Céline Hernandez
- Institut de Biologie Intégrative de la Cellule (I2BC)
- France Génomique (UMS CNRS 3628 - INRAE 1396 - Inserm 026)
- Plateforme de séquençage à haut débit (NGS)
-
celine-hernandez
-
0000-0001-8664-1340
- ResearcherID : F-1164-2016
Présentation
Plateforme de séquençage à heut débit – Institute for Integrative Biology of the Cell (I2BC) Gif-sur-Yvette (France) from December 2019 to present. Bioinformatics and Computational Systems Biology of Cancer – Institut Curie Paris (France) from May 2019 to November 2019. Computational Systems Biology Group – Institut de Biologie de l'Ecole Normale Supérieure Paris (France) from July 2014 to April 2019. Thesis defence: “Modélisation des processus inhibiteurs des cellules T dans la réponse anti-tumorale” (June 5th 2019). Protein Analysis Facility – University of Lausanne Lausanne (Switzerland) from November 2009 to June 2014. Vital-IT Group – Swiss Institute of Bioinformatics Lausanne (Switzerland) from December 2010 to June 2014. Proteome Informatics Group – Swiss Institute of Bioinformatics Geneva (Switzerland) from November 2002 to November 2010. Helix Group – Institut National de Recherche en Informatique et en Automatique Grenoble (France) from October 2000 to September 2002. DESS “Informatique appliquée à la Biologie” (equivalent to a Masters degree, in Computer science applied to biology) at Université de Versailles Saint-Quentin-en-Yvelines (France). University year 1999-2000. Mention Très bien. High throughput data analysis Modelling of regulatory networks Other expertiseScientific director at I2BC's High Throughput Sequencing Core Facility
Employment and education
IR CNRS.
Supervisors : Emmanuel Barillot, Andrei Zinovyev.
Post-doctoral fellow.
Supervisors : Denis Thieffry, Morgane Thomas-Chollier.
Senior bioinformatics engineer (Ingénieur d'Etudes, CDD), and also PhD student (ED515 Complexité du vivant) from January 2016 to April 2019.
Projects:
Teaching: reproducibility of ChIp-seq analyses (NU Singapore), logical modelling (Workshop ECCB16), proteomics (L3 level, ENS).
Other: collaborative activities inside the Consortium for Logical Models and Tools (CoLoMoTo).
Supervisor : Manfredo Quadroni
Embedded bioinformatician for the proteomics core facility, including in-house tools development, analysis of proteomics data (R), maintenance of a LIM System as well as dedicated computers and servers (Mascot, MaxQuant, Proteome Discoverer).
Teaching: proteomics (course organised by the facility), proteogenomics (ProteomeXchange consortium, University of Bern-Fribourg).
Supervisor : Ioannis Xenarios
Bioinformatician. Participation into miscellaneous server installation/administration (ExPASy, Tranche, World-2DPage).
Supervision of other bioinformaticians in collaborative projects between different groups.
Supervisors : Ron D. Appel, Frédérique Lisacek.
Bioinformatician. Worked on different projects initiated at the Proteome Informatics group (including SwissPIT, Popitam, Aldente) or in collaboration with the GeneBio company (Phenyx), the Biomedical Proteomics Research Group (pICarver, MALDIPepQuant), or the Swiss-Prot group (ExPASy).
Supervision of Master students (M2). Teaching assistant for Perl practical classes.
Supervisors : Hidde de Jong, François Rechenmann
Ingénieur associé. Participation to the development of Genetic Network Analyzer (GNA), a software for genetic regulatory networks description and simulation using a qualitative approach (piecewise-linear differential equations).Expertise
Languages
Domaines de recherche
Compétences
Publications
Publications
The malaria parasite Plasmodium falciparum prepares for life within the host cell by activating a complex gene network2024 |
|
|
|
The Drosophila Fab-7 boundary element modulates Abd-B gene activity in the genital disc by guiding an inversion of collinear chromatin organization and alternative promoter use2022 |
|
|
Eoulsan 2: an efficient workflow manager for reproducible bulk, long-read and single-cell transcriptomics analyses2021 |
|
|
Benchmarking joint multi-omics dimensionality reduction approaches for cancer study2020 |
|
|
FAIR_bioinfo : a software perspective of reproducibility of bioinformatics analysesJournées Ouvertes de Biologie Informatique et Mathématiques - JOBIM 2020, Jun 2020, Montpellier, France |
|
|
Plans de gestion des données : recommandations pour une gestion responsable et ouverte des donnéesComité pour la science ouverte. 2025 |
|
|
Faciliter la documentation des données grâce aux métadonnées dans un projet de rechercheComité pour la science ouverte. 2025 |
|
|
Qualitative Simulation of the Initiation of Sporulation in B. subtilis[Research Report] RR-4527, INRIA. 2002 |
|
|
Qualitative Simulation of Genetic Regulatory Networks Using Piecewise-Linear Models[Research Report] RR-4407, INRIA. 2002 |
|
|
Genetic Network Analyzer: A Tool for the Qualitative Simulation of Genetic Regulatory Networks[Research Report] RR-4262, INRIA. 2001 |