Adrian M. Altenhoff

According to our database, Adrian M. Altenhoff authored at least 21 papers between 2007 and 2024.

Collaborative distances:

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

2024

A large collection of bioinformatics question-query pairs over federated knowledge graphs: methodology and applications.

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

CoRR, 2024

2022

The Quest for Orthologs orthology benchmark service in 2022.

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

Nucleic Acids Res., 2022

OMAMO: orthology-based alternative model organism selection.

Alina Nicheperovich, Adrian M. Altenhoff, Christophe Dessimoz, Sina Majidian

Bioinform., 2022

2021

OMA orthology in 2021: website overhaul, conserved isoforms, ancestral gene order and more.

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

Nucleic Acids Res., 2021

2020

The Quest for Orthologs benchmark service and consensus calls in 2020.

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, The Quest for Orthologs Consortium, Josep Lluis 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

Nucleic Acids Res., 2020

Parallel and Scalable Precise Clustering.

Stuart Byma, Akash Dhasade, Adrian M. Altenhoff, Christophe Dessimoz, James R. Larus

Proceedings of the PACT '20: International Conference on Parallel Architectures and Compilation Techniques, 2020

2019

Expanding the Orthologous Matrix (OMA) programmatic interfaces: REST API and the <i>OmaDB</i> packages for R and Python.

Klara Kaleb, Alex Warwick Vesztrocy, Adrian M. Altenhoff, Christophe Dessimoz

F1000Research, 2019

Parallel and Scalable Precise Clustering for Homologous Protein Discovery.

Stuart Byma, Akash Dhasade, Adrian M. Altenhoff, Christophe Dessimoz, James R. Larus

CoRR, 2019

iHam and pyHam: visualizing and processing hierarchical orthologous groups.

Clément-Marie Train, Miguel Pignatelli, Adrian M. Altenhoff, Christophe Dessimoz

Bioinform., 2019

Phylogenetic approaches to identifying fragments of the same gene, with application to the wheat genome.

Ivana Pilizota, Clément-Marie Train, Adrian M. Altenhoff, Henning Redestig, Christophe Dessimoz

Bioinform., 2019

2018

The OMA orthology database in 2018: retrieving evolutionary relationships among all domains of life through richer web and programmatic interfaces.

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

Nucleic Acids Res., 2018

Gearing up to handle the mosaic nature of life in the quest for orthologs.

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, The Quest for Orthologs Consortium, Brigitte Boeckmann, Toni Gabaldón, Erik L. L. Sonnhammer, Christophe Dessimoz, Suzanna Lewis

Bioinform., 2018

2017

Orthologous Matrix (OMA) algorithm 2.0: more robust to asymmetric evolutionary rates and more scalable hierarchical orthologous group inference.

Clément-Marie Train, Natasha M. Glover, Gaston H. Gonnet, Adrian M. Altenhoff, Christophe Dessimoz

Bioinform., 2017

2015

The OMA orthology database in 2015: function predictions, better plant support, synteny view and other improvements.

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

Nucleic Acids Res., 2015

2014

Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support.

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

Nucleic Acids Res., 2014

2012

Orthology inference: Methods, benchmarking and applications.

Adrian M. Altenhoff

PhD thesis, 2012

Quality of Computationally Inferred Gene Ontology Annotations.

Nives Skunca, Adrian M. Altenhoff, Christophe Dessimoz

PLoS Comput. Biol., 2012

Resolving the Ortholog Conjecture: Orthologs Tend to Be Weakly, but Significantly, More Similar in Function than Paralogs.

Adrian M. Altenhoff, Romain A. Studer, Marc Robinson-Rechavi, Christophe Dessimoz

PLoS Comput. Biol., 2012

2011

OMA 2011: orthology inference among 1000 complete genomes.

Adrian M. Altenhoff, Adrian Schneider, Gaston H. Gonnet, Christophe Dessimoz

Nucleic Acids Res., 2011

2009

Phylogenetic and Functional Assessment of Orthologs Inference Projects and Methods.

Adrian M. Altenhoff, Christophe Dessimoz

PLoS Comput. Biol., 2009

2007

A stochastic boundary forcing for dissipative particle dynamics.

Adrian M. Altenhoff, Jens H. Walther, Petros Koumoutsakos

J. Comput. Phys., 2007