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Genetics

D-Index
53
Citations
16162
World Ranking
3700
National Ranking
250

Overview

Julien Gagneur is affiliated with the Technical University of Munich in Germany. Their research falls predominantly within the broad field of Biochemistry, Genetics, and Molecular Biology, encompassing 232 publications. The scientist's work focuses on several subfields, including Molecular Biology, Genetics, Cancer Research, Infectious Diseases, and Spectroscopy.

The main research topics explored by Julien Gagneur include RNA Research and Splicing, RNA modifications and cancer, RNA and protein synthesis mechanisms, Genomics and Rare Diseases, Genomics and Phylogenetic Studies, Genomics and Chromatin Dynamics, and Cancer Genomics and Diagnostics.

Julien Gagneur has contributed to multiple recent papers, reflecting a range of interests in biology and genetics. These include:

  • Severe COVID-19 Is Marked by a Dysregulated Myeloid Cell Compartment, 2020, Cell
  • Swarm Learning for decentralized and confidential clinical machine learning, 2021, Nature
  • Base-resolution models of transcription-factor binding reveal soft motif syntax, 2021, Nature Genetics
  • Early IFN-α signatures and persistent dysfunction are distinguishing features of NK cells in severe COVID-19, 2021, Immunity
  • Clinical implementation of RNA sequencing for Mendelian disease diagnostics, 2022, Genome Medicine

The scientist frequently collaborates with several co-authors including Vicente A. Yépez, Holger Prokisch, Christian Mertes, Alexander Karollus, and Mirjana Gušić. The volume of collaborations varies, with 58 publications with Vicente A. Yépez being the most frequent.

Julien Gagneur's publications appear across various venues, predominantly in bioRxiv (Cold Spring Harbor Laboratory) with 33 publications and Zenodo (CERN European Organization for Nuclear Research) with 31 publications. Other notable venues include Genome Biology, Nature Genetics, and Nature Communications.

In addition to journal articles, Julien Gagneur has contributed to book publications, including a title named "DataViz Script" released in 2020 through the European Organization for Nuclear Research.

Best Publications

  • Severe COVID-19 Is Marked by a Dysregulated Myeloid Cell Compartment.

    Jonas Schulte-Schrepping;Nico Reusch;Daniela Paclik;Kevin Baßler

  • 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

  • Bidirectional promoters generate pervasive transcription in yeast

    Zhenyu Xu;Wu Wei;Julien Gagneur;Fabiana Perocchi

  • Deep learning: new computational modelling techniques for genomics

    Gökcen Eraslan;Žiga Avsec;Julien Gagneur;Fabian J. Theis

  • A deep proteome and transcriptome abundance atlas of 29 healthy human tissues

    Dongxue Wang;Basak Eraslan;Basak Eraslan;Thomas Wieland;Björn M. Hallström

  • The Genomic and Transcriptomic Landscape of a HeLa Cell Line

    Jonathan J M Landry;Paul Theodor Pyl;Tobias Rausch;Thomas Zichner

  • Genetic diagnosis of Mendelian disorders via RNA sequencing

    Laura S. Kremer;Daniel M. Bader;Daniel M. Bader;Christian Mertes;Robert Kopajtich

  • TT-seq maps the human transient transcriptome

    Björn Schwalb;Margaux Michel;Benedikt Zacher;Katja Frühauf

  • Base-resolution models of transcription-factor binding reveal soft motif syntax.

    Žiga Avsec;Žiga Avsec;Melanie Weilert;Avanti Shrikumar;Sabrina Krueger

  • Combinatorial binding predicts spatio-temporal cis -regulatory activity

    Robert P. Zinzen;Charles Girardot;Julien Gagneur;Martina Braun

  • Longitudinal Multi-omics Analyses Identify Responses of Megakaryocytes, Erythroid Cells, and Plasmablasts as Hallmarks of Severe COVID-19.

    Joana P. Bernardes;Neha Mishra;Florian Tran;Thomas Bahmer

  • Computation of elementary modes : a unifying framework and the new binary approach

    Julien Gagneur;Steffen Klamt

  • Early IFN-α signatures and persistent dysfunction are distinguishing features of NK cells in severe COVID-19.

    Benjamin Krämer;Rainer Knoll;Lorenzo Bonaguro;Michael ToVinh

  • Transcriptome Surveillance by Selective Termination of Noncoding RNA Synthesis

    Daniel Schulz;Bjoern Schwalb;Anja Kiesel;Carlo Baejen

  • Dynamic Regulation by Polycomb Group Protein Complexes Controls Pattern Formation and the Cell Cycle in Drosophila

    Katarzyna Oktaba;Luis Gutiérrez;Julien Gagneur;Charles Girardot

  • Antisense expression increases gene expression variability and locus interdependency

    Zhenyu Xu;Wu Wei;Julien Gagneur;Sandra Clauder‐Münster

  • MMSplice: modular modeling improves the predictions of genetic variant effects on splicing

    Jun Cheng;Jun Cheng;Thi Yen Duong Nguyen;Kamil J. Cygan;Muhammed Hasan Çelik

  • GOing Bayesian: model-based gene set analysis of genome-scale data

    Sebastian Bauer;Julien Gagneur;Peter N. Robinson

  • Modular decomposition of protein-protein interaction networks

    Julien Gagneur;Roland Krause;Tewis Bouwmeester;Georg Casari

  • OUTRIDER: A Statistical Method for Detecting Aberrantly Expressed Genes in RNA Sequencing Data.

    Felix Brechtmann;Christian Mertes;Agnė Matusevičiūtė;Vicente A. Yépez

Frequent Co-Authors

Lars M. Steinmetz
Lars M. Steinmetz Stanford University
Holger Prokisch
Holger Prokisch Technical University of Munich
Patrick Cramer
Patrick Cramer Max Planck Society
Anshul Kundaje
Anshul Kundaje Stanford University
Bernhard Kuster
Bernhard Kuster Technical University of Munich
Tobias B. Haack
Tobias B. Haack University of Tübingen
Thomas Meitinger
Thomas Meitinger Technical University of Munich
Robert W. Taylor
Robert W. Taylor Newcastle University
Oliver Stegle
Oliver Stegle German Cancer Research Center
Julia Zeitlinger
Julia Zeitlinger Stowers Institute for Medical Research

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