Presenting and exploring biological pathways with PathVisio. - Martijn P. van Iersel; Thomas Kelder; Alexander R. Pico; Kristina Hanspers; Susan L. Coort; Bruce R. Conklin; Chris T. A. Evelo (BMC Bioinform., 2008)

The BridgeDb framework: standardized access to gene, protein and metabolite identifier mapping services. - Martijn P. van Iersel; Alexander R. Pico; Thomas Kelder; Jianjiong Gao; Isaac Ho; Kristina Hanspers; Bruce R. Conklin; Chris T. A. Evelo (BMC Bioinform., 2010)

PathVisio-MIM: PathVisio plugin for creating and editing Molecular Interaction Maps (MIMs). - Augustin Luna; Margot Sunshine; Martijn P. van Iersel; Mirit I. Aladjem; Kurt W. Kohn (Bioinform., 2011)

Flexible Integration and Visualisation of Drosophila Melanogaster Datasets. - Martijn P. van Iersel; Julian A. T. Dow; Nadia Anwar (SWAT4LS, 2012)

PathVisio-Validator: a rule-based validation plugin for graphical pathway notations. - Kumar Chandan; Martijn P. van Iersel; Mirit I. Aladjem; Kurt W. Kohn; Augustin Luna (Bioinform., 2012)

Software support for SBGN maps: SBGN-ML and LibSBGN. - 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; et al. (Bioinform., 2012)

CellNOptR: a flexible toolkit to train protein signaling networks to data using multiple logic formalisms. - 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 (BMC Syst. Biol., 2012)

WikiPathways: building research communities on biological pathways. - Thomas Kelder; Martijn P. van Iersel; Kristina Hanspers; Martina Kutmon; Bruce R. Conklin; Chris T. A. Evelo; Alexander R. Pico (Nucleic Acids Res., 2012)

Linked Data Services for Scientists Exemplified Using Drosophila Melanogaster Datasets. - Martijn P. van Iersel; Nadia Anwar; Liz Reynolds (SWAT4LS, 2013)

PathVisio-Faceted Search: an exploration tool for multi-dimensional navigation of large pathways. - Jake Y. Fried; Martijn P. van Iersel; Mirit I. Aladjem; Kurt W. Kohn; Augustin Luna (Bioinform., 2013)

CySBGN: A Cytoscape plug-in to integrate SBGN maps. - Emanuel J. V. Gonçalves; Martijn P. van Iersel; Julio Saez-Rodriguez (BMC Bioinform., 2013)

Path2Models: large-scale generation of computational models from biochemical pathway maps. - Finja Büchel; Nicolas Rodriguez 001; Neil Swainston; Clemens Wrzodek; Tobias Czauderna; Roland Keller; Florian Mittag; Michael Schubert; Mihai Glont; Martin Golebiewski; Martijn P. van Iersel; Sarah M. Keating; et al. (BMC Syst. Biol., 2013)

SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools. - Claudine Chaouiya; Duncan Bérenguier; Sarah M. Keating; Aurélien Naldi; Martijn P. van Iersel; Nicolas Rodriguez 001; Andreas Dräger; Finja Büchel; Thomas Cokelaer; Bryan M. Kowal; Benjamin Wicks; Emanuel J. V. Gonçalves; et al. (BMC Syst. Biol., 2013)

BridgeDb app: unifying identifier mapping services for Cytoscape. - Jianjiong Gao; Chao Zhang 032; Martijn P. van Iersel; Li Zhang; Dong Xu 002; Nikolaus Schultz; Alexander R. Pico (F1000Research, 2014)

Integrated Visualization of a Multi-omics Study of Starvation in Mouse Intestine. - Martijn P. van Iersel; Milka Sokolovic; Kaatje Lenaerts; Martina Kutmon; Freek G. Bouwman; Wouter H. Lamers; Edwin C. M. Mariman; Chris T. A. Evelo (J. Integr. Bioinform., 2014)

Automatically visualise and analyse data on pathways using PathVisioRPC from any programming environment. - Anwesha Bohler; Lars M. T. Eijssen; Martijn P. van Iersel; Christ Leemans; Egon L. Willighagen; Martina Kutmon; Magali Jaillard; Chris T. A. Evelo (BMC Bioinform., 2015)

The Systems Biology Markup Language (SBML) Level 3 Package: Qualitative Models, Version 1, Release 1. - Claudine Chaouiya; Sarah M. Keating; Duncan Bérenguier; Aurélien Naldi; Denis Thieffry; Martijn P. van Iersel; Nicolas Le Novère; Tomás Helikar (J. Integr. Bioinform., 2015)

PathVisio 3: An Extendable Pathway Analysis Toolbox. - Martina Kutmon; Martijn P. van Iersel; Anwesha Bohler; Thomas Kelder; Nuno Nunes 002; Alexander R. Pico; Chris T. A. Evelo (PLoS Comput. Biol., 2015)

The systems biology format converter. - Nicolas Rodriguez 001; Jean-Baptiste Pettit; Piero Dalle Pezze; Lu Li 002; Arnaud Henry; Martijn P. van Iersel; Gaël Jalowicki; Martina Kutmon; Kedar Nath Natarajan; David Tolnay; Melanie I. Stefan; Chris T. A. Evelo; et al. (BMC Bioinform., 2016)