J
Julien Gagneur
Researcher at Technische Universität München
Publications - 134
Citations - 10424
Julien Gagneur is an academic researcher from Technische Universität München. The author has contributed to research in topics: Gene & Biology. The author has an hindex of 37, co-authored 112 publications receiving 7630 citations. Previous affiliations of Julien Gagneur include École Centrale Paris & Ludwig Maximilian University of Munich.
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Journal ArticleDOI
Severe COVID-19 Is Marked by a Dysregulated Myeloid Cell Compartment.
Jonas Schulte-Schrepping,Nico Reusch,Daniela Paclik,Kevin Baßler,Stephan Schlickeiser,Bowen Zhang,Benjamin Krämer,Tobias Krammer,Sophia Brumhard,Lorenzo Bonaguro,Elena De Domenico,Daniel Wendisch,Martin Grasshoff,Theodore S. Kapellos,Michael Beckstette,Tal Pecht,Adem Saglam,Oliver Dietrich,Henrik E. Mei,Axel Schulz,Claudia Conrad,Désirée Kunkel,Ehsan Vafadarnejad,Cheng-Jian Xu,Cheng-Jian Xu,Arik Horne,Miriam Herbert,Anna Drews,Charlotte Thibeault,Moritz Pfeiffer,Stefan Hippenstiel,Andreas C. Hocke,Holger Müller-Redetzky,Katrin-Moira Heim,Felix Machleidt,Alexander Uhrig,Laure Bosquillon de Jarcy,Linda Jürgens,Miriam Stegemann,Christoph R. Glösenkamp,Hans-Dieter Volk,Christine Goffinet,Markus Landthaler,Emanuel Wyler,Philipp Georg,Maria Schneider,Chantip Dang-Heine,Nick Neuwinger,Kai Kappert,Rudolf Tauber,Victor M. Corman,Jan Raabe,Kim Melanie Kaiser,Michael To Vinh,Gereon Rieke,Christian Meisel,Thomas Ulas,Matthias Becker,Robert Geffers,Martin Witzenrath,Christian Drosten,Norbert Suttorp,Christof von Kalle,Florian Kurth,Florian Kurth,Florian Kurth,Kristian Händler,Joachim L. Schultze,Joachim L. Schultze,Anna C. Aschenbrenner,Anna C. Aschenbrenner,Yang Li,Yang Li,Jacob Nattermann,Birgit Sawitzki,Antoine-Emmanuel Saliba,Leif E. Sander,Angel Angelov,Robert Bals,Alexander Bartholomäus,Anke Becker,Daniela Bezdan,Ezio Bonifacio,Peer Bork,Thomas Clavel,Maria Colomé-Tatché,Andreas Diefenbach,Alexander T. Dilthey,Nicole Fischer,Konrad U. Förstner,Julia-Stefanie Frick,Julien Gagneur,Alexander Goesmann,Torsten Hain,Michael Hummel,Stefan Janssen,Jörn Kalinowski,René Kallies,Birte Kehr,Andreas Keller,Sarah Kim-Hellmuth,Christoph Klein,Oliver Kohlbacher,Jan O. Korbel,Ingo Kurth,Kerstin U. Ludwig,Oliwia Makarewicz,Manja Marz,Alice C. McHardy,Christian Mertes,Markus M. Nöthen,Peter Nürnberg,Uwe Ohler,Stephan Ossowski,Jörg Overmann,Silke Peter,Klaus Pfeffer,Anna R. Poetsch,Alfred Pühler,Nikolaus Rajewsky,Markus Ralser,Olaf Rieß,Stephan Ripke,Ulisses Nunes da Rocha,Philip Rosenstiel,Philipp H. Schiffer,Eva-Christina Schulte,Alexander Sczyrba,Oliver Stegle,Jens Stoye,Fabian J. Theis,Janne Vehreschild,Jörg Vogel,Max von Kleist,Andreas Walker,Jörn Walter,Dagmar Wieczorek,John Ziebuhr +137 more
TL;DR: This study provides detailed insights into the systemic immune response to SARS-CoV-2 infection and it reveals profound alterations in the myeloid cell compartment associated with severe COVID-19.
Journal ArticleDOI
Bidirectional promoters generate pervasive transcription in yeast
Zhenyu Xu,Wu Wei,Julien Gagneur,Fabiana Perocchi,Sandra Clauder-Münster,Jurgi Camblong,Elisa Guffanti,Françoise Stutz,Wolfgang Huber,Lars M. Steinmetz +9 more
TL;DR: It is shown that both SUTs and CUTs display distinct patterns of distribution at specific locations, changing the view of how a genome is transcribed and indicating that bidirectionality is an inherent feature of promoters.
Journal ArticleDOI
A physical and functional map of the human TNF-alpha/NF-kappa B signal transduction pathway.
Tewis Bouwmeester,Angela Bauch,Heinz Ruffner,Pierre-Olivier Angrand,Giovanna Bergamini,Karen Croughton,Cristina Cruciat,Dirk Eberhard,Julien Gagneur,Sonja Ghidelli,Carsten Hopf,Bettina Huhse,Raffaella Mangano,Anne-Marie Michon,Markus Schirle,Judith Schlegl,Markus Schwab,Martin Stein,Andreas Bauer,Georg Casari,Gerard Drewes,Anne-Claude Gavin,David B. Jackson,Gerard Joberty,Gitte Neubauer,Jens Rick,Bernhard Kuster,Giulio Superti-Furga +27 more
TL;DR: The mapping of a protein interaction network around 32 known and candidate TNF-α/NF-κB pathway components is reported by using an integrated approach comprising tandem affinity purification, liquid-chromatography tandem mass spectrometry, network analysis and directed functional perturbation studies using RNA interference.
Journal ArticleDOI
Deep learning: new computational modelling techniques for genomics
TL;DR: This Review describes different deep learning techniques and how they can be applied to extract biologically relevant information from large, complex genomic data sets.
Journal ArticleDOI
A deep proteome and transcriptome abundance atlas of 29 healthy human tissues
Dongxue Wang,Basak Eraslan,Basak Eraslan,Thomas Wieland,Björn M. Hallström,Thomas A. Hopf,Daniel P Zolg,Jana Zecha,Anna Asplund,Li-hua Li,Chen Meng,Martin Frejno,Tobias Schmidt,Karsten Schnatbaum,Mathias Wilhelm,Fredrik Pontén,Mathias Uhlén,Julien Gagneur,Hannes Hahne,Bernhard Kuster,Bernhard Kuster +20 more
TL;DR: A quantitative proteome and transcriptome abundance atlas of 29 paired healthy human tissues from the Human Protein Atlas project revealed that hundreds of proteins, particularly in testis, could not be detected even for highly expressed mRNAs and that protein expression is often more stable across tissues than that of transcripts.