Dr. Nicolas Tchitchek
Postdoctoral Researcher in Systems Biology
Research Unit "Immunology of viral infections and autoimmune diseases" (ImVA unit)
CEA, University of Paris-Sud, Hospital of the Kremlin-Bicêtre, Inserm U1184, France

Nicolas Tchitchek's Homepage - Research

The research activities of Dr. Nicolas Tchitchek are focused on Bioinformatics, Systems Biology, Systems Virology and Systems Immunology as well as Computational Biology aspects.

Research activities


I completed my Ph.D. in Bioinformatics (Oct. 2008 – Dec. 2011), under the joint supervision of Dr. Annick Lesne and Dr. Arndt Benecke, in the Systems Epigenomics Group at the Institut des Hautes Études Scientifiques near Paris. My research focused there on the design of systems biology approaches for the analysis and interpretation of transcriptomic data. I worked on: (i) a statistical test for the identification of genes differentially or similarly expressed between two biological conditions; (ii) a classification method for gene kinetic expression patterns; and (iii) the annotation of the African green monkey transcriptome based on several reference databases. Mainly, I applied my research to identify transcriptomic biomarkers associated with the progression of HCV in liver transplanted patients.

To investigate the transcriptomic and proteomic host responses induced by viral infections, I performed a postdoctoral training (Feb. 2012 – Mar. 2014) in the laboratory of Prof. Michael Katze at the University of Washington in Seattle. Kinetic aspects are under considered when characterizing the interplay between viruses and host responses. To overcome these limitations, I devised systems virology strategies for transcriptomic and proteomic analysis centered on host response kinetics. These innovations were developed in the context of: (i) mice infected with respiratory viruses; and (ii) non-human primates infected with viruses causing hemorrhagic fevers. Mainly, I demonstrated the importance of the early molecular host events to control viral infections and to regulate pathogenicity using these different animal and viral models. I also continued my work on the characterization of animal models used in biomedical research and I worked on the annotation of the Syrian hamster transcriptome.

Since April 2014, I am a postdoctoral researcher in the research unit "Immunology of viral infections and autoimmune diseases" (ImVA unit), under the direction of Dr. Roger Le Grand, at Commissariat à l'Énergie Atomique et aux énergies alternatives of Fontenay-aux-Roses. I am developing systems immunology approaches with the purpose of optimizing vaccine designs. Mainly, I have created and supervised the development of several computational strategies to analyze, visualize, and integrate high-dimensional cytometry data. In collaboration with Dr. Anne-Sophie Beignon, I am applying my research works to predict optimal delays between the prime and the boost for a Modified Vaccinia virus Ankara (MVA) model on non-human primates. Additionally, I am also working with Dr. Elisabeth Menu on metagenomic approaches to explore the diversity of vaginal and rectal microbiomes in cynomolgus macaques.

Since 2014, I am involved in the Franco–Indian laboratory "System Immunology and Genetics of Infectious Diseases" (SIGID) where I am working with Dr. Sylviane Pied to provide breakthroughs in understanding the complexity of the host responses to malaria in Indian patients.