Enhancing scatterplots with smoothed densities. - Paul H. C. Eilers; Jelle J. Goeman (Bioinform., 2004)

A global test for groups of genes: testing association with a clinical outcome. - Jelle J. Goeman; Sara A. van de Geer; Floor de Kort; Hans C. van Houwelingen (Bioinform., 2004)

Testing association of a pathway with survival using gene expression data. - Jelle J. Goeman; Jan Oosting; Anne-Marie Cleton-Jansen; Jakob K. Anninga; Hans C. van Houwelingen (Bioinform., 2005)

Analyzing gene expression data in terms of gene sets: methodological issues. - Jelle J. Goeman; Peter Bühlmann (Bioinform., 2007)

Multiple testing on the directed acyclic graph of gene ontology. - Jelle J. Goeman; Ulrich Mansmann (Bioinform., 2008)

Literature-aided interpretation of gene expression data with the weighted global test. - Rob Jelier; Jelle J. Goeman; Kristina M. Hettne; Martijn J. Schuemie; Johan T. den Dunnen; Peter A. C. 't Hoen (Briefings Bioinform., 2011)

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)

An alternative approach to multiple testing for methylation QTL mapping reduces the proportion of falsely identified CpGs. - René Luijk; Jelle J. Goeman; P. Eline Slagboom; Bastiaan T. Heijmans; Erik W. van Zwet (Bioinform., 2015)

Multiple Testing of Gene Sets from Gene Ontology: Possibilities and Pitfalls. - Rosa J. Meijer; Jelle J. Goeman (Briefings Bioinform., 2016)

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)

What (not) to expect when classifying rare events. - Rok Blagus; Jelle J. Goeman (Briefings Bioinform., 2018)

All-Resolutions Inference for brain imaging. - Jonathan D. Rosenblatt; Livio Finos; Wouter D. Weeda; Aldo Solari; Jelle J. Goeman (NeuroImage, 2018)

Simultaneous Enrichment Analysis of all Possible Gene-sets: Unifying Self-Contained and Competitive Methods. - Mitra Ebrahimpoor; Pietro Spitali; Kristina M. Hettne; Roula Tsonaka; Jelle J. Goeman (Briefings Bioinform., 2020)

Comments on: Hierarchical inference for genome-wide association studies by Jelle J. Goeman and Stefan Böhringer. - Jelle J. Goeman; Stefan Böhringer (Comput. Stat., 2020)

Inflated false discovery rate due to volcano plots: problem and solutions. - Mitra Ebrahimpoor; Jelle J. Goeman (Briefings Bioinform., 2021)

NetTDP: permutation-based true discovery proportions for differential co-expression network analysis. - Menglan Cai; Anna Vesely; Xu Chen; Limin Li; Jelle J. Goeman (Briefings Bioinform., 2022)