Oscar P. Kuipers

20 papers Journal 19
YearRankTypeTitle / Venue / Authors
2022 J jnl
FUNAGE-Pro: comprehensive web server for gene set enrichment analysis of prokaryotes.
Nucleic Acids Res.
Anne de Jong, Oscar P. Kuipers, Jan Kok
2018 J jnl
BAGEL4: a user-friendly web server to thoroughly mine RiPPs and bacteriocins.
Nucleic Acids Res.
Auke J. van Heel, Anne de Jong, Chunxu Song, Jakob H. Viel, Jan Kok, Oscar P. Kuipers
2014 J jnl
SporeWeb: an interactive journey through the complete sporulation cycle of
Nucleic Acids Res.
Robyn T. Eijlander, Anne de Jong, Antonina O. Krawczyk, Siger Holsappel, Oscar P. Kuipers
2013 J jnl
BAGEL3: automated identification of genes encoding bacteriocins and (non-)bactericidal posttranslationally modified peptides.
Nucleic Acids Res.
Auke J. van Heel, Anne de Jong, Manuel Montalbán-López, Jan Kok, Oscar P. Kuipers
2010 J jnl
BAGEL2: mining for bacteriocins in genomic data.
Nucleic Acids Res.
Anne de Jong, Auke J. van Heel, Jan Kok, Oscar P. Kuipers
2010 J jnl
SpotXplore: a Cytoscape plugin for visual exploration of hotspot expression in gene regulatory networks.
Bioinform.
Michel A. Westenberg, Jos B. T. M. Roerdink, Oscar P. Kuipers, Sacha A. F. T. van Hijum
2009 J jnl
MINOMICS: visualizing prokaryote transcriptomics and proteomics data in a genomic context.
Bioinform.
Rutger W. W. Brouwer, Sacha A. F. T. van Hijum, Oscar P. Kuipers
2009 J jnl
MOTIFATOR: detection and characterization of regulatory motifs using prokaryote transcriptome data.
Bioinform.
Evert-Jan Blom, Jos B. T. M. Roerdink, Oscar P. Kuipers, Sacha A. F. T. van Hijum
2008 J jnl
DISCLOSE : DISsection of CLusters Obtained by SEries of transcriptome data using functional annotations and putative transcription factor binding sites.
BMC Bioinform.
Evert-Jan Blom, Sacha A. F. T. van Hijum, Klaas J. Hofstede, Remko Silvis, Jos B. T. M. Roerdink, Oscar P. Kuipers
2008 — ch.
Interactive Visualization of Gene Regulatory Networks with Associated Gene Expression Time Series Data.
Visualization in Medicine and Life Sciences
Michel A. Westenberg, Sacha A. F. T. van Hijum, Andrzej T. Lulko, Oscar P. Kuipers, Jos B. T. M. Roerdink
2008 J jnl
Supervised Lowess normalization of comparative genome hybridization data - application to lactococcal strain comparisons.
BMC Bioinform.
Sacha A. F. T. van Hijum, Richard J. S. Baerends, Aldert L. Zomer, Harma A. Karsens, Victoria Martin-Requena, Oswaldo Trelles, Jan Kok, Oscar P. Kuipers
2008 J jnl
The relative value of operon predictions.
Briefings Bioinform.
Rutger W. W. Brouwer, Oscar P. Kuipers, Sacha A. F. T. van Hijum
2008 J jnl
Visualizing Genome Expression and Regulatory Network Dynamics in Genomic and Metabolic Context.
Comput. Graph. Forum
Michel A. Westenberg, Sacha A. F. T. van Hijum, Oscar P. Kuipers, Jos B. T. M. Roerdink
2007 J jnl
FIVA: Functional Information Viewer and Analyzer extracting biological knowledge from transcriptome data of prokaryotes.
Bioinform.
Evert-Jan Blom, Dinne W. J. Bosman, Sacha A. F. T. van Hijum, Rainer Breitling, Lars Tijsma, Remko Silvis, Jos B. T. M. Roerdink, Oscar P. Kuipers
2007 J jnl
MOVE: A Multi-Level Ontology-Based Visualization and Exploration Framework for Genomic Networks.
Silico Biol.
Diederik W. J. Bosman, Evert-Jan Blom, Patrick J. Ogao, Oscar P. Kuipers, Jos B. T. M. Roerdink
2006 J jnl
BAGEL: a web-based bacteriocin genome mining tool.
Nucleic Acids Res.
Anne de Jong, Sacha A. F. T. van Hijum, Jetta J. E. Bijlsma, Jan Kok, Oscar P. Kuipers
2006 J jnl
SIMAGE: simulation of DNA-microarray gene expression data.
BMC Bioinform.
Casper J. Albers, Ritsert C. Jansen, Jan Kok, Oscar P. Kuipers, Sacha A. F. T. van Hijum
2005 J jnl
Projector 2: contig mapping for efficient gap-closure of prokaryotic genome sequence assemblies.
Nucleic Acids Res.
Sacha A. F. T. van Hijum, Aldert L. Zomer, Oscar P. Kuipers, Jan Kok
2004 J jnl
Molecular Genetics Information System (MOLGENIS): alternatives in developing local experimental genomics databases.
Bioinform.
Morris A. Swertz, Engbert O. de Brock, Sacha A. F. T. van Hijum, Anne de Jong, Girbe Buist, Richard J. S. Baerends, Jan Kok, Oscar P. Kuipers, Ritsert C. Jansen
2003 J jnl
UniFrag and GenomePrimer: selection of primers for genome-wide production of unique amplicons.
Bioinform.
Sacha A. F. T. van Hijum, Anne de Jong, Girbe Buist, Jan Kok, Oscar P. Kuipers