Jeroen de Ridder
Jeroen de Ridder
Associate professor University Medical Center Utrecht
Verified email at umcutrecht.nl - Homepage
TitleCited byYear
The deubiquitinase USP9X suppresses pancreatic ductal adenocarcinoma
PA Pérez-Mancera, AG Rust, L Van Der Weyden, G Kristiansen, A Li, ...
Nature 486 (7402), 266-270, 2012
2452012
Chromatin position effects assayed by thousands of reporters integrated in parallel
W Akhtar, J de Jong, AV Pindyurin, L Pagie, W Meuleman, J de Ridder, ...
Cell 154 (4), 914-927, 2013
2002013
Large-scale mutagenesis in p19ARF-and p53-deficient mice identifies cancer genes and their collaborative networks
AG Uren, J Kool, K Matentzoglu, J de Ridder, J Mattison, M van Uitert, ...
Cell 133 (4), 727-741, 2008
1882008
Insertional mutagenesis identifies multiple networks of cooperating genes driving intestinal tumorigenesis
HN March, AG Rust, NA Wright, J ten Hoeve, J de Ridder, M Eldridge, ...
Nature genetics 43 (12), 1202, 2011
1612011
Detecting statistically significant common insertion sites in retroviral insertional mutagenesis screens
J De Ridder, A Uren, J Kool, M Reinders, L Wessels
PLoS computational biology 2 (12), 2006
1272006
Computational pan-genomics: status, promises and challenges
Briefings in bioinformatics 19 (1), 118-135, 2018
1092018
Mapping and phasing of structural variation in patient genomes using nanopore sequencing
MC Stancu, MJ Van Roosmalen, I Renkens, MM Nieboer, S Middelkamp, ...
Nature communications 8 (1), 1-13, 2017
952017
From squiggle to basepair: computational approaches for improving nanopore sequencing read accuracy
FJ Rang, WP Kloosterman, J de Ridder
Genome biology 19 (1), 90, 2018
902018
Identification of cancer genes using a statistical framework for multiexperiment analysis of nondiscretized array CGH data
C Klijn, H Holstege, J de Ridder, X Liu, M Reinders, J Jonkers, L Wessels
Nucleic acids research 36 (2), e13-e13, 2008
772008
Chromatin landscapes of retroviral and transposon integration profiles
J de Jong, W Akhtar, J Badhai, AG Rust, R Rad, J Hilkens, A Berns, ...
PLoS genetics 10 (4), 2014
612014
Pattern recognition in bioinformatics
D de Ridder, J de Ridder, MJT Reinders
Briefings in bioinformatics 14 (5), 633-647, 2013
562013
Enhancer hubs and loop collisions identified from single-allele topologies
A Allahyar, C Vermeulen, BAM Bouwman, PHL Krijger, MJAM Verstegen, ...
Nature genetics 50 (8), 1151-1160, 2018
542018
PAX5 is a tumor suppressor in mouse mutagenesis models of acute lymphoblastic leukemia
J Dang, L Wei, J De Ridder, X Su, AG Rust, KG Roberts, D Payne-Turner, ...
Blood, The Journal of the American Society of Hematology 125 (23), 3609-3617, 2015
482015
Novel candidate cancer genes identified by a large-scale cross-species comparative oncogenomics approach
J Mattison, J Kool, AG Uren, J De Ridder, L Wessels, J Jonkers, ...
Cancer research 70 (3), 883-895, 2010
482010
Insertional mutagenesis in mice deficient for p15Ink4b, p16Ink4a, p21Cip1, and p27Kip1 reveals cancer gene interactions and correlations with tumor phenotypes
J Kool, AG Uren, CP Martins, D Sie, J De Ridder, G Turner, M Van Uitert, ...
Cancer research 70 (2), 520-531, 2010
382010
Genome wide DNA methylation profiles provide clues to the origin and pathogenesis of germ cell tumors
MA Rijlaarsdam, DMJ Tax, AJM Gillis, LCJ Dorssers, DC Koestler, ...
PloS one 10 (4), 2015
342015
Detecting recurrent gene mutation in interaction network context using multi-scale graph diffusion
S Babaei, M Hulsman, M Reinders, J de Ridder
BMC bioinformatics 14 (1), 29, 2013
332013
Computational identification of insertional mutagenesis targets for cancer gene discovery
J de Jong, J de Ridder, L van der Weyden, N Sun, M van Uitert, A Berns, ...
Nucleic acids research 39 (15), e105-e105, 2011
332011
FERAL: network-based classifier with application to breast cancer outcome prediction
A Allahyar, J De Ridder
Bioinformatics 31 (12), i311-i319, 2015
322015
Hi-C chromatin interaction networks predict co-expression in the mouse cortex
S Babaei, A Mahfouz, M Hulsman, BPF Lelieveldt, J de Ridder, ...
PLoS computational biology 11 (5), 2015
322015
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Articles 1–20