Michael Kuhn

Publication Activity (10 Years)

Years Active: 2007-2023
Publications (10 Years): 9

Top Topics

Sequence Analysis

Biomedical Literature

Interaction Networks

Protein Protein Interaction Networks

Top Venues

Nucleic Acids Res.

PLoS Comput. Biol.

Publications

Anthony Fullam, Ivica Letunic, Thomas S. B. Schmidt, Quinten R. Ducarmon, Nicolai Karcher, Supriya Khedkar, Michael Kuhn, Martin Larralde, Oleksandr M. Maistrenko, Lukas Malfertheiner, Alessio Milanese, João F. Matias Rodrigues, Claudia Sanchis-López, Christian Schudoma, Damian Szklarczyk, Shinichi Sunagawa, Georg Zeller, Jaime Huerta-Cepas, Christian von Mering, Peer Bork, Daniel R. Mende
proGenomes3: approaching one million accurately and consistently annotated high-quality prokaryotic genomes. Nucleic Acids Res. 51 (D1) (2023)
Yuanyue Li, Michael Kuhn, Anne-Claude Gavin, Peer Bork
Identification of metabolites from tandem mass spectra with a machine learning approach utilizing structural features. Bioinform. 36 (4) (2020)
Lisa Maier, Mihaela Pruteanu, Michael Kuhn, Georg Zeller, Anja Telzerow, Exene Erin Anderson, Ana Rita Brochado, Keith Conrad Fernandez, Hitomi Dose, Hirotada Mori, Kiran Raosaheb Patil, Peer Bork, Athanasios Typas
Extensive impact of non-antibiotic drugs on human gut bacteria. Nat. 555 (7698) (2018)
Cath Tyner, Galt P. Barber, Jonathan Casper, Hiram Clawson, Mark Diekhans, Christopher Eisenhart, Clayton M. Fischer, David Gibson, Jairo Navarro Gonzalez, Luvina Guruvadoo, Maximilian Haeussler, Steven G. Heitner, Angie S. Hinrichs, Donna Karolchik, Brian T. Lee, Christopher M. Lee, Parisa Nejad, Brian J. Raney, Kate R. Rosenbloom, Matthew L. Speir, Chris Villarreal, John Vivian, Ann S. Zweig, David Haussler, Michael Kuhn, W. James Kent
The UCSC Genome Browser database: 2017 update. Nucleic Acids Res. 45 (Database-Issue) (2017)
Damian Szklarczyk, John H. Morris, Helen Cook, Michael Kuhn, Stefan Wyder, Milan Simonovic, Alberto Santos, Nadezhda T. Doncheva, Alexander Roth, Peer Bork, Lars Juhl Jensen, Christian von Mering
The STRING database in 2017: quality-controlled protein-protein association networks, made broadly accessible. Nucleic Acids Res. 45 (Database-Issue) (2017)
Michael Kuhn, Ivica Letunic, Lars Juhl Jensen, Peer Bork
The SIDER database of drugs and side effects. Nucleic Acids Res. 44 (Database-Issue) (2016)
Damian Szklarczyk, Alberto Santos, Christian von Mering, Lars Juhl Jensen, Peer Bork, Michael Kuhn
STITCH 5: augmenting protein-chemical interaction networks with tissue and affinity data. Nucleic Acids Res. 44 (Database-Issue) (2016)
Jaime Huerta-Cepas, Damian Szklarczyk, Kristoffer Forslund, Helen Cook, Davide Heller, Mathias C. Walter, Thomas Rattei, Daniel R. Mende, Shinichi Sunagawa, Michael Kuhn, Lars Juhl Jensen, Christian von Mering, Peer Bork
eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences. Nucleic Acids Res. 44 (Database-Issue) (2016)
Damian Szklarczyk, Andrea Franceschini, Stefan Wyder, Kristoffer Forslund, Davide Heller, Jaime Huerta-Cepas, Milan Simonovic, Alexander Roth, Alberto Santos, Kalliopi Tsafou, Michael Kuhn, Peer Bork, Lars Juhl Jensen, Christian von Mering
STRING v10: protein-protein interaction networks, integrated over the tree of life. Nucleic Acids Res. 43 (Database-Issue) (2015)
Michael Kuhn, Anthony A. Hyman, Andreas Beyer
Coiled-Coil Proteins Facilitated the Functional Expansion of the Centrosome. PLoS Comput. Biol. 10 (6) (2014)
Sean Powell, Kristoffer Forslund, Damian Szklarczyk, Kalliopi Trachana, Alexander Roth, Jaime Huerta-Cepas, Toni Gabaldón, Thomas Rattei, Christopher J. Creevey, Michael Kuhn, Lars Juhl Jensen, Christian von Mering, Peer Bork
eggNOG v4.0: nested orthology inference across 3686 organisms. Nucleic Acids Res. 42 (Database-Issue) (2014)
Michael Kuhn, Damian Szklarczyk, Sune Pletscher-Frankild, Thomas H. Blicher, Christian von Mering, Lars Juhl Jensen, Peer Bork
STITCH 4: integration of protein-chemical interactions with user data. Nucleic Acids Res. 42 (Database-Issue) (2014)
Andrea Franceschini, Damian Szklarczyk, Sune Frankild, Michael Kuhn, Milan Simonovic, Alexander Roth, Jianyi Lin, Pablo Minguez, Peer Bork, Christian von Mering, Lars Juhl Jensen
STRING v9.1: protein-protein interaction networks, with increased coverage and integration. Nucleic Acids Res. 41 (Database-Issue) (2013)
Michael Kuhn, Damian Szklarczyk, Andrea Franceschini, Christian von Mering, Lars Juhl Jensen, Peer Bork
STITCH 3: zooming in on protein-chemical interactions. Nucleic Acids Res. 40 (Database-Issue) (2012)
Sean Powell, Damian Szklarczyk, Kalliopi Trachana, Alexander Roth, Michael Kuhn, Jean Muller, Roland Arnold, Thomas Rattei, Ivica Letunic, Tobias Doerks, Lars Juhl Jensen, Christian von Mering, Peer Bork
eggNOG v3.0: orthologous groups covering 1133 organisms at 41 different taxonomic ranges. Nucleic Acids Res. 40 (Database-Issue) (2012)
Xing-Ming Zhao, Murat Iskar, Georg Zeller, Michael Kuhn, Vera van Noort, Peer Bork
Prediction of Drug Combinations by Integrating Molecular and Pharmacological Data. PLoS Comput. Biol. 7 (12) (2011)
Damian Szklarczyk, Andrea Franceschini, Michael Kuhn, Milan Simonovic, Alexander Roth, Pablo Minguez, Tobias Doerks, Manuel Stark, Jean Muller, Peer Bork, Lars Juhl Jensen, Christian von Mering
The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored. Nucleic Acids Res. 39 (Database-Issue) (2011)
Allyson L. Lister, Ruchira S. Datta, Oliver Hofmann, Roland Krause, Michael Kuhn, Bettina Roth, Reinhard Schneider
Live Coverage of Scientific Conferences Using Web Technologies. PLoS Comput. Biol. 6 (1) (2010)
Michael Kuhn, Damian Szklarczyk, Andrea Franceschini, Monica Campillos, Christian von Mering, Lars Juhl Jensen, Andreas Beyer, Peer Bork
STITCH 2: an interaction network database for small molecules and proteins. Nucleic Acids Res. 38 (Database-Issue) (2010)
Toshiaki Katayama, Kazuharu Arakawa, Mitsuteru Nakao, Keiichiro Ono, Kiyoko F. Aoki-Kinoshita, Yasunori Yamamoto, Atsuko Yamaguchi, Shuichi Kawashima, Hong-Woo Chun, Jan Aerts, Bruno Aranda, Lord H. Barboza, Raoul Jean Pierre Bonnal, Richard M. Bruskiewich, Jan Christian Bryne, José María Fernández, Akira Funahashi, Paul M. K. Gordon, Naohisa Goto, Andreas Groscurth, Alex Gutteridge, Richard C. G. Holland, Yoshinobu Kano, Edward A. Kawas, Arnaud Kerhornou, Eri Kibukawa, Akira R. Kinjo, Michael Kuhn, Hilmar Lapp, Heikki Lehväslaiho, Hiroyuki Nakamura, Yasukazu Nakamura, Tatsuya Nishizawa, Chikashi Nobata, Tamotsu Noguchi, Thomas M. Oinn, Shinobu Okamoto, Stuart Owen, Evangelos Pafilis, Matthew R. Pocock, Pjotr Prins, René Ranzinger, Florian Reisinger, Lukasz Salwínski, Mark J. Schreiber, Martin Senger, Yasumasa Shigemoto, Daron M. Standley, Hideaki Sugawara, Toshiyuki Tashiro, Oswaldo Trelles, Rutger A. Vos, Mark D. Wilkinson, William S. York, Christian M. Zmasek, Kiyoshi Asai, Toshihisa Takagi
The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows. J. Biomed. Semant. 1 (2010)
Seán I. O'Donoghue, Heiko Horn, Evangelos Pafilis, Sven Haag, Michael Kuhn, Venkata P. Satagopam, Reinhard Schneider, Lars Juhl Jensen
Reflect: A practical approach to web semantics. J. Web Semant. 8 (2-3) (2010)
Jean Muller, Damian Szklarczyk, Philippe Julien, Ivica Letunic, Alexander Roth, Michael Kuhn, Sean Powell, Christian von Mering, Tobias Doerks, Lars Juhl Jensen, Peer Bork
eggNOG v2.0: extending the evolutionary genealogy of genes with enhanced non-supervised orthologous groups, species and functional annotations. Nucleic Acids Res. 38 (Database-Issue) (2010)
Murat Iskar, Monica Campillos, Michael Kuhn, Lars Juhl Jensen, Vera van Noort, Peer Bork
Drug-Induced Regulation of Target Expression. PLoS Comput. Biol. 6 (9) (2010)
Allyson L. Lister, Ruchira S. Datta, Oliver Hofmann, Roland Krause, Michael Kuhn, Bettina Roth, Reinhard Schneider
Live Coverage of Intelligent Systems for Molecular Biology/European Conference on Computational Biology (ISMB/ECCB) 2009. PLoS Comput. Biol. 6 (1) (2010)
Georgios A. Pavlopoulos, Evangelos Pafilis, Michael Kuhn, Sean D. Hooper, Reinhard Schneider
OnTheFly: a tool for automated document-based text annotation, data linking and network generation. Bioinform. 25 (7) (2009)
Lars Juhl Jensen, Michael Kuhn, Manuel Stark, Samuel Chaffron, Christopher J. Creevey, Jean Muller, Tobias Doerks, Philippe Julien, Alexander Roth, Milan Simonovic, Peer Bork, Christian von Mering
STRING 8 - a global view on proteins and their functional interactions in 630 organisms. Nucleic Acids Res. 37 (Database-Issue) (2009)
Neil F. W. Saunders, Pedro Beltrão, Lars Juhl Jensen, Daniel Jurczak, Roland Krause, Michael Kuhn, Shirley Wu
Microblogging the ISMB: A New Approach to Conference Reporting. PLoS Comput. Biol. 5 (1) (2009)
Michael Kuhn, Christian von Mering, Monica Campillos, Lars Juhl Jensen, Peer Bork
STITCH: interaction networks of chemicals and proteins. Nucleic Acids Res. 36 (Database-Issue) (2008)
Lars Juhl Jensen, Philippe Julien, Michael Kuhn, Christian von Mering, Jean Muller, Tobias Doerks, Peer Bork
eggNOG: automated construction and annotation of orthologous groups of genes. Nucleic Acids Res. 36 (Database-Issue) (2008)
Stefan Günther, Michael Kuhn, Mathias Dunkel, Monica Campillos, Christian Senger, Evangelia Petsalaki, Jessica Ahmed, Eduardo Garcia Urdiales, Andreas Gewiess, Lars Juhl Jensen, Reinhard Schneider, Roman Skoblo, Robert B. Russell, Philip E. Bourne, Peer Bork, Robert Preissner
SuperTarget and Matador: resources for exploring drug-target relationships. Nucleic Acids Res. 36 (Database-Issue) (2008)
Christian von Mering, Lars Juhl Jensen, Michael Kuhn, Samuel Chaffron, Tobias Doerks, Beate Krüger, Berend Snel, Peer Bork
STRING 7 - recent developments in the integration and prediction of protein interactions. Nucleic Acids Res. 35 (Database-Issue) (2007)