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ORCIDJeroen de Ridder
Person information
- affiliation: Delft University of Technology, Delft Bioinformatics Lab, The Netherlands
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Books and Theses
- 2011
[b1]Jeroen de Ridder:
Computational approaches for dissecting cancer pathways from insertional mutagenesis data. Delft University of Technology, Netherlands, 2011
Journal Articles
- 2019
- [j15]Amin Allahyar
, Joske Ubels, Jeroen de Ridder:
A data-driven interactome of synergistic genes improves network-based cancer outcome prediction. PLoS Comput. Biol. 15(2) (2019) - 2016
- [j14]Jaap Heringa, Marcel J. T. Reinders, Sanne Abeln, Jeroen de Ridder:
ECCB 2016: The 15th European Conference on Computational Biology. Bioinform. 32(17): 389-392 (2016) - 2015
- [j13]Amin Allahyar, Jeroen de Ridder:
FERAL: network-based classifier with application to breast cancer outcome prediction. Bioinform. 31(12): 311-319 (2015) - [j12]Erdogan Taskesen, Sepideh Babaei, Marcel J. T. Reinders, Jeroen de Ridder:
Integration of gene expression and DNA-methylation profiles improves molecular subtype classification in acute myeloid leukemia. BMC Bioinform. 16(S-4): S5 (2015) - [j11]Sepideh Babaei, Ahmed Mahfouz, Marc Hulsman, Boudewijn P. F. Lelieveldt, Jeroen de Ridder, Marcel J. T. Reinders:
Hi-C Chromatin Interaction Networks Predict Co-expression in the Mouse Cortex. PLoS Comput. Biol. 11(5) (2015) - 2014
- [j10]Marc Hulsman, Christos Dimitrakopoulos, Jeroen de Ridder:
Scale-space measures for graph topology link protein network architecture to function. Bioinform. 30(12): 237-245 (2014) - [j9]Jeroen de Ridder, Pieter Meysman, Olugbenga Oluseun Oluwagbemi, Thomas Abeel:
Soft Skills: An Important Asset Acquired from Organizing Regional Student Group Activities. PLoS Comput. Biol. 10(7) (2014) - 2013
- [j8]Dick de Ridder, Jeroen de Ridder, Marcel J. T. Reinders:
Pattern recognition in bioinformatics. Briefings Bioinform. 14(5): 633-647 (2013) - [j7]Sepideh Babaei, Marc Hulsman, Marcel J. T. Reinders, Jeroen de Ridder:
Detecting recurrent gene mutation in interaction network context using multi-scale graph diffusion. BMC Bioinform. 14: 29 (2013) - [j6]Jeroen de Ridder, Thomas Abeel, Magali Michaut, Venkata P. Satagopam, Nils Gehlenborg:
Don't Wear Your New Shoes (Yet): Taking the Right Steps to Become a Successful Principal Investigator. PLoS Comput. Biol. 9(1) (2013) - [j5]Jeroen de Ridder, Yana Bromberg, Magali Michaut, Venkata P. Satagopam, Manuel Corpas, Geoff MacIntyre, Theodore Alexandrov:
The Young PI Buzz: Learning from the Organizers of the Junior Principal Investigator Meeting at ISMB-ECCB 2013. PLoS Comput. Biol. 9(11) (2013) - 2010
- [j4]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): 149-157 (2010) - [j3]Erdogan Taskesen, Renee Beekman, Jeroen de Ridder, Bas J. Wouters, Justine K. Peeters, Ivo P. Touw, Marcel J. T. Reinders, Ruud Delwel:
HAT: Hypergeometric Analysis of Tiling-arrays with application to promoter-GeneChip data. BMC Bioinform. 11: 275 (2010) - 2009
- [j2]Thomas Abeel, Jeroen de Ridder, Lucia Peixoto:
Highlights from the 5th International Society for Computational Biology Student Council Symposium at the 17th Annual International Conference on Intelligent Systems for Molecular Biology and the 8th European Conference on Computational Biology. BMC Bioinform. 10(S-13): 0 (2009) - 2006
- [j1]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)
Conference and Workshop Papers
- 2018
- [c4]Arnold Kuzniar, Jason Maassen, Stefan Verhoeven, Luca Santuari, Carl Shneider, Wigard Kloosterman, Jeroen de Ridder:
A Portable and Scalable Workflow for Detecting Structural Variants in Whole-Genome Sequencing Data. eScience 2018: 303-304 - 2013
- [c3]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: 35-46 - 2011
- [c2]Sepideh Babaei, Erik van den Akker, Jeroen de Ridder, Marcel J. T. Reinders:
Integrating Protein Family Sequence Similarities with Gene Expression to Find Signature Gene Networks in Breast Cancer Metastasis. PRIB 2011: 247-259 - 2007
- [c1]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: 133-141
Informal and Other Publications
- 2019
- [i1]David Laehnemann, Johannes Köster, Ewa Szczurek, Davis J. McCarthy, Stephanie C. Hicks, Mark D. Robinson, Catalina A. Vallejos, Niko Beerenwinkel, Kieran R. Campbell, Ahmed Mahfouz, Luca Pinello, Pavel Skums, Alexandros Stamatakis, Camille Stephan-Otto Attolini, Samuel Aparicio, Jasmijn A. Baaijens, Marleen Balvert, Buys de Barbanson, Antonio Cappuccio, Giacomo Corleone, Bas E. Dutilh, Maria Florescu, Victor Guryev, Rens Holmer, Katharina Jahn, Thamar Jessurun Lobo, Emma M. Keizer, Indu Khatri, Szymon M. Kielbasa, Jan O. Korbel, Alexey M. Kozlov, Tzu-Hao Kuo, Boudewijn P. F. Lelieveldt, Ion I. Mandoiu, John C. Marioni, Tobias Marschall, Felix Mölder, Amir Niknejad, Lukasz Raczkowski, Marcel J. T. Reinders, Jeroen de Ridder, Antoine-Emmanuel Saliba, Antonios Somarakis, Oliver Stegle, Fabian J. Theis, Huan Yang, Alex Zelikovsky, Alice C. McHardy, Benjamin J. Raphael, Sohrab P. Shah, Alexander Schönhuth:
12 Grand Challenges in Single-Cell Data Science. PeerJ Prepr. 7: e27885 (2019)
Coauthor Index
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