Martijn A. Huynen

According to our database, Martijn A. Huynen authored at least 28 papers between 1989 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2023

Comparative Clustering (CompaCt) of eukaryote complexomes identifies novel interactions and sheds light on protein complex evolution.

Joeri van Strien, Felix Evers, Madhurya Lutikurti, Stijn L. Berendsen, Alejandro Garanto, Geert-Jan van Gemert, Alfredo Cabrera-Orefice, Richard J. Rodenburg, Ulrich Brandt, Taco W. A. Kooij, Martijn A. Huynen

PLoS Comput. Biol., 2023

2021

Novel insights from the Plasmodium falciparum sporozoite-specific proteome by probabilistic integration of 26 studies.

Lisette Meerstein-Kessel, Jeron Venhuizen, Daniel Garza, Nicolas Pröllochs, Emma J. Vos, Joshua M. Obiero, Philip L. Felgner, Robert W. Sauerwein, Marynthe Peters, Annie S. P. Yang, Martijn A. Huynen

PLoS Comput. Biol., 2021

2019

COmplexome Profiling ALignment (COPAL) reveals remodeling of mitochondrial protein complexes in Barth syndrome.

Joeri van Strien, Sergio Guerrero-Castillo, Iliana A Chatzispyrou, Riekelt H. Houtkooper, Ulrich Brandt, Martijn A. Huynen

Bioinform., 2019

2016

WeGET: predicting new genes for molecular systems by weighted co-expression.

Radek Szklarczyk, Wout Megchelenbrink, Pavel Cizek, Marie Ledent, Gonny Velemans, Damian Szklarczyk, Martijn A. Huynen

Nucleic Acids Res., 2016

2015

Integrative Genomics-Based Discovery of Novel Regulators of the Innate Antiviral Response.

Robin van der Lee, Qian Feng, Martijn A. Langereis, Rob ter Horst, Radek Szklarczyk, Mihai G. Netea, Arno C. Andeweg, Frank J. M. van Kuppeveld, Martijn A. Huynen

PLoS Comput. Biol., 2015

Sequence specificity between interacting and non-interacting homologs identifies interface residues - a homodimer and monomer use case.

Qingzhen Hou, Bas E. Dutilh, Martijn A. Huynen, Jaap Heringa, K. Anton Feenstra

BMC Bioinform., 2015

2013

Inferring Metabolic States in Uncharacterized Environments Using Gene-Expression Measurements.

Sergio Rossell, Martijn A. Huynen, Richard A. Notebaart

PLoS Comput. Biol., 2013

2011

FACIL: Fast and Accurate Genetic Code Inference and Logo.

Bas E. Dutilh, Rasa Jurgelenaite, Radek Szklarczyk, Sacha A. F. T. van Hijum, Harry R. Harhangi, Markus Schmid, Bart de Wild, Kees-Jan Françoijs, Henk Stunnenberg, Marc Strous, Mike S. M. Jetten, Huub J. M. Op den Camp, Martijn A. Huynen

Bioinform., 2011

Evidence for short-time divergence and long-time conservation of tissue-specific expression after gene duplication.

Jaime Huerta-Cepas, Joaquín Dopazo, Martijn A. Huynen, Toni Gabaldón

Briefings Bioinform., 2011

Flux Measurement Selection in Metabolic Networks.

Wout Megchelenbrink, Martijn A. Huynen, Elena Marchiori

Proceedings of the Pattern Recognition in Bioinformatics, 2011

2010

Measuring the physical cohesiveness of proteins using physical interaction enrichment.

Iziah Edwin Sama, Martijn A. Huynen

Bioinform., 2010

2009

Increasing the coverage of a metapopulation consensus genome by iterative read mapping and assembly.

Bas E. Dutilh, Martijn A. Huynen, Marc Strous

Bioinform., 2009

2008

Signature, a web server for taxonomic characterization of sequence samples using signature genes.

Bas E. Dutilh, Ying He, Maarten L. Hekkelman, Martijn A. Huynen

Nucleic Acids Res., 2008

Conserved co-expression for candidate disease gene prioritization.

Martin Oti, Jeroen van Reeuwijk, Martijn A. Huynen, Han G. Brunner

BMC Bioinform., 2008

2007

From Endosymbiont to Host-Controlled Organelle: The Hijacking of Mitochondrial Protein Synthesis and Metabolism.

Toni Gabaldón, Martijn A. Huynen

PLoS Comput. Biol., 2007

Optimising oligonucleotide array design for ChIP-on-chip.

Fiona G. G. Nielsen, Stefan Gräf, Xinmin Zhang, Stefan Kurtz, Sergei Denissov, Roland Green, Ewan Birney, Paul Flicek, Martijn A. Huynen, Henk Stunnenberg

BMC Bioinform., 2007

Orthology prediction at scalable resolution by phylogenetic tree analysis.

René T. J. M. van der Heijden, Berend Snel, Vera van Noort, Martijn A. Huynen

BMC Bioinform., 2007

Assessment of phylogenomic and orthology approaches for phylogenetic inference.

Bas E. Dutilh, Vera van Noort, René T. J. M. van der Heijden, T. Boekhout, Berend Snel, Martijn A. Huynen

Bioinform., 2007

Optimized design and assessment of whole genome tiling arrays.

Stefan Gräf, Fiona G. G. Nielsen, Stefan Kurtz, Martijn A. Huynen, Ewan Birney, Henk Stunnenberg, Paul Flicek

Proceedings of the Proceedings 15th International Conference on Intelligent Systems for Molecular Biology (ISMB) & 6th European Conference on Computational Biology (ECCB), 2007

2005

STRING: known and predicted protein-protein associations, integrated and transferred across organisms.

Christian von Mering, Lars Juhl Jensen, Berend Snel, Sean D. Hooper, Markus Krupp, Mathilde Foglierini, Nelly Jouffre, Martijn A. Huynen, Peer Bork

Nucleic Acids Res., 2005

The properties of protein family space depend on experimental design.

Victor Kunin, Sarah A. Teichmann, Martijn A. Huynen, Christos A. Ouzounis

Bioinform., 2005

Lineage-specific gene loss following mitochondrial endosymbiosis and its potential for function prediction in eukaryotes.

Toni Gabaldón, Martijn A. Huynen

Proceedings of the ECCB/JBI'05 Proceedings, Fourth European Conference on Computational Biology/Sixth Meeting of the Spanish Bioinformatics Network (Jornadas de BioInformática), Palacio de Congresos, Madrid, Spain, September 28, 2005

2004

Prokaryotic diversity of the Saccharomyces cerevisiae Atx1p-mediated copper pathway.

Harm van Bakel, Martijn A. Huynen, Cisca Wijmenga

Bioinform., 2004

2003

STRING: a database of predicted functional associations between proteins.

Christian von Mering, Martijn A. Huynen, Daniel Jaeggi, Steffen Schmidt, Peer Bork, Berend Snel

Nucleic Acids Res., 2003

1998

Pathway alignment: Application in the comparative analysis of glycolysis.

Thomas Dandekar, Stefan Schuster, Martijn A. Huynen, Peer Bork

Proceedings of the German Conference on Bioinformatics, 1998

1996

Base Pairing Probabilities in a Complete HIV-1 RNA.

Martijn A. Huynen, Alan S. Perelson, W. A. Vieira, Peter F. Stadler

J. Comput. Biol., 1996

Knowledge Discovery in RNA Sequence Families of HIV Using Scalable Computers.

Ivo L. Hofacker, Martijn A. Huynen, Peter F. Stadler, Paul E. Stolorz

Proceedings of the Second International Conference on Knowledge Discovery and Data Mining (KDD-96), 1996

1989

Genetic Algorithms and Information Accumulation during the Evolution of Gene Regulation.

Martijn A. Huynen, Paulien Hogeweg

Proceedings of the 3rd International Conference on Genetic Algorithms, 1989