Benno Schwikowski

Bystander IFN-γ activity promotes widespread and sustained cytokine signaling altering the tumor microenvironment.

Authors:

Ronan Thibaut Pierre Bost Idan Milo Marine Cazaux Fabrice Lemaître Zacarias Garcia Ido Amit Béatrice Breart Clémence Cornuot Benno Schwikowski Philippe Bousso

Nat Cancer 2020 Mar 9;1(3):302-314. Epub 2020 Mar 9.

Dynamics of Immune Responses Unit, Equipe Labellisée Ligue Contre le Cancer, Institut Pasteur, INSERM U1223, 75015 Paris, France.

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March 2020

Host-Viral Infection Maps Reveal Signatures of Severe COVID-19 Patients.

Authors:

Pierre Bost Amir Giladi Yang Liu Yanis Bendjelal Gang Xu Eyal David Ronnie Blecher-Gonen Merav Cohen Chiara Medaglia Hanjie Li Aleksandra Deczkowska Shuye Zhang Benno Schwikowski Zheng Zhang Ido Amit

Cell 2020 06 8;181(7):1475-1488.e12. Epub 2020 May 8.

Department of Immunology, Weizmann Institute of Science, Rehovot, Israel. Electronic address:

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June 2020

LGP2 binds to PACT to regulate RIG-I- and MDA5-mediated antiviral responses.

Authors:

Raul Y Sanchez David Chantal Combredet Valérie Najburg Gael A Millot Guillaume Beauclair Benno Schwikowski Thibaut Léger Jean-Michel Camadro Yves Jacob Jacques Bellalou Nolwenn Jouvenet Frédéric Tangy Anastassia V Komarova

Sci Signal 2019 10 1;12(601). Epub 2019 Oct 1.

Unité de Génomique Virale et Vaccination, Institut Pasteur, CNRS UMR-3569, Paris, France.

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October 2019

Single-Cell Analysis of Diverse Pathogen Responses Defines a Molecular Roadmap for Generating Antigen-Specific Immunity.

Authors:

Ronnie Blecher-Gonen Pierre Bost Kerry L Hilligan Eyal David Tomer Meir Salame Elsa Roussel Lisa M Connor Johannes U Mayer Keren Bahar Halpern Beáta Tóth Shalev Itzkovitz Benno Schwikowski Franca Ronchese Ido Amit

Cell Syst 2019 02 13;8(2):109-121.e6. Epub 2019 Feb 13.

Department of Immunology, Weizmann Institute of Science, Rehovot 76100, Israel. Electronic address:

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February 2019

The Cytoscape Automation app article collection.

Authors:

Barry Demchak David Otasek Alexander R Pico Gary D Bader Keiichiro Ono Brett Settle Eric Sage John H Morris William Longabaugh Christian Lopes Michael Kucera Adam Treister Benno Schwikowski Piet Molenaar Trey Ideker

F1000Res 2018 20;7:800. Epub 2018 Jun 20.

Department of Medicine, University of California, San Diego, La Jolla, CA, 92093, USA.

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June 2018

A Blood RNA Signature Detecting Severe Disease in Young Dengue Patients at Hospital Arrival.

Authors:

Iryna Nikolayeva Pierre Bost Isabelle Casademont Veasna Duong Fanny Koeth Matthieu Prot Urszula Czerwinska Sowath Ly Kevin Bleakley Tineke Cantaert Philippe Dussart Philippe Buchy Etienne Simon-Lorière Anavaj Sakuntabhai Benno Schwikowski

J Infect Dis 2018 05;217(11):1690-1698

Systems Biology Lab, Center for Bioinformatics, Biostatistics, and Integrative Biology (C3BI), USR 3756 - Institut Pasteur and CNRS.

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May 2018

Network module identification-A widespread theoretical bias and best practices.

Authors:

Iryna Nikolayeva Oriol Guitart Pla Benno Schwikowski

Methods 2018 01 21;132:19-25. Epub 2017 Sep 21.

Systems Biology Lab, Center of Bioinformatics, Biostatistics and Integrative Biology, Institut Pasteur, Paris, France. Electronic address:

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January 2018

Common and phylogenetically widespread coding for peptides by bacterial small RNAs.

Authors:

Robin C Friedman Stefan Kalkhof Olivia Doppelt-Azeroual Stephan A Mueller Martina Chovancová Martin von Bergen Benno Schwikowski

BMC Genomics 2017 07 21;18(1):553. Epub 2017 Jul 21.

Systems Biology Laboratory, Department of Genomes and Genetics, Institut Pasteur, Paris, France.

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July 2017

From the exposome to mechanistic understanding of chemical-induced adverse effects.

Environ Int 2017 Feb 8;99:97-106. Epub 2016 Dec 8.

US EPA, National Center for Computational Toxicology, Research Triangle Park, NC 27711, USA.

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February 2017

Network-based analysis of omics data: the LEAN method.

Authors:

Frederik Gwinner Gwénola Boulday Claire Vandiedonck Minh Arnould Cécile Cardoso Iryna Nikolayeva Oriol Guitart-Pla Cécile V Denis Olivier D Christophe Johann Beghain Elisabeth Tournier-Lasserve Benno Schwikowski

Bioinformatics 2017 03;33(5):701-709

Systems Biology Lab, C3BI, USR 3756, Institut Pasteur/CNRS, Institut Pasteur, F-75015 Paris, France.

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March 2017

Detecting multi-way epistasis in family-based association studies.

Authors:

Cheikh Loucoubar Audrey V Grant Jean-François Bureau Isabelle Casademont Ndjido Ardo Bar Avner Bar-Hen Mamadou Diop Joseph Faye Fatoumata Diene Sarr Abdoulaye Badiane Adama Tall Jean-François Trape Freddy Cliquet Benno Schwikowski Mark Lathrop Richard Edward Paul Anavaj Sakuntabhai

Brief Bioinform 2017 05;18(3):394-402

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May 2017

Bacterial Internalization, Localization, and Effectors Shape the Epithelial Immune Response during Shigella flexneri Infection.

Authors:

Juliane Lippmann Frederik Gwinner Camille Rey Uyanga Tamir Helen K W Law Benno Schwikowski Jost Enninga

Infect Immun 2015 Sep 29;83(9):3624-37. Epub 2015 Jun 29.

Research Unit Dynamics of Host-Pathogen Interactions, Institut Pasteur, Paris, France

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September 2015

Filter-free exhaustive odds ratio-based genome-wide interaction approach pinpoints evidence for interaction in the HLA region in psoriasis.

Authors:

Laura Grange Jean-François Bureau Iryna Nikolayeva Richard Paul Kristel Van Steen Benno Schwikowski Anavaj Sakuntabhai

BMC Genet 2015 Feb 6;16:11. Epub 2015 Feb 6.

Department of Genomes and Genetics, Institut Pasteur, Functional Genetics of Infectious Diseases Unit, Paris, 75015, France.

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February 2015

The Cytoscape app article collection.

Authors:

Alexander R Pico Gary D Bader Barry Demchak Oriol Guitart Pla Timothy Hull William Longabaugh Christian Lopes Samad Lotia Piet Molenaar Jason Montojo John H Morris Keiichiro Ono Benno Schwikowski David Welker Trey Ideker

F1000Res 2014 1;3:138. Epub 2014 Jul 1.

University of California, San Diego, La Jolla, CA 92093, USA.

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January 2015

Automated flow cytometric analysis across large numbers of samples and cell types.

Authors:

Xiaoyi Chen Milena Hasan Valentina Libri Alejandra Urrutia Benoît Beitz Vincent Rouilly Darragh Duffy Étienne Patin Bernard Chalmond Lars Rogge Lluis Quintana-Murci Matthew L Albert Benno Schwikowski

Clin Immunol 2015 Apr 7;157(2):249-60. Epub 2015 Jan 7.

Systems Biology Lab, Institut Pasteur, Paris, France. Electronic address:

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April 2015

The Cyni framework for network inference in Cytoscape.

Authors:

Oriol Guitart-Pla Manjunath Kustagi Frank Rügheimer Andrea Califano Benno Schwikowski

Bioinformatics 2015 May 18;31(9):1499-501. Epub 2014 Dec 18.

Systems Biology Lab, Institut Pasteur, 75724 Paris Cedex 15, France and Department of Systems Biology, Columbia University, New York, NY 10032, USA.

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May 2015

Analysis of time-resolved gene expression measurements across individuals.

Authors:

Laura L Elo Benno Schwikowski

PLoS One 2013 9;8(12):e82340. Epub 2013 Dec 9.

Systems Biology Lab, Department of Genomes and Genetics, Institut Pasteur, Paris, France.

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October 2014

TLM-Quant: an open-source pipeline for visualization and quantification of gene expression heterogeneity in growing microbial cells.

Authors:

Sjouke Piersma Emma L Denham Samuel Drulhe Rudi H J Tonk Benno Schwikowski Jan Maarten van Dijl

PLoS One 2013 17;8(7):e68696. Epub 2013 Jul 17.

Department of Medical Microbiology, University of Groningen and University Medical Center Groningen, Groningen, The Netherlands.

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March 2014

Identification of additional proteins in differential proteomics using protein interaction networks.

Authors:

Frederik Gwinner Adelina E Acosta-Martin Ludovic Boytard Maggy Chwastyniak Olivia Beseme Hervé Drobecq Sophie Duban-Deweer Francis Juthier Brigitte Jude Philippe Amouyel Florence Pinet Benno Schwikowski

Proteomics 2013 Apr;13(7):1065-76

Department of Genomes and Genetics, Systems Biology Laboratory, Institut Pasteur, Paris, France.

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April 2013

Automated phosphopeptide identification using multiple MS/MS fragmentation modes.

Authors:

Mathias Vandenbogaert Véronique Hourdel Olivia Jardin-Mathé Jean Bigeard Ludovic Bonhomme Véronique Legros Heribert Hirt Benno Schwikowski Delphine Pflieger

J Proteome Res 2012 Dec 7;11(12):5695-703. Epub 2012 Nov 7.

Systems Biology Lab, Institut Pasteur, 25 rue du Docteur Roux, 75015 Paris, France.

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December 2012

Publications by authors named "Benno Schwikowski"

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