Skip to Main Content

Author Details

Aur??lien Naldi
Institut de Biologie de l'Ecole Normale Superieure, Inserm, CNRS, Universite PSL
2006
40
18
PMIDPaper TitleJournal TitlePublished Year
37454172A large-scale Boolean model of the rheumatoid arthritis fibroblast-like synoviocytes predicts drug synergies in the arthritic joint.NPJ Syst Biol Appl2023
35309516UPMaBoSS: A Novel Framework for Dynamic Cell Population Modeling.Front Mol Biosci2022
32313939Setting the basis of best practices and standards for curation and annotation of logical models in biology-highlights of the [BC]2 2019 CoLoMoTo/SysMod Workshop.Brief Bioinform2021
33670716Comparison of SYK Signaling Networks Reveals the Potential Molecular Determinants of Its Tumor-Promoting and Suppressing Functions.Biomolecules2021
35006414Interplay between SMAD2 and STAT5A is a critical determinant of IL-17A/IL-17F differential expression.Mol Biomed2021
34939300COVID-19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms.Mol Syst Biol2021
34664389COVID19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms.Mol Syst Biol2021
34576136Sex Dimorphism of Nonalcoholic Fatty Liver Disease (NAFLD) in <i>Pparg</i>-Null Mice.Int J Mol Sci2021
34123352Logical modelling of <i>in vitro</i> differentiation of human monocytes into dendritic cells unravels novel transcriptional regulatory interactions.Interface Focus2021
33402734Benchmarking joint multi-omics dimensionality reduction approaches for the study of cancer.Nat Commun2021
32845085SBML Level 3: an extensible format for the exchange and reuse of biological models.Mol Syst Biol2020
31938048PTPN13 induces cell junction stabilization and inhibits mammary tumor invasiveness.Theranostics2020
33281620Dynamical Boolean Modeling of Immunogenic Cell Death.Front Physiol2020
33101049Computational Verification of Large Logical Models-Application to the Prediction of T Cell Response to Checkpoint Inhibitors.Front Physiol2020
31437187System analysis of cross-talk between nuclear receptors reveals an opposite regulation of the cell cycle by LXR and FXR in human HepaRG liver cells.PLoS One2019
31841528Contribution of ROS and metabolic status to neonatal and adult CD8+ T cell activation.PLoS One2019
31472481Network Reconstruction and Significant Pathway Extraction Using Phosphoproteomic Data from Cancer Cells.Proteomics2019
30510517BioLQM: A Java Toolkit for the Manipulation and Conversion of Logical Qualitative Models of Biological Networks.Front Physiol2018
29971009The CoLoMoTo Interactive Notebook: Accessible and Reproducible Computational Analyses for Qualitative Biological Networks.Front Physiol2018
29971008Logical Modeling and Analysis of Cellular Regulatory Networks With GINsim 3.0.Front Physiol2018
30022098GOATOOLS: A Python library for Gene Ontology analyses.Sci Rep2018
30034343Prediction of Mutations to Control Pathways Enabling Tumor Cell Invasion with the CoLoMoTo Interactive Notebook (Tutorial).Front Physiol2018
28881959MaBoSS 2.0: an environment for stochastic Boolean modeling.Bioinformatics2017
28306714Reconstruction and signal propagation analysis of the Syk signaling network in breast cancer cells.PLoS Comput Biol2017
28327650Erratum: The combination of the functionalities of feedback circuits is determinant for the attractors' number and size in pathway-like Boolean networks.Sci Rep2017
28186191The combination of the functionalities of feedback circuits is determinant for the attractors' number and size in pathway-like Boolean networks.Sci Rep2017
27452668Geometric analysis of pathways dynamics: Application to versatility of TGF-β receptors.Biosystems2016
25619997Cooperative development of logical modelling standards and tools with CoLoMoTo.Bioinformatics2015
26528568The Systems Biology Markup Language (SBML) Level 3 Package: Qualitative Models, Version 1, Release 1.J Integr Bioinform2015
25674559Model checking to assess T-helper cell plasticity.Front Bioeng Biotechnol2015
24603613Genome-wide analysis of SREBP1 activity around the clock reveals its combined dependency on nutrient and circadian signals.PLoS Genet2014
23504387On circuit functionality in Boolean networks.Bull Math Biol2013
24321545SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools.BMC Syst Biol2013
23822512Dynamical modeling and analysis of large cellular regulatory networks.Chaos2013
22144167Logical modelling of gene regulatory networks with GINsim.Methods Mol Biol2012
20824124Diversity and plasticity of Th cell types predicted from regulatory network modelling.PLoS Comput Biol2010
19426782Logical modelling of regulatory networks with GINsim 2.3.Biosystems2009
19763337Modular logical modelling of the budding yeast cell cycle.Mol Biosyst2009
16434137GINsim: a software suite for the qualitative modelling, simulation and analysis of regulatory networks.Biosystems2006
16873462Dynamical analysis of a generic Boolean model for the control of the mammalian cell cycle.Bioinformatics2006
  • 1 - 40 of 40

Recommended Authors

Alessandro Savino
Consorzio Interuniversitario Nazionale per l'Informatica
Career Start Year 2011
Number of shared co-authors 3
Alfredo Benso
Italy Consorzio Interuniversitario Nazionale per l'Informatica
Career Start Year 2011
Number of shared co-authors 5
Vera Pancaldi
Universite de Toulouse, Inserm, CNRS, Universite Toulouse III-Paul Sabatier
Career Start Year 2009
Number of shared co-authors 4
Marc R Birtwistle
Clemson University.
Career Start Year 2007
Number of shared co-authors 3
Neda Bagheri
University of Washington
Career Start Year 2007
Number of shared co-authors 0
Angela Re
Fondazione Istituto Italiano di Tecnologia
Career Start Year 2006
Number of shared co-authors 0
Avi Ma'ayan
Icahn School of Medicine at Mount Sinai
Career Start Year 2005
Number of shared co-authors 1
Corrado Priami
University of Pisa
Career Start Year 2004
Number of shared co-authors 2
Stephen A Ramsey
Oregon State University
Career Start Year 2004
Number of shared co-authors 1
Holger Fr??hlich
Bonn-Aachen International Center for IT (B-IT), University of Bonn
Career Start Year 2004
Number of shared co-authors 3
Aniruddha Datta
Texas A&M University, College Station
Career Start Year 2004
Number of shared co-authors 0
Chao Tang
Peking University
Career Start Year 2004
Number of shared co-authors 0
Tanusya M Murali
Yong Loo Lin School of Medicine, National University of Singapore
Career Start Year 2003
Number of shared co-authors 0
Florian Markowetz
CRUK Cambridge Institute, University of Cambridge
Career Start Year 2003
Number of shared co-authors 0
Rune Linding
Humboldt-Universitat zu Berlin
Career Start Year 2002
Number of shared co-authors 5
Ilya Shmulevich
Institute for Systems Biology
Career Start Year 2001
Number of shared co-authors 2
Jasmin Fisher
UCL Cancer Institute, University College London
Career Start Year 2001
Number of shared co-authors 0
Kevin A Janes
University of Virginia
Career Start Year 2001
Number of shared co-authors 0
Gary D Bader
University of Toronto
Career Start Year 2000
Number of shared co-authors 22
Thomas Wilhelm
Institute of Biochemistry and Molecular Immunology, RWTH Aachen University
Career Start Year 2000
Number of shared co-authors 1
Frank Emmert-Streib
Tampere University
Career Start Year 2000
Number of shared co-authors 0
Trey Ideker (CM4AI)
University of California San Diego
Career Start Year 1996
Number of shared co-authors 8
Roland Eils
Berlin Institute of Health (BIH) and Charite
Career Start Year 1995
Number of shared co-authors 7
Jesper Tegn??r
King Abdullah University of Science and Technology (KAUST)
Career Start Year 1993
Number of shared co-authors 2
Andrea Califano
Columbia University
Career Start Year 1993
Number of shared co-authors 8
Fabian J Theis
Technical University of Munich
Career Start Year 1992
Number of shared co-authors 4
Zolt??n N Oltvai
University of Rochester
Career Start Year 1991
Number of shared co-authors 1
Gustavo Stolovitzky
IBM T.J. Watson Research Center
Career Start Year 1990
Number of shared co-authors 7
Monika Heiner
Brandenburg Technical University (BTU)
Career Start Year 1989
Number of shared co-authors 0
Satoru Miyano
Tokyo Medical and Dental University
Career Start Year 1970
Number of shared co-authors 0

Collaborators

Denis Thieffry
Institut de Biologie de l'Ecole Normale Superieure, Inserm, CNRS, Universite PSL
Co-authored papers 24
Claudine Chaouiya
Aix Marseille University CNRS
Co-authored papers 15
Laurence Calzone
Institut Curie, Universite PSL
Co-authored papers 9
Emmanuel Barillot
Institut Curie, Universite PSL
Co-authored papers 5
Julio Saez-Rodriguez
Institute of Computational Biomedicine, Heidelberg University
Co-authored papers 5
Aurelien Dugourd
Institute of Experimental Medicine and Systems Biology, RWTH Aachen University
Co-authored papers 3
Henning Hermjakob
European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 3
Ioannis Xenarios
University of Lausanne
Co-authored papers 3
Andrei Zinovyev
INSERM U, Institut Curie, PSL Research University
Co-authored papers 3
Hiroaki Kitano
Co-authored papers 3
Tom C Freeman
The Roslin Institute, University of Edinburgh
Co-authored papers 3
Karen Rothfels
Co-authored papers 2
Marcio Luis Acencio
Norwegian University of Science and Technology
Co-authored papers 2
Anita de Waard
Co-authored papers 2
Alfonso Valencia
Josep Carreras Leukaemia Research Institute (IJC)
Co-authored papers 2
Miguel Vazquez
Norwegian University of Science and Technology
Co-authored papers 2
Alexander R Pico
Institute of Data Science and Biotechnology, Gladstone Institutes
Co-authored papers 2
Enrico Glaab
University of Luxembourg
Co-authored papers 2
Marija Milacic
Co-authored papers 2
Bertrand De Meulder
European Institute for Systems Biology and Medicine, CNRS-ENS-UCBL-INSERM
Co-authored papers 2
Lisa Matthews
NYU Grossman School of Medicine
Co-authored papers 2
Luana Licata
University of Tor Vergata
Co-authored papers 2
Cristoffer Sevilla
Co-authored papers 2
Augustin Luna
Harvard Medical School
Co-authored papers 2
Ozgun Babur
Houston Methodist Research Institute
Co-authored papers 2
Marc Gillespie
Ontario Institute for Cancer Research
Co-authored papers 2
Reinhard Schneider
Co-authored papers 2
Chris Sander
Broad Institute of MIT and Harvard
Co-authored papers 2
Roger Stephan
Ontario Institute for Cancer Research
Co-authored papers 2
Carole Goble
University of Manchester
Co-authored papers 2
Release 1.2