Frequent Itemsets for Genomic Profiling. - Jeannette M. de Graaf; Renée X. de Menezes; Judith M. Boer; Walter A. Kosters (CompLife, 2005)

Quantile smoothing of array CGH data. - Paul H. C. Eilers; Renée X. de Menezes (Bioinform., 2005)

Dissecting systems-wide data using mixture models: application to identify affected cellular processes. - J. Peter Svensson; Renée X. de Menezes; Ingela Turesson; Micheline Giphart-Gassler; Harry Vrieling (BMC Bioinform., 2005)

Integrated analysis of DNA copy number and gene expression microarray data using gene sets. - Renée X. de Menezes; Marten Boetzer; Melle Sieswerda; Gert-Jan B. van Ommen; Judith M. Boer (BMC Bioinform., 2009)

Filtering, FDR and power. - Maarten van Iterson; Judith M. Boer; Renée X. de Menezes (BMC Bioinform., 2010)

mRNA degradation controls differentiation state-dependent differences in transcript and splice variant abundance. - Peter A. C. 't Hoen; Michael Hirsch 003; Emile J. de Meijer; Renée X. de Menezes; Gert-Jan B. van Ommen; Johan T. den Dunnen (Nucleic Acids Res., 2011)

Matching of array CGH and gene expression microarray features for the purpose of integrative genomic analyses. - Wessel N. van Wieringen; Kristian Unger; Gwenaël G. R. Leday; Oscar Krijgsman; Renée X. de Menezes; Bauke Ylstra; Mark A. van de Wiel (BMC Bioinform., 2012)

A test for comparing two groups of samples when analyzing multiple omics profiles. - Nimisha Chaturvedi; Jelle J. Goeman; Judith M. Boer; Wessel N. van Wieringen; Renée X. de Menezes (BMC Bioinform., 2014)

Analysing multiple types of molecular profiles simultaneously: connecting the needles in the haystack. - Renée X. de Menezes; Leila Mohammadi; Jelle J. Goeman; Judith M. Boer (BMC Bioinform., 2016)

Testing for association between RNA-Seq and high-dimensional data. - Armin Rauschenberger; Marianne A. Jonker; Mark A. van de Wiel; Renée X. de Menezes (BMC Bioinform., 2016)

Rscreenorm: normalization of CRISPR and siRNA screen data for more reproducible hit selection. - Costa Bachas; Jasmina Hodzic; Johannes C. van der Mijn; Chantal Stoepker; Henk M. W. Verheul; Rob M. F. Wolthuis; Emanuela Felley-Bosco; Wessel N. van Wieringen; Victor W. van Beusechem; Ruud H. Brakenhoff; Renée X. de Menezes (BMC Bioinform., 2018)

Sparse classification with paired covariates. - Armin Rauschenberger; Iuliana Ciocanea-Teodorescu; Marianne A. Jonker; Renée X. de Menezes; Mark A. van de Wiel (Adv. Data Anal. Classif., 2020)

Electronic Nose Sensor Drift Affects Diagnostic Reliability and Accuracy of Disease-Specific Algorithms. - Sofie Bosch; Renée X. de Menezes; Suzanne Pees; Dion S. J. Wintjens; Margien Seinen; Gerd Bouma; Johan Kuyvenhoven; Pieter C. F. Stokkers; Tim G. J. de Meij; Nanne K. H. de Boer (Sensors, 2022)

ShrinkCRISPR: a flexible method for differential fitness analysis of CRISPR-Cas9 screen data. - Renaud L. M. Tissier; Janne J. M. van Schie; Rob M. F. Wolthuis; Job de Lange; Renée X. de Menezes (BMC Bioinform., 2023)

A new approach to describe the taxonomic structure of microbiome and its application to assess the relationship between microbial niches. - Vincent Y. Pappalardo; Leyla Azarang; Egija Zaura; Bernd W. Brandt; Renée X. de Menezes (BMC Bioinform., 2024)