Lodewyk F. A. Wessels

Publication Activity (10 Years)

Years Active: 1992-2023
Publications (10 Years): 11

Top Topics

Bayesian Analysis

Top Venues

Briefings Bioinform.

Publications

Mirrelijn M. van Nee, Lodewyk F. A. Wessels, Mark A. van de Wiel
ecpc: an R-package for generic co-data models for high-dimensional prediction. BMC Bioinform. 24 (1) (2023)
Soufiane Mourragui, Marco Loog, Mirrelijn M. van Nee, Mark A. van de Wiel, Marcel J. T. Reinders, Lodewyk F. A. Wessels
Percolate: An Exponential Family JIVE Model to Design DNA-Based Predictors of Drug Response. RECOMB (2023)
Soufiane Mourragui, Marco Loog, Mark A van de Wiel, Marcel J. T. Reinders, Lodewyk F. A. Wessels
PRECISE: a domain adaptation approach to transfer predictors of drug response from pre-clinical models to tumors. Bioinform. 35 (14) (2019)
Yipeng Song, Johan A. Westerhuis, Nanne Aben, Magali Michaut, Lodewyk F. A. Wessels, Age K. Smilde
Principal component analysis of binary genomics data. Briefings Bioinform. 20 (1) (2019)
Bram Thijssen, Tjeerd Dijkstra, Tom Heskes, Lodewyk F. A. Wessels
Bayesian data integration for quantifying the contribution of diverse measurements to parameter estimates. Bioinform. 34 (5) (2018)
Evert Bosdriesz, Anirudh Prahallad, Bertram Klinger, Anja Sieber, Astrid Bosma, René Bernards, Nils Blüthgen, Lodewyk F. A. Wessels
Comparative Network Reconstruction using mixed integer programming. Bioinform. 34 (17) (2018)
Nanne Aben, Johan A. Westerhuis, Yipeng Song, Henk A. L. Kiers, Magali Michaut, Age K. Smilde, Lodewyk F. A. Wessels
iTOP: inferring the topology of omics data. Bioinform. 34 (17) (2018)
Tycho Bismeijer, Sander Canisius, Lodewyk F. A. Wessels
Molecular characterization of breast and lung tumors by integration of multiple data types with functional sparse-factor analysis. PLoS Comput. Biol. 14 (10) (2018)
Mathurin Dorel, Bertram Klinger, Torsten Gross, Anja Sieber, Anirudh Prahallad, Evert Bosdriesz, Lodewyk F. A. Wessels, Nils Blüthgen
Modelling signalling networks from perturbation data. Bioinform. 34 (23) (2018)
Nanne Aben, Daniel J. Vis, Magali Michaut, Lodewyk F. A. Wessels
TANDEM: a two-stage approach to maximize interpretability of drug response models based on multiple molecular data types. Bioinform. 32 (17) (2016)
Bram Thijssen, T. M. H. Dijkstra, Tom Heskes, Lodewyk F. A. Wessels
BCM: toolkit for Bayesian analysis of Computational Models using samplers. BMC Syst. Biol. 10 (2016)
Mohammed El-Kebir, Hayssam Soueidan, Thomas Hume, Daniela Beisser, Marcus T. Dittrich, Tobias Müller, Guillaume Blin, Jaap Heringa, Macha Nikolski, Lodewyk F. A. Wessels, Gunnar W. Klau
xHeinz: an algorithm for mining cross-species network modules under a flexible conservation model. Bioinform. 31 (19) (2015)
Sander Canisius, Nicos Angelopoulos, Lodewyk F. A. Wessels
proSQLite: Prolog File Based Databases via an SQLite Interface. PADL (2013)
Nicos Angelopoulos, Vítor Santos Costa, João Azevedo, Jan Wielemaker, Rui Camacho, Lodewyk F. A. Wessels
Integrative Functional Statistics in Logic Programming. PADL (2013)
Jeroen de Ridder, Jaap Kool, Anthony Uren, Jan Bot, Johann de Jong, Alistair G. Rust, Anton Berns, Maarten van Lohuizen, David J. Adams, Lodewyk F. A. Wessels, Marcel J. T. Reinders
Mutational Genomics for Cancer Pathway Discovery. PRIB (2013)
Guillem Rigaill, Sidney Cadot, Roelof J. C. Kluin, Zheng Xue, René Bernards, Ian J. Majewski, Lodewyk F. A. Wessels
A regression model for estimating DNA copy number applied to capture sequencing data. Bioinform. 28 (18) (2012)
Christine Staiger, Sidney Cadot, R. Kooter, Marcus T. Dittrich, Tobias Müller, Gunnar W. Klau, Lodewyk F. A. Wessels
A critical evaluation of network and pathway based classifiers for outcome prediction in breast cancer CoRR (2011)
Olli-P. Kallioniemi, Lodewyk F. A. Wessels, Alfonso Valencia
On the organization of bioinformatics core services in biology-based research institutes. Bioinform. 27 (10) (2011)
Jeroen de Ridder, Alice Gerrits, Jan Bot, Gerald de Haan, Marcel J. T. Reinders, Lodewyk F. A. Wessels
Inferring combinatorial association logic networks in multimodal genome-wide screens. Bioinform. 26 (12) (2010)
Christiaan Klijn, Jan Bot, David J. Adams, Marcel J. T. Reinders, Lodewyk F. A. Wessels, Jos Jonkers
Identification of Networks of Co-Occurring, Tumor-Related DNA Copy Number Changes Using a Genome-Wide Scoring Approach. PLoS Comput. Biol. 6 (1) (2010)
Theo A. Knijnenburg, Lodewyk F. A. Wessels, Marcel J. T. Reinders, Ilya Shmulevich
-values. Bioinform. 25 (12) (2009)
Martin H. van Vliet, Lodewyk F. A. Wessels, Marcel J. T. Reinders
Knowledge driven decomposition of tumor expression profiles. BMC Bioinform. 10 (S-1) (2009)
Wouter Meuleman, Judith Y. M. N. Engwegen, Marie-Christine W. Gast, Lodewyk F. A. Wessels, Marcel J. T. Reinders
Analysis of mass spectrometry data using sub-spectra. BMC Bioinform. 10 (S-1) (2009)
Theo A. Knijnenburg, Lodewyk F. A. Wessels, Marcel J. T. Reinders
Creating gene set activity profiles with time-series expression data. Int. J. Bioinform. Res. Appl. 4 (3) (2008)
Yunlei Li, Lodewyk F. A. Wessels, Dick de Ridder, Marcel J. T. Reinders
Erratum to "Classification in the presence of class noise using a probabilistic kernel fisher method": [Pattern Recognition 40 (12) 3349-3357]. Pattern Recognit. 41 (3) (2008)
Miranda van Uitert, Wouter Meuleman, Lodewyk F. A. Wessels
Biclustering Sparse Binary Genomic Data. J. Comput. Biol. 15 (10) (2008)
Theo A. Knijnenburg, Lodewyk F. A. Wessels, Marcel J. T. Reinders
Combinatorial influence of environmental parameters on transcription factor activity. ISMB (2008)
Wouter Meuleman, Judith Y. M. N. Engwegen, Marie-Christine W. Gast, Jos H. Beijnen, Marcel J. T. Reinders, Lodewyk F. A. Wessels
Comparison of normalisation methods for surface-enhanced laser desorption and ionisation (SELDI) time-of-flight (TOF) mass spectrometry data. BMC Bioinform. 9 (2008)
Yunlei Li, Lodewyk F. A. Wessels, Dick de Ridder, Marcel J. T. Reinders
Classification in the presence of class noise using a probabilistic Kernel Fisher method. Pattern Recognit. 40 (12) (2007)
Carmen Lai, Hugo M. Horlings, Marc J. van de Vijver, Eric H. van Beers, Petra M. Nederlof, Lodewyk F. A. Wessels, Marcel J. T. Reinders
SIRAC: Supervised Identification of Regions of Aberration in aCGH datasets. BMC Bioinform. 8 (2007)
Jeroen de Ridder, Jaap Kool, Anthony Uren, Jan Bot, Lodewyk F. A. Wessels, Marcel J. T. Reinders
Co-occurrence analysis of insertional mutagenesis data reveals cooperating oncogenes. ISMB/ECCB (Supplement of Bioinformatics) (2007)
Rogier J. P. van Berlo, Lodewyk F. A. Wessels, Dick de Ridder, Marcel J. T. Reinders
Protein Complex Prediction Using an Integrative Bioinformatics Approach. J. Bioinform. Comput. Biol. 5 (4) (2007)
Theo A. Knijnenburg, Marcel J. T. Reinders, Lodewyk F. A. Wessels
Artifacts of Markov blanket filtering based on discretized features in small sample size applications. Pattern Recognit. Lett. 27 (7) (2006)
Carmen Lai, Marcel J. T. Reinders, Lodewyk F. A. Wessels
Random subspace method for multivariate feature selection. Pattern Recognit. Lett. 27 (10) (2006)
Jeroen de Ridder, Anthony Uren, Jaap Kool, Marcel J. T. Reinders, Lodewyk F. A. Wessels
Detecting Statistically Significant Common Insertion Sites in Retroviral Insertional Mutagenesis Screens. PLoS Comput. Biol. 2 (12) (2006)
Theo A. Knijnenburg, Lodewyk F. A. Wessels, Marcel J. T. Reinders
Condition Transition Analysis Reveals TF Activity Related to Nutrient-Limitation-Specific Effects of Oxygen Presence in Yeast. CMSB (2006)
Carmen Lai, Marcel J. T. Reinders, Laura J. van't Veer, Lodewyk F. A. Wessels
A comparison of univariate and multivariate gene selection techniques for classification of cancer datasets. BMC Bioinform. 7 (2006)
Rogier J. P. van Berlo, Lodewyk F. A. Wessels, S. D. C. Martes, Marcel J. T. Reinders
Predicting gene function by combining expression and interaction data. CSB Workshops (2005)
Lodewyk F. A. Wessels, Marcel J. T. Reinders, Augustinus A. M. Hart, Cor J. Veenman, Hongyue Dai, Yudong D. He, Laura J. van't Veer
A protocol for building and evaluating predictors of disease state based on microarray data. Bioinform. 21 (19) (2005)
Theo A. Knijnenburg, Marcel J. T. Reinders, Jean-Marc Daran, Pascale A. S. Daran-Lapujade, Lodewyk F. A. Wessels
Relating transcription factors, modules of genes and cultivation conditions in Saccharomyces cerevisiae. CSB Workshops (2005)
Rogier J. P. van Berlo, Lodewyk F. A. Wessels, S. D. C. Martes, Marcel J. T. Reinders
Identifying Orthologs: Cycle Splitting on the Breakpoint Graph. CSB Workshops (2005)
Eugene P. van Someren, Lodewyk F. A. Wessels, Eric Backer, Marcel J. T. Reinders
Multi-criterion optimization for genetic network modeling. Signal Process. 83 (4) (2003)
Lodewyk F. A. Wessels, Eugene P. van Someren, Marcel J. T. Reinders
A Comparison of Genetic Network Models. Pacific Symposium on Biocomputing (2001)
Peter J. van der Veen, Lodewyk F. A. Wessels, J. W. Slootstra, R. H. Meloen, Marcel J. T. Reinders, Johannes Hellendoorn
Determination of Binding Amino Acids Based on Random Peptide Array Screening Data. WABI (2001)
Eugene P. van Someren, Lodewyk F. A. Wessels, Marcel J. T. Reinders
Linear Modeling of Genetic Networks from Experimental Data. ISMB (2000)
Lodewyk F. A. Wessels, Eugene P. van Someren, Marcel J. T. Reinders
Information processing for intelligent molecular diagnosis. Pattern Recognit. Lett. 20 (11-13) (1999)
Lodewyk F. A. Wessels, Etienne Barnard
Avoiding false local minima by proper initialization of connections. IEEE Trans. Neural Networks 3 (6) (1992)