Adrian M. Altenhoff

22 papers B 1Journal 20
YearRankTypeTitle / Venue / Authors
2025 J jnl
Annotation matters: the effect of structural gene annotation on orthology inference.
Bioinform.
Silvia Prieto-Baños, Yannis Nevers, Adrian M. Altenhoff, Alex Warwick Vesztrocy, Christophe Dessimoz, Natasha M. Glover
2024 J jnl
A large collection of bioinformatics question-query pairs over federated knowledge graphs: methodology and applications.
CoRR
Jerven T. Bolleman, Vincent Emonet, Adrian M. Altenhoff, Amos Bairoch, Marie-Claude Blatter, Alan J. Bridge, Severine Duvaud, Elisabeth Gasteiger, Dmitry Kuznetsov, Sébastien Moretti, Pierre-André Michel, Anne Morgat, Marco Pagni, Nicole Redaschi, Monique Zahn-Zabal, Tarcisio Mendes de Farias, Ana Claudia Sima
2022 J jnl
OMAMO: orthology-based alternative model organism selection.
Bioinform.
Alina Nicheperovich, Adrian M. Altenhoff, Christophe Dessimoz, Sina Majidian
2022 J jnl
The Quest for Orthologs orthology benchmark service in 2022.
Nucleic Acids Res.
Yannis Nevers, Tamsin E. M. Jones, Dushyanth Jyothi, Bethan Yates, Meritxell Ferret, Laura Portell-Silva, Laia Codó, Salvatore Cosentino, Marina Marcet-Houben, Anna Vlasova, Laetitia Poidevin, Arnaud Kress, Mark Hickman, Emma Persson, Ivana Pilizota, Cristina Guijarro-Clarke, Adrian M. Altenhoff, Elspeth A. Bruford, Christophe Dessimoz, Ingo Ebersberger, David M. Emms, Toni Gabaldón, Natasha M. Glover, Yanhui Hu, Wataru Iwasaki, Odile Lecompte, Benjamin Linard, María J. Martín, David S. Roos, Erik Sonhammer, Paul D. Thomas, David Thybert, Klaas Vandepoele, Salvador Capella-Gutiérrez, Asier Gonzalez-Uriarte, Javier Garrayo-Ventas, Dmitry Repchevsky, Vicky Sundesha, Erik L. L. Sonnhammer
2021 J jnl
OMA orthology in 2021: website overhaul, conserved isoforms, ancestral gene order and more.
Nucleic Acids Res.
Adrian M. Altenhoff, Clément-Marie Train, Kimberly J. Gilbert, Ishita Mediratta, Tarcisio Mendes de Farias, David Moi, Yannis Nevers, Hale-Seda Radoykova, Victor Rossier, Alex Warwick Vesztrocy, Natasha M. Glover, Christophe Dessimoz
2020 B conf
Parallel and Scalable Precise Clustering.
PACT
Stuart Byma, Akash Balasaheb Dhasade, Adrian M. Altenhoff, Christophe Dessimoz, James R. Larus
2020 J jnl
The Quest for Orthologs benchmark service and consensus calls in 2020.
Nucleic Acids Res.
Adrian M. Altenhoff, Javier Garrayo-Ventas, Salvatore Cosentino, David Emms, Natasha M. Glover, Ana Hernández-Plaza, Yannis Nevers, Vicky Sundesha, Damian Szklarczyk, José María Fernández, Laia Codó, Quest for Orthologs Consortium, Josep Lluís Gelpí, Jaime Huerta-Cepas, Wataru Iwasaki, Steven Kelly, Odile Lecompte, Matthieu Muffato, Maria Jesus Martin, Salvador Capella-Gutiérrez, Paul D. Thomas, Erik L. L. Sonnhammer, Christophe Dessimoz
2019 J jnl
Expanding the Orthologous Matrix (OMA) programmatic interfaces: REST API and the
F1000Research
Klara Kaleb, Alex Warwick Vesztrocy, Adrian M. Altenhoff, Christophe Dessimoz
2019 J jnl
Parallel and Scalable Precise Clustering for Homologous Protein Discovery.
CoRR
Stuart Byma, Akash Balasaheb Dhasade, Adrian M. Altenhoff, Christophe Dessimoz, James R. Larus
2019 J jnl
Phylogenetic approaches to identifying fragments of the same gene, with application to the wheat genome.
Bioinform.
Ivana Pilizota, Clément-Marie Train, Adrian M. Altenhoff, Henning Redestig, Christophe Dessimoz
2019 J jnl
iHam and pyHam: visualizing and processing hierarchical orthologous groups.
Bioinform.
Clément-Marie Train, Miguel Pignatelli, Adrian M. Altenhoff, Christophe Dessimoz
2018 J jnl
Gearing up to handle the mosaic nature of life in the quest for orthologs.
Bioinform.
Kristoffer Forslund, Cécile Pereira, Salvador Capella-Gutiérrez, Alan W. Sousa da Silva, Adrian M. Altenhoff, Jaime Huerta-Cepas, Matthieu Muffato, Mateus Patricio, Klaas Vandepoele, Ingo Ebersberger, Judith A. Blake, Jesualdo Tomás Fernández-Breis, Quest for Orthologs Consortium, Brigitte Boeckmann, Toni Gabaldón, Erik L. L. Sonnhammer, Christophe Dessimoz, Suzanna Lewis
2018 J jnl
The OMA orthology database in 2018: retrieving evolutionary relationships among all domains of life through richer web and programmatic interfaces.
Nucleic Acids Res.
Adrian M. Altenhoff, Natasha M. Glover, Clément-Marie Train, Klara Kaleb, Alex Warwick Vesztrocy, David Dylus, Tarcisio M. Farias, Karina Zile, Charles Stevenson, Jiao Long, Henning Redestig, Gaston H. Gonnet, Christophe Dessimoz
2017 J jnl
Orthologous Matrix (OMA) algorithm 2.0: more robust to asymmetric evolutionary rates and more scalable hierarchical orthologous group inference.
Bioinform.
Clément-Marie Train, Natasha M. Glover, Gaston H. Gonnet, Adrian M. Altenhoff, Christophe Dessimoz
2015 J jnl
The OMA orthology database in 2015: function predictions, better plant support, synteny view and other improvements.
Nucleic Acids Res.
Adrian M. Altenhoff, Nives Skunca, Natasha M. Glover, Clément-Marie Train, Anna Sueki, Ivana Pilizota, Kevin Gori, Bartlomiej Tomiczek, Steven Müller, Henning Redestig, Gaston H. Gonnet, Christophe Dessimoz
2014 J jnl
Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support.
Nucleic Acids Res.
Heinz Stockinger, Adrian M. Altenhoff, Konstantin Arnold, Amos Bairoch, Frederic B. Bastian, Sven Bergmann, Lydie Bougueleret, Philipp Bucher, Mauro Delorenzi, Lydie Lane, Philippe Le Mercier, Frédérique Lisacek, Olivier Michielin, Patricia M. Palagi, Jacques Rougemont, Torsten Schwede, Christian von Mering, Erik van Nimwegen, Daniel Walther, Ioannis Xenarios, Mihaela Zavolan, Evgeny M. Zdobnov, Vincent Zoete, Ron D. Appel
2012 — —
Orthology inference: Methods, benchmarking and applications.
Adrian M. Altenhoff
2012 J jnl
Quality of Computationally Inferred Gene Ontology Annotations.
PLoS Comput. Biol.
Nives Skunca, Adrian M. Altenhoff, Christophe Dessimoz
2012 J jnl
Resolving the Ortholog Conjecture: Orthologs Tend to Be Weakly, but Significantly, More Similar in Function than Paralogs.
PLoS Comput. Biol.
Adrian M. Altenhoff, Romain A. Studer, Marc Robinson-Rechavi, Christophe Dessimoz
2011 J jnl
OMA 2011: orthology inference among 1000 complete genomes.
Nucleic Acids Res.
Adrian M. Altenhoff, Adrian Schneider, Gaston H. Gonnet, Christophe Dessimoz
2009 J jnl
Phylogenetic and Functional Assessment of Orthologs Inference Projects and Methods.
PLoS Comput. Biol.
Adrian M. Altenhoff, Christophe Dessimoz
2007 J jnl
A stochastic boundary forcing for dissipative particle dynamics.
J. Comput. Phys.
Adrian M. Altenhoff, Jens H. Walther, Petros Koumoutsakos