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Adrian M. Altenhoff
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Books and Theses
- 2012
- [b1]Adrian M. Altenhoff:
Orthology inference: Methods, benchmarking and applications. ETH Zurich, Zürich, Switzerland, 2012
Journal Articles
- 2022
- [j16]Alina Nicheperovich
, Adrian M. Altenhoff
, Christophe Dessimoz
, Sina Majidian
:
OMAMO: orthology-based alternative model organism selection. Bioinform. 38(10): 2965-2966 (2022) - [j15]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:
The Quest for Orthologs orthology benchmark service in 2022. Nucleic Acids Res. 50(W1): 623-632 (2022) - 2021
- [j14]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
:
OMA orthology in 2021: website overhaul, conserved isoforms, ancestral gene order and more. Nucleic Acids Res. 49(Database-Issue): D373-D379 (2021) - 2020
- [j13]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
:
The Quest for Orthologs benchmark service and consensus calls in 2020. Nucleic Acids Res. 48(Webserver-Issue): W538-W545 (2020) - 2019
- [j12]Ivana Pilizota
, Clément-Marie Train, Adrian M. Altenhoff, Henning Redestig, Christophe Dessimoz
:
Phylogenetic approaches to identifying fragments of the same gene, with application to the wheat genome. Bioinform. 35(7): 1159-1166 (2019) - [j11]Clément-Marie Train, Miguel Pignatelli, Adrian M. Altenhoff, Christophe Dessimoz
:
iHam and pyHam: visualizing and processing hierarchical orthologous groups. Bioinform. 35(14): 2504-2506 (2019) - 2018
- [j10]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:
Gearing up to handle the mosaic nature of life in the quest for orthologs. Bioinform. 34(2): 323-329 (2018) - [j9]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
:
The OMA orthology database in 2018: retrieving evolutionary relationships among all domains of life through richer web and programmatic interfaces. Nucleic Acids Res. 46(Database-Issue): D477-D485 (2018) - 2017
- [j8]Clément-Marie Train, Natasha M. Glover
, Gaston H. Gonnet, Adrian M. Altenhoff
, Christophe Dessimoz
:
Orthologous Matrix (OMA) algorithm 2.0: more robust to asymmetric evolutionary rates and more scalable hierarchical orthologous group inference. Bioinform. 33(14): i75-i82 (2017) - 2015
- [j7]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
:
The OMA orthology database in 2015: function predictions, better plant support, synteny view and other improvements. Nucleic Acids Res. 43(Database-Issue): 240-249 (2015) - 2014
- [j6]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:
Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support. Nucleic Acids Res. 42(Webserver-Issue): 436-441 (2014) - 2012
- [j5]Adrian M. Altenhoff
, Romain A. Studer
, Marc Robinson-Rechavi
, Christophe Dessimoz
:
Resolving the Ortholog Conjecture: Orthologs Tend to Be Weakly, but Significantly, More Similar in Function than Paralogs. PLoS Comput. Biol. 8(5) (2012) - [j4]Nives Skunca, Adrian M. Altenhoff
, Christophe Dessimoz
:
Quality of Computationally Inferred Gene Ontology Annotations. PLoS Comput. Biol. 8(5) (2012) - 2011
- [j3]Adrian M. Altenhoff
, Adrian Schneider, Gaston H. Gonnet, Christophe Dessimoz
:
OMA 2011: orthology inference among 1000 complete genomes. Nucleic Acids Res. 39(Database-Issue): 289-294 (2011) - 2009
- [j2]Adrian M. Altenhoff
, Christophe Dessimoz
:
Phylogenetic and Functional Assessment of Orthologs Inference Projects and Methods. PLoS Comput. Biol. 5(1) (2009) - 2007
- [j1]Adrian M. Altenhoff
, Jens H. Walther
, Petros Koumoutsakos
:
A stochastic boundary forcing for dissipative particle dynamics. J. Comput. Phys. 225(1): 1125-1136 (2007)
Conference and Workshop Papers
- 2020
- [c1]Stuart Byma, Akash Dhasade
, Adrian M. Altenhoff, Christophe Dessimoz
, James R. Larus:
Parallel and Scalable Precise Clustering. PACT 2020: 217-228
Informal and Other Publications
- 2019
- [i2]Stuart Byma, Akash Dhasade, Adrian M. Altenhoff, Christophe Dessimoz, James R. Larus:
Parallel and Scalable Precise Clustering for Homologous Protein Discovery. CoRR abs/1908.10574 (2019) - [i1]Klara Kaleb
, Alex Warwick Vesztrocy
, Adrian M. Altenhoff
, Christophe Dessimoz
:
Expanding the Orthologous Matrix (OMA) programmatic interfaces: REST API and the OmaDB packages for R and Python. F1000Research 8: 42 (2019)
Coauthor Index
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