novel tools for inferring transcriptional networks from expression data have been developed. Computationally inferred interactions offer a use...

  4. Riet De Smet, Kathleen Marchal in Nature Reviews Microbiology (2010)

  5. Article

    Open Access

    Query-based biclustering of gene expression data using Probabilistic Relational Models

    With the availability of large scale expression compendia it is now possible to view own findings in the light of what is already available and retrieve genes with an expression profile similar to a set of gen...

    Hui Zhao, Lore Cloots, Tim Van den Bulcke, Yan Wu, Riet De Smet in BMC Bioinformatics (2011)

  6. Article

    Open Access

    Conservation of Nonsense-Mediated mRNA Decay Complex Components Throughout Eukaryotic Evolution

    Nonsense-mediated mRNA decay (NMD) is an essential eukaryotic process regulating transcript quality and abundance, and is involved in diverse processes including brain development and plant defenses. Although ...

    Barry Causier, Zhen Li, Riet De Smet, James P. B. Lloyd in Scientific Reports (2017)