Julien Gagneur
Julien Gagneur
Professor, TUM, Munich
Verified email at - Homepage
Cited by
Cited by
A physical and functional map of the human TNF-α/NF-κB signal transduction pathway
T Bouwmeester, A Bauch, H Ruffner, PO Angrand, G Bergamini, ...
Nature cell biology 6 (2), 97-105, 2004
Severe COVID-19 is marked by a dysregulated myeloid cell compartment
J Schulte-Schrepping, N Reusch, D Paclik, K Baßler, S Schlickeiser, ...
Cell 182 (6), 1419-1440. e23, 2020
Bidirectional promoters generate pervasive transcription in yeast
Z Xu, W Wei, J Gagneur, F Perocchi, S Clauder-Münster, J Camblong, ...
Nature 457 (7232), 1033-1037, 2009
Deep learning: new computational modelling techniques for genomics
G Eraslan, Ž Avsec, J Gagneur, FJ Theis
Nature Reviews Genetics 20 (7), 389-403, 2019
The genomic and transcriptomic landscape of a HeLa cell line
JJM Landry, PT Pyl, T Rausch, T Zichner, MM Tekkedil, AM Stütz, A Jauch, ...
G3: Genes, Genomes, Genetics 3 (8), 1213-1224, 2013
A deep proteome and transcriptome abundance atlas of 29 healthy human tissues
D Wang, B Eraslan, T Wieland, B Hallström, T Hopf, DP Zolg, J Zecha, ...
Molecular systems biology 15 (2), e8503, 2019
Genetic diagnosis of Mendelian disorders via RNA sequencing
LS Kremer, DM Bader, C Mertes, R Kopajtich, G Pichler, A Iuso, TB Haack, ...
Nature communications 8 (1), 15824, 2017
Combinatorial binding predicts spatio-temporal cis-regulatory activity
RP Zinzen, C Girardot, J Gagneur, M Braun, EEM Furlong
Nature 462 (7269), 65-70, 2009
TT-seq maps the human transient transcriptome
B Schwalb, M Michel, B Zacher, K Frühauf, C Demel, A Tresch, J Gagneur, ...
Science 352 (6290), 1225-1228, 2016
Base-resolution models of transcription-factor binding reveal soft motif syntax
Ž Avsec, M Weilert, A Shrikumar, S Krueger, A Alexandari, K Dalal, ...
Nature genetics 53 (3), 354-366, 2021
Computation of elementary modes: a unifying framework and the new binary approach
J Gagneur, S Klamt
BMC bioinformatics 5, 1-21, 2004
Longitudinal multi-omics analyses identify responses of megakaryocytes, erythroid cells, and plasmablasts as hallmarks of severe COVID-19
JP Bernardes, N Mishra, F Tran, T Bahmer, L Best, JI Blase, D Bordoni, ...
Immunity 53 (6), 1296-1314. e9, 2020
Transcriptome surveillance by selective termination of noncoding RNA synthesis
D Schulz, B Schwalb, A Kiesel, C Baejen, P Torkler, J Gagneur, J Soeding, ...
Cell 155 (5), 1075-1087, 2013
Dynamic regulation by polycomb group protein complexes controls pattern formation and the cell cycle in Drosophila
K Oktaba, L Gutiérrez, J Gagneur, C Girardot, AK Sengupta, EEM Furlong, ...
Developmental cell 15 (6), 877-889, 2008
Antisense expression increases gene expression variability and locus interdependency
Z Xu, W Wei, J Gagneur, S Clauder‐Münster, M Smolik, W Huber, ...
Molecular systems biology 7 (1), 468, 2011
GOing Bayesian: model-based gene set analysis of genome-scale data
S Bauer, J Gagneur, PN Robinson
Nucleic acids research 38 (11), 3523-3532, 2010
Modular decomposition of protein-protein interaction networks
J Gagneur, R Krause, T Bouwmeester, G Casari
Genome biology 5, 1-12, 2004
Early IFN-α signatures and persistent dysfunction are distinguishing features of NK cells in severe COVID-19
B Krämer, R Knoll, L Bonaguro, M ToVinh, J Raabe, ...
Immunity 54 (11), 2650-2669. e14, 2021
MMSplice: modular modeling improves the predictions of genetic variant effects on splicing
J Cheng, TYD Nguyen, KJ Cygan, MH Çelik, WG Fairbrother, Ž Avsec, ...
Genome biology 20, 1-15, 2019
The Kipoi repository accelerates community exchange and reuse of predictive models for genomics
Ž Avsec, R Kreuzhuber, J Israeli, N Xu, J Cheng, A Shrikumar, A Banerjee, ...
Nature biotechnology 37 (6), 592-600, 2019
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