Julien Gagneur

Publication Activity (10 Years)

Years Active: 2003-2023
Publications (10 Years): 6

Top Topics

High Throughput

Top Venues

Inform. Spektrum

PLoS Comput. Biol.

Publications

Dennis Hecker, Fatemeh Behjati-Ardakani, Alexander Karollus, Julien Gagneur, Marcel H. Schulz
The adapted Activity-By-Contact model for enhancer-gene assignment and its application to single-cell data. Bioinform. 39 (2) (2023)
Alexander Karollus, Ziga Avsec, Julien Gagneur
Predicting mean ribosome load for 5'UTR of any length using deep learning. PLoS Comput. Biol. 17 (5) (2021)
Georg Stricker, Mathilde Galinier, Julien Gagneur
GenoGAM 2.0: scalable and efficient implementation of genome-wide generalized additive models for gigabase-scale genomes. BMC Bioinform. 19 (1) (2018)
Ziga Avsec, Mohammadamin Barekatain, Jun Cheng, Julien Gagneur
Modeling positional effects of regulatory sequences with spline transformations increases prediction accuracy of deep neural networks. Bioinform. 34 (8) (2018)
Julien Gagneur, Caroline C. Friedel, Volker Heun, Ralf Zimmer, Burkhard Rost
Bioinformatics advances biology and medicine by turning big data troves into knowledge. Inform. Spektrum 40 (2) (2017)
Georg Stricker, Alexander Engelhardt, Daniel Schulz, Matthias Schmid, Achim Tresch, Julien Gagneur
GenoGAM: genome-wide generalized additive models for ChIP-Seq analysis. Bioinform. 33 (15) (2017)
Fernando Izquierdo-Carrasco, Julien Gagneur, Alexandros Stamatakis
Trading Running Time for Memory in Phylogenetic Likelihood Computations. BIOINFORMATICS (2012)
Sebastian Bauer, Peter N. Robinson, Julien Gagneur
Model-based gene set analysis for Bioconductor. Bioinform. 27 (13) (2011)
Julien Gagneur, Markus C. Elze, Achim Tresch
Selective Phenotyping, Entropy Reduction and the Mastermind Game. BMC Bioinform. 12 (2011)
Yannick Haudry, Chuang Kee Ong, Laurence Ettwiller, Hugo Bérubé, Ivica Letunic, Misha Kapushesky, Paul-Daniel Weeber, Xi Wang, Julien Gagneur, Charles Girardot, Detlev Arendt, Peer Bork, Alvis Brazma, Eileen E. M. Furlong, Joachim Wittbrodt, Thorsten Henrich
Comparing and Analysing Gene Expression Patterns Across Animal Species Using 4DXpress. APBC (2008)
Yannick Haudry, Hugo Bérubé, Ivica Letunic, Paul-Daniel Weeber, Julien Gagneur, Charles Girardot, Misha Kapushesky, Detlev Arendt, Peer Bork, Alvis Brazma, Eileen E. M. Furlong, Joachim Wittbrodt, Thorsten Henrich
: a database for cross-species expression pattern comparisons. Nucleic Acids Res. 36 (Database-Issue) (2008)
Julien Gagneur, Steffen Klamt
Computation of elementary modes: a unifying framework and the new binary approach. BMC Bioinform. 5 (2004)
Julien Gagneur, David B. Jackson, Georg Casari
Hierarchical Analysis of Dependency in Metabolic Networks. Bioinform. 19 (8) (2003)