Oscar P. Kuipers

According to our database, Oscar P. Kuipers authored at least 20 papers between 2003 and 2022.

Collaborative distances:

• Dijkstra number of five.
• Erdős number of four.

2022

FUNAGE-Pro: comprehensive web server for gene set enrichment analysis of prokaryotes.

Anne de Jong, Oscar P. Kuipers, Jan Kok

Nucleic Acids Res., 2022

2018

BAGEL4: a user-friendly web server to thoroughly mine RiPPs and bacteriocins.

Auke J. van Heel, Anne de Jong, Chunxu Song, Jakob H. Viel, Jan Kok, Oscar P. Kuipers

Nucleic Acids Res., 2018

2014

SporeWeb: an interactive journey through the complete sporulation cycle of <i>Bacillus subtilis</i>.

Robyn T. Eijlander, Anne de Jong, Antonina O. Krawczyk, Siger Holsappel, Oscar P. Kuipers

Nucleic Acids Res., 2014

2013

BAGEL3: automated identification of genes encoding bacteriocins and (non-)bactericidal posttranslationally modified peptides.

Auke J. van Heel, Anne de Jong, Manuel Montalbán-López, Jan Kok, Oscar P. Kuipers

Nucleic Acids Res., 2013

2010

BAGEL2: mining for bacteriocins in genomic data.

Anne de Jong, Auke J. van Heel, Jan Kok, Oscar P. Kuipers

Nucleic Acids Res., 2010

SpotXplore: a Cytoscape plugin for visual exploration of hotspot expression in gene regulatory networks.

Michel A. Westenberg, Jos B. T. M. Roerdink, Oscar P. Kuipers, Sacha A. F. T. van Hijum

Bioinform., 2010

2009

MINOMICS: visualizing prokaryote transcriptomics and proteomics data in a genomic context.

Rutger W. W. Brouwer, Sacha A. F. T. van Hijum, Oscar P. Kuipers

Bioinform., 2009

MOTIFATOR: detection and characterization of regulatory motifs using prokaryote transcriptome data.

Evert-Jan Blom, Jos B. T. M. Roerdink, Oscar P. Kuipers, Sacha A. F. T. van Hijum

Bioinform., 2009

2008

Visualizing Genome Expression and Regulatory Network Dynamics in Genomic and Metabolic Context.

Michel A. Westenberg, Sacha A. F. T. van Hijum, Oscar P. Kuipers, Jos B. T. M. Roerdink

Comput. Graph. Forum, 2008

Supervised Lowess normalization of comparative genome hybridization data - application to lactococcal strain comparisons.

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

BMC Bioinform., 2008

DISCLOSE : DISsection of CLusters Obtained by SEries of transcriptome data using functional annotations and putative transcription factor binding sites.

Evert-Jan Blom, Sacha A. F. T. van Hijum, Klaas J. Hofstede, Remko Silvis, Jos B. T. M. Roerdink, Oscar P. Kuipers

BMC Bioinform., 2008

The relative value of operon predictions.

Rutger W. W. Brouwer, Oscar P. Kuipers, Sacha A. F. T. van Hijum

Briefings Bioinform., 2008

Interactive Visualization of Gene Regulatory Networks with Associated Gene Expression Time Series Data.

Michel A. Westenberg, Sacha A. F. T. van Hijum, Andrzej T. Lulko, Oscar P. Kuipers, Jos B. T. M. Roerdink

Proceedings of the Visualization in Medicine and Life Sciences., 2008

2007

MOVE: A Multi-Level Ontology-Based Visualization and Exploration Framework for Genomic Networks.

Diederik W. J. Bosman, Evert-Jan Blom, Patrick J. Ogao, Oscar P. Kuipers, Jos B. T. M. Roerdink

Silico Biol., 2007

FIVA: Functional Information Viewer and Analyzer extracting biological knowledge from transcriptome data of prokaryotes.

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

Bioinform., 2007

2006

BAGEL: a web-based bacteriocin genome mining tool.

Anne de Jong, Sacha A. F. T. van Hijum, Jetta J. E. Bijlsma, Jan Kok, Oscar P. Kuipers

Nucleic Acids Res., 2006

SIMAGE: simulation of DNA-microarray gene expression data.

Casper J. Albers, Ritsert C. Jansen, Jan Kok, Oscar P. Kuipers, Sacha A. F. T. van Hijum

BMC Bioinform., 2006

2005

Projector 2: contig mapping for efficient gap-closure of prokaryotic genome sequence assemblies.

Sacha A. F. T. van Hijum, Aldert L. Zomer, Oscar P. Kuipers, Jan Kok

Nucleic Acids Res., 2005

2004

Molecular Genetics Information System (MOLGENIS): alternatives in developing local experimental genomics databases.

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

Bioinform., 2004

2003

UniFrag and GenomePrimer: selection of primers for genome-wide production of unique amplicons.

Sacha A. F. T. van Hijum, Anne de Jong, Girbe Buist, Jan Kok, Oscar P. Kuipers

Bioinform., 2003