Martijn P. van Iersel

Publication Activity (10 Years)

Years Active: 2008-2016
Publications (10 Years): 1

Top Topics

Qualitative Reasoning

Drosophila Melanogaster

Computational Model

Top Venues

BMC Syst. Biol.

J. Integr. Bioinform.

Publications

Nicolas Rodriguez, Jean-Baptiste Pettit, Piero Dalle Pezze, Lu Li, Arnaud Henry, Martijn P. van Iersel, Gaël Jalowicki, Martina Kutmon, Kedar Nath Natarajan, David Tolnay, Melanie I. Stefan, Chris T. A. Evelo, Nicolas Le Novère
The systems biology format converter. BMC Bioinform. 17 (2016)
Anwesha Bohler, Lars M. T. Eijssen, Martijn P. van Iersel, Christ Leemans, Egon L. Willighagen, Martina Kutmon, Magali Jaillard, Chris T. A. Evelo
Automatically visualise and analyse data on pathways using PathVisioRPC from any programming environment. BMC Bioinform. 16 (2015)
Claudine Chaouiya, Sarah M. Keating, Duncan Bérenguier, Aurélien Naldi, Denis Thieffry, Martijn P. van Iersel, Nicolas Le Novère, Tomás Helikar
The Systems Biology Markup Language (SBML) Level 3 Package: Qualitative Models, Version 1, Release 1. J. Integr. Bioinform. 12 (2) (2015)
Martina Kutmon, Martijn P. van Iersel, Anwesha Bohler, Thomas Kelder, Nuno Nunes, Alexander R. Pico, Chris T. A. Evelo
PathVisio 3: An Extendable Pathway Analysis Toolbox. PLoS Comput. Biol. 11 (2) (2015)
Martijn P. van Iersel, Milka Sokolovic, Kaatje Lenaerts, Martina Kutmon, Freek G. Bouwman, Wouter H. Lamers, Edwin C. M. Mariman, Chris T. A. Evelo
Integrated Visualization of a Multi-omics Study of Starvation in Mouse Intestine. J. Integr. Bioinform. 11 (1) (2014)
Jianjiong Gao, Chao Zhang, Martijn P. van Iersel, Li Zhang, Dong Xu, Nikolaus Schultz, Alexander R. Pico
BridgeDb app: unifying identifier mapping services for Cytoscape. F1000Research 3 (2014)
Jake Y. Fried, Martijn P. van Iersel, Mirit I. Aladjem, Kurt W. Kohn, Augustin Luna
PathVisio-Faceted Search: an exploration tool for multi-dimensional navigation of large pathways. Bioinform. 29 (11) (2013)
Finja Büchel, Nicolas Rodriguez, Neil Swainston, Clemens Wrzodek, Tobias Czauderna, Roland Keller, Florian Mittag, Michael Schubert, Mihai Glont, Martin Golebiewski, Martijn P. van Iersel, Sarah M. Keating, Matthias Rall, Michael Wybrow, Henning Hermjakob, Michael Hucka, Douglas B. Kell, Wolfgang Müller, Pedro Mendes, Andreas Zell, Claudine Chaouiya, Julio Saez-Rodriguez, Falk Schreiber, Camille Laibe, Andreas Dräger, Nicolas Le Novère
Path2Models: large-scale generation of computational models from biochemical pathway maps. BMC Syst. Biol. 7 (2013)
Claudine Chaouiya, Duncan Bérenguier, Sarah M. Keating, Aurélien Naldi, Martijn P. van Iersel, Nicolas Rodriguez, Andreas Dräger, Finja Büchel, Thomas Cokelaer, Bryan M. Kowal, Benjamin Wicks, Emanuel J. V. Gonçalves, Julien Dorier, Michel Page, Pedro T. Monteiro, Axel von Kamp, Ioannis Xenarios, Hidde de Jong, Michael Hucka, Steffen Klamt, Denis Thieffry, Nicolas Le Novère, Julio Saez-Rodriguez, Tomás Helikar
SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools. BMC Syst. Biol. 7 (2013)
Martijn P. van Iersel, Nadia Anwar, Liz Reynolds
Linked Data Services for Scientists Exemplified Using Drosophila Melanogaster Datasets. SWAT4LS (2013)
Emanuel J. V. Gonçalves, Martijn P. van Iersel, Julio Saez-Rodriguez
CySBGN: A Cytoscape plug-in to integrate SBGN maps. BMC Bioinform. 14 (2013)
Martijn P. van Iersel, Julian A. T. Dow, Nadia Anwar
Flexible Integration and Visualisation of Drosophila Melanogaster Datasets. SWAT4LS (2012)
Camille Terfve, Thomas Cokelaer, David Henriques, Aidan MacNamara, Emanuel J. V. Gonçalves, Melody K. Morris, Martijn P. van Iersel, Douglas A. Lauffenburger, Julio Saez-Rodriguez
CellNOptR: a flexible toolkit to train protein signaling networks to data using multiple logic formalisms. BMC Syst. Biol. 6 (2012)
Kumar Chandan, Martijn P. van Iersel, Mirit I. Aladjem, Kurt W. Kohn, Augustin Luna
PathVisio-Validator: a rule-based validation plugin for graphical pathway notations. Bioinform. 28 (6) (2012)
Thomas Kelder, Martijn P. van Iersel, Kristina Hanspers, Martina Kutmon, Bruce R. Conklin, Chris T. A. Evelo, Alexander R. Pico
WikiPathways: building research communities on biological pathways. Nucleic Acids Res. 40 (Database-Issue) (2012)
Martijn P. van Iersel, Alice Villéger, Tobias Czauderna, Sarah E. Boyd, Frank T. Bergmann, Augustin Luna, Emek Demir, Anatoly A. Sorokin, Ugur Dogrusöz, Yukiko Matsuoka, Akira Funahashi, Mirit I. Aladjem, Huaiyu Mi, Stuart L. Moodie, Hiroaki Kitano, Nicolas Le Novère, Falk Schreiber
Software support for SBGN maps: SBGN-ML and LibSBGN. Bioinform. 28 (15) (2012)
Augustin Luna, Margot Sunshine, Martijn P. van Iersel, Mirit I. Aladjem, Kurt W. Kohn
PathVisio-MIM: PathVisio plugin for creating and editing Molecular Interaction Maps (MIMs). Bioinform. 27 (15) (2011)
Martijn P. van Iersel, Alexander R. Pico, Thomas Kelder, Jianjiong Gao, Isaac Ho, Kristina Hanspers, Bruce R. Conklin, Chris T. A. Evelo
The BridgeDb framework: standardized access to gene, protein and metabolite identifier mapping services. BMC Bioinform. 11 (2010)
Martijn P. van Iersel, Thomas Kelder, Alexander R. Pico, Kristina Hanspers, Susan L. Coort, Bruce R. Conklin, Chris T. A. Evelo
Presenting and exploring biological pathways with PathVisio. BMC Bioinform. 9 (2008)