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BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks.
Maere S, Heymans K, Kuiper M. Maere S, et al. Among authors: kuiper m. Bioinformatics. 2005 Aug 15;21(16):3448-9. doi: 10.1093/bioinformatics/bti551. Epub 2005 Jun 21. Bioinformatics. 2005. PMID: 15972284
Clustering of gene expression profiles: creating initialization-independent clusterings by eliminating unstable genes.
De Mulder W, Kuiper M, Boel R. De Mulder W, et al. Among authors: kuiper m. J Integr Bioinform. 2010 Mar 25;7(3). doi: 10.2390/biecoll-jib-2010-134. J Integr Bioinform. 2010. PMID: 20375463
Reasoning with bio-ontologies: using relational closure rules to enable practical querying.
Blondé W, Mironov V, Venkatesan A, Antezana E, De Baets B, Kuiper M. Blondé W, et al. Among authors: kuiper m. Bioinformatics. 2011 Jun 1;27(11):1562-8. doi: 10.1093/bioinformatics/btr164. Epub 2011 Apr 5. Bioinformatics. 2011. PMID: 21471019
The Cell Cycle Ontology: an application ontology for the representation and integrated analysis of the cell cycle process.
Antezana E, Egaña M, Blondé W, Illarramendi A, Bilbao I, De Baets B, Stevens R, Mironov V, Kuiper M. Antezana E, et al. Among authors: kuiper m. Genome Biol. 2009;10(5):R58. doi: 10.1186/gb-2009-10-5-r58. Epub 2009 May 29. Genome Biol. 2009. PMID: 19480664 Free PMC article.
Quantitative RNA expression analysis with Affymetrix Tiling 1.0R arrays identifies new E2F target genes.
Naouar N, Vandepoele K, Lammens T, Casneuf T, Zeller G, van Hummelen P, Weigel D, Rätsch G, Inzé D, Kuiper M, De Veylder L, Vuylsteke M. Naouar N, et al. Among authors: kuiper m. Plant J. 2009 Jan;57(1):184-94. doi: 10.1111/j.1365-313X.2008.03662.x. Epub 2008 Sep 19. Plant J. 2009. PMID: 18764924
Genome-wide screening for cis-regulatory variation using a classical diallel crossing scheme.
Kiekens R, Vercauteren A, Moerkerke B, Goetghebeur E, Van Den Daele H, Sterken R, Kuiper M, van Eeuwijk F, Vuylsteke M. Kiekens R, et al. Among authors: kuiper m. Nucleic Acids Res. 2006 Aug 2;34(13):3677-86. doi: 10.1093/nar/gkl510. Print 2006. Nucleic Acids Res. 2006. PMID: 16885241 Free PMC article.
Genetic dissection of transcriptional regulation by cDNA-AFLP.
Vuylsteke M, Daele H, Vercauteren A, Zabeau M, Kuiper M. Vuylsteke M, et al. Among authors: kuiper m. Plant J. 2006 Feb;45(3):439-46. doi: 10.1111/j.1365-313X.2005.02630.x. Plant J. 2006. PMID: 16412088
The Arabidopsis leaf as a model system for investigating the role of cell cycle regulation in organ growth.
Beemster GT, Vercruysse S, De Veylder L, Kuiper M, Inzé D. Beemster GT, et al. Among authors: kuiper m. J Plant Res. 2006 Jan;119(1):43-50. doi: 10.1007/s10265-005-0234-2. Epub 2005 Nov 15. J Plant Res. 2006. PMID: 16292465
Genetic analysis of variation in gene expression in Arabidopsis thaliana.
Vuylsteke M, van Eeuwijk F, Van Hummelen P, Kuiper M, Zabeau M. Vuylsteke M, et al. Among authors: kuiper m. Genetics. 2005 Nov;171(3):1267-75. doi: 10.1534/genetics.105.041509. Epub 2005 Jul 14. Genetics. 2005. PMID: 16020790 Free PMC article.
The cyclin-dependent kinase inhibitor KRP2 controls the onset of the endoreduplication cycle during Arabidopsis leaf development through inhibition of mitotic CDKA;1 kinase complexes.
Verkest A, Manes CL, Vercruysse S, Maes S, Van Der Schueren E, Beeckman T, Genschik P, Kuiper M, Inzé D, De Veylder L. Verkest A, et al. Among authors: kuiper m. Plant Cell. 2005 Jun;17(6):1723-36. doi: 10.1105/tpc.105.032383. Epub 2005 Apr 29. Plant Cell. 2005. PMID: 15863515 Free PMC article.
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