Dr. Nicolas Tchitchek
Postdoctoral Researcher in Systems Immunology
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 - Publications

Publications of Dr. Nicolas Tchitchek. Publications of Dr. Nicolas Tchitchek are available via google scholar and pubmed

Publications as leading/co-leading author or as principal investigator

[43] Nugeyre MT*, Tchitchek N*, Adapen C, Cannou C, Contreras V, Benjelloun F, Ravel J, Le Grand R, Marlin R, and Menu E. Dynamics of Vaginal and Rectal Microbiota over Several Menstrual Cycles in Female Cynomolgus Macaques. Frontiers in Cellular and Infection Microbiology 10.3389/fcimb.2019.00188 (2019)

[39] Leite Pereira A, Lambotte O, Le Grand R, Cosma A, and Tchitchek N. CytoBackBone: an algorithm for merging of phenotypic information from different cytometric profiles. Bioinformatics 10.1093/bioinformatics/btz212 (2019)

[29] Platon L, Pejoski D, Gautreau G, Targat B, Le Grand R, Beignon AS, and Tchitchek N. A computational approach for phenotypic comparisons of cell populations in high-dimensional cytometry data. Methods 132:66-75 (2018)

[24] Gautreau G, Pejoski D, Cosma A, Le Grand R, Beignon AS, and Tchitchek N. SPADEVizR: an R package for visualization, analysis and integration of SPADE results. Bioinformatics 33(5):779-781 (2017)

[18] Herbert F*, Tchitchek N*, Bansal D*, Jacques J, Becavin C, Dalko E, Preda C, Pathak S, Sharma S, Cazenave P, Das B, and Pied S. Evidence of IL-17, IP-10, and IL-10 involvement in multiple-organ dysfunction and IL-17 pathway in acute renal failure associated to Plasmodium falciparum malaria. Journal of Translational Medicine 13(1):369 (2015)

[17] Rasmussen AL*, Tchitchek N*, Safronetz D*, Carter V, Williams C, Haddock E, Korth M, Feldmann H, and Katze MG. Delayed inflammatory and cell death responses are associated with reduced pathogenicity in Lujo virus-infected Cynomolgus macaques. Journal of Virology 89(5):2543-52 (2015)

[16] Tchitchek N, Safronetz D, Rasmussen AL, Martens C, Virtaneva K, Porcella SF, Feldmann H, Ebihara H, and Katze MG. Sequencing, annotation and analysis of the Syrian hamster Mesocricetus auratus transcriptome. PLoS One 9(11):e112617 (2014)

[11] Tchitchek N, Eisfeld AJ, Tisoncik-Go J, Josset L, Gralinski LE, Becavin C, Tilton SC, Webb-Robertson BJ,Ferris MT, Allison L. Totura AL, Li C, Neumann G, Metz TO, Smith RD, Waters KM, Baric R, Kawaoka Y, and Katze MG. Specific mutations in H5N1 mainly impact the magnitude and velocity of the host response in mice. BMC Systems Biology 7:69 (2013)

[07] Tchitchek N, Golib Dzib JF, Targat B, Benecke A, and Lesne A. CDS: a fold-change based statistical test for concomitant identification of distinctness and similarity in gene expression analysis. Genomics, Proteomics & Bioinformatics 10(3):127-35 (2012)

[06] Tchitchek N*, Jacquelin B*, Winker P, Dossat C, Da Silva C, Weissenbach J, Blancher A, Muller-Trutwin M, and Benecke A. Expression sequence tag library derived from peripheral blood mononuclear cells of the chlorocebus sabaeus. BMC Genomics 13(1):279 (2012)

[05] Rasmussen AL*, Tchitchek N*, Susnow NJ, Krasnoselsky AL, Diamond DL, Yeh MM, Proll SC, Korth MJ, Walters KA, Lederer S, Larson AM, Carithers RL, Benecke A, and Katze MG. Early transcriptional programming links progression to hepatitis C virus-induced severe liver disease in transplant patients. Hepatology 56(1):17-27 (2012)

* These authors equaly contributed to the works

Publications from collaborative works

[42] Shiina T, Suzuki S, Congy-Jolivet N, Aarnink A, Garchon HJ, Dereuddre-Bosquet N, Vaslin B, Tchitchek N, Desjardins D, Autran B, Lambotte O, Theodorou I, Le Grand R, and Blancher A. Cynomolgus macaque IL37 polymorphism and control of SIV infection. Scientific Reports in press (2019)

[41] Mauffrey P, Tchitchek N, Barroca V, Bemelmans AP, Firlej V, Allory Y, Roméo PH, and Magnon C. Progenitors from the central nervous system drive neurogenesis in cancer. Nature 10.1038/s41586-019-1219-y (2019)

[40] Marlin R, Nugeyre MT, Tchitchek N, Parenti M, Lefebvre C, Hakim H, Benjelloun F, Cannou C, Nozza S, Dereuddre-Bosquet N, Levy Y, Barré-Sinoussi F, Scarlatti G, Le Grand R, and Menu E. Seminal plasma exposures strengthen vaccine responses in the female reproductive tract mucosae. Frontiers in Immunology 10.3389/fimmu.2019.00430 (2019)

[38] Tissier R, Hocini H, Tchitchek N, Deye N, Legriel S, Pichon N, Daubin C, Hermine O, Carli P, Vivien B, Tréluyer JM, Lefebvre C, Tisserand P, Dubois-Randé JL, Berdeaux A, Ghaleh B, Lelièvre JD, Levy Y, and Cariou A. Early blood transcriptomic signature predicts patients’ outcome after out-of-hospital cardiac arrest. Resuscitation S0300-9572(19)30072-3 (2019)

[37] Gonçalves E, Bonduelle O, Soria A, Loulergue P, Rousseau A, Cachanado M, Bonnabau H, Thiebaut R, Tchitchek N, Behillil S, van der Werf S, Vogt A, Simon T, Launay O, and Combadiere B. Innate gene signature distinguishes humoral versus cytotoxic responses to influenza vaccination. JCI 130. pii: 125372. doi: 10.1172/JCI125372 (2019)

[36] Palgen JL, Tchitchek N, Huot N, Elhmouzi-Younes J, Namet I, Dereuddre-Bosquet N, Hocini H, Cosma A, Müller-Trutwin M, Lévy Y, Le Grand R, and Beignon AS. Vaccine-induced NK cells immune response differs between prime and boost. Journal of Leukocyte Biology doi: 10.1002/JLB.4A1018-391RR (2019)

[35] Pereira AL, Tchitchek N, Marcos Lopez E, Lambotte O, Le Grand R, and Cosma A. A high-resolution mass cytometry analysis reveals a delay of cytokines production after TLR4 or TLR7/8 engagements in HIV-1 infected humans. Cytokine 111:97-105 (2018)

[34] Rosenbaum P, Tchitchek N, Stimmer L, Hocini H, Dereuddre-Bosquet N, Beignon AS, Chapon C, Levy Y, Le Grand R, and Martinon F. Molecular and cellular dynamics in the skin, the lymph nodes and the blood of the immune response to intradermal injection of modified vaccinia ankara vaccine. Frontiers in Immunology 9:870 (2018)

[33] Coindre S, Tchitchek N, Alaoui L, Vaslin B, Bourgeois C, Goujard C, Avettand-Fenoe V, Bruhns P, Le Grand R, Beignon AS, Lambotte O, and Favier B. Mass cytometry analysis reveals the landscape and dynamics of CD32a high CD4 T-cells from early HIV infection to cART. Frontiers in Immunology 9:1217 (2018)

[32] Palgen JL, Tchitchek N, Elhmouzi-Younes J, Delandre S, Namet I, Rosenbaum P, Dereuddre-Bosquet N, Martinon F, Cosma A, Levy Y, Le Grand R, and Beignon AS. Prime and boost vaccination elicit a distinct innate myeloid cell immune response. Scientific Reports 8(1):3087 (2018)

[31] Echebli N, Tchitchek N, Dupuy S, Bruel T, Pereira Bittencourt Passaes C, Bosquet N, Le Grand R, Bourgeois C, Favier B, Cheynier R, Lambotte O, and Vaslin B. Stage-specific IFN-induced and IFN gene expression reveal convergence of type I and type II IFN and highlight their role in both acute and chronic stage of pathogenic SIV infection. PLoS One 13(1):e0190334 (2018)

[28] Marlin R, Nugeyre MT, Tchitchek N, Parenti M, Hocini H, Benjelloun F, Cannou C, Dereuddre-Bosquet N, Barré-Sinoussi F, Scarlatti G, Le Grand R, and Menu E. Modified Vaccinia virus Ankara vector induces specific cellular and humoral responses in the female reproductive tract, the main HIV portal of entry. Journal of Immunology 199(5):1923-1932 (2017)

[27] Elhmouzi-Younes J, Palgen JL, Tchitchek N, Delandre S, Namet I, Bodinham C, Pizzoferro K, Lewis D, Roger Le Grand R, Antonio Cosma A, and Beignon AS. In depth comparative phenotyping of blood innate myeloid leukocytes from healthy humans and macaques using mass cytometry. Cytometry Part A 91(10):969-982 (2017)

[26] Roques P, Ljungberg K, Kümmerer B, Gosse L, Dereuddre-Bosquet N, Tchitchek N, Hallengärd D, García-Arriaza J, Meinke A, Esteban M, Merits A, Le Grand R, and Liljeström P. Attenuated and vectored vaccines protect non-human primates against Chikungunya virus. JCI Insight 2(6):e83527 (2017)

[25] Bécavin C, Koutero M, Tchitchek N, Cerutti F, Lechat P, Maillet N, Hoede C, Chiapello H, Gaspin C, and Cossart P. Listeriomics: an interactive web platform for Systems Biology of Listeria. mSystems 2(2):e00186-16 (2017)

[23] Lamart S, Griffiths N, Tchitchek N, Angulo J, and Van der Meeren A. Analysis methodology and development of a statistical tool for biodistribution data from internal contamination with actinides. Journal of Radiological Protection 37(1):296-308 (2017)

[22] Bodez D, Hocini H, Tchitchek N, Tisserand P, Benhaiem N, Barau C, Kharoubi M, Guellich A, Guendouz S, Radu C, Couetil JP, Ghaleh B, Dubois-Rande JL, Teiger E, Hittinger L, Levy Y, and Damy T. Myocardial gene expression profiling to predict and identify cardiac allograft acute cellular rejection: The GET-Study. PLoS One 11(11):e0167213 (2016)

[21] Dalko E, Tchitchek N, Pays L, Herbert F, Cazenave PA, Ravindran B, Sharma S, Nataf S, Das B, and Pied S. Erythropoietin levels increase during cerebral malaria and correlate with heme, interleukin-10 and tumor necrosis factor-alpha in India. PLoS One 11(7):e0158420 (2016)

[20] Pejoski D, Tchitchek N, Rodriguez Pozo A, Elhmouzi-Younes J, Yousfi-Bogniaho R, Rogez-Kreuz C, Clayette P, Dereuddre-Bosquet N, Lévy Y, Cosma A, Le Grand R, and Beignon AS. Identification of vaccine-altered circulating B cell phenotypes using mass cytometry and a two-step clustering analysis. Journal of Immunology 196(11):4814-31 (2016)

[19] Forero A, Watanabe T, Zhong G, Go JT, Tchitchek N, Josset L, Chang J, Selinger C, Zhong G, Watanabe T, Kawaoka Y, and Katze MG. Circulating avian influenza viruses with close homology to the 1918 virus share similar signatures of pathogenicity. Journal of Virology 90(5):2240-53 (2015)

[15] Morrison J, Josset L, Tchitchek N, Chang J, Belser JA, Swayne DE, Pantin-Jackwood MJ, Tumpey TM, and Katze MG. H7N9 and other pathogenic avian influenza viruses elicit a three-pronged transcriptomic signature that is reminiscent of 1918 influenza virus and is associated with lethal outcome in mice. Journal of Virology 88(18):10556-68 (2014)

[14] Josset L, Tchitchek N, Ferris MT, Gralinski LE, Green R, Thomas MJ, Pardo-Manuel de Villena D, Baric RS, Heise MT, Peng X, and Katze MG. Annotation of long non-coding RNAs expressed in collaborative cross founder mice in response to respiratory virus infection reveals a new class of interferon-stimulated transcripts. RNA Biology 11(7):875-90 (2014)

[13] Aevermann B, Pickett B, Kumar S, Klem E, Agnihothram S, Askovich P, Bankhead III A, Bolles M, Carter V, Chang J, Clauss T, Dash P, Diercks A, Eisfeld A, Ellis A, Fan S, Ferris M, Gralinski L, Green R, Gritsenko M, Hatta M, Heegel R, Jacobs J, Jeng S, Josset L, Kaiser S, Kelly S, Law L, Li C, Li J, Long C, Luna M, Matzke M, McDermott J, Menachery V, Metz T, Mitchell H, Monroe M, Navarro G, Neumann G, Podyminogin R, Purvine S, Rosenberger C, Sanders C, Schepmoes A, Shukla A, Sims A, Sova P, Tam V, Tchitchek N, Thomas P, Tilton S, Totura A, Wang J, Webb-Robertson BJ, Wen J, Weiss J, Yang F, Yount B, Zhang Q, McWeeney S, Smith R, Waters K, Kawaoka Y, Baric R, Aderem A, Katze M, and Scheuermann R. A comprehensive collection of systems biology data characterizing the host response to viral infection. Scientific Data 1:140033 (2014)

[12] Mitchell HD, Eisfeld AJ, Sims AC, McDermott JE, Matzke MM, Webb-Robertson BJM, Tilton SC, Tchitchek N, Josset L, Li C, Ellis AL, Chang JH, RA, Luna ML, Schepmoes AA, Shukla AK, Metz TO, Neumann G, Benecke AG, Smith RD, Baric RS, Kawaoka Y, Katze MG, and Waters KM. A network integration approach to predict conserved regulators related to pathogenicity of influenza and SARS-CoV respiratory viruses. PLoS One 8(7):e69374 (2013)

[10] Watanabe T, Tisoncik J, Tchitchek N, Watanabe S, Shinya K, Benecke AG, Katze MG, and Kawaoka Y. 1918 Influenza virus hemagglutinin (HA) and the viral RNA polymerase complex enhance viral pathogenicity, but only HA induces aberrant host responses in mice. Journal of Virology 87(9):5239-54 (2013)

[08] Go JT, Belisle SE, Tchitchek N, Tumpey TM, Ma W, Richt JA, Safronetz D, Feldmann H, and Katze MG. 2009 pandemic H1N1 influenza virus elicits similar clinical course but differential host transcriptional response in mouse, macaque, and swine infection models. BMC Genomics 13(1):627 (2012)

[04] Chang ST, Tchitchek N, Ghosh D, Benecke A, and Katze MG. A chemokine gene expression signature derived from meta-analysis predicts the pathogenicity of viral respiratory infections. BMC Systems Biology 5:202 (2011)

[03] Becavin C, Tchitchek N, Mintsa-Eya C, Lesne A, and Benecke A. Improving the efficiency of multidimensional scaling in the analysis of high-dimensional data using singular value decomposition. Bioinformatics 27(10):1413-1421 (2011)

[02] Fernandes-Rosa FL, Hubert EL, Fagart J, Tchitchek N, Gomes D, Jouanno E, Benecke A, Rafestin-Oblin ME, Jeunemaitre X, Antonini SR, and Zennaro MC. Mineralocorticoid receptor mutations differentially affect individual gene expression profiles in pseudohypoaldosteronism type 1. Journal of Clinical Endocrinology & Metabolism 96(3):E519-E527 (2011)

[01] Endt K, Stecher B, Chaffron S, Slack E, Tchitchek N, Benecke A, Van Maele L, Sirard JC, Mueller AJ, Heikenwalder M, Macpherson AJ, Strugnell R, von Mering C, and Hardt WD. The microbiota mediates pathogen clearance from the gut lumen after non-typhoidal salmonella diarrhea. PLOS Pathogens 6(9):e1001097+ (2010)

Reviews, book chapters, and editorials

[30] Tchitchek N. Navigating in the vast and deep oceans of high-dimensional biological data. Methods 132:1-2 (2018) [Editorial]
[09] Korth MJ, Tchitchek N, Benecke A, and Katze MG. Systems approaches to influenza-virus host interactions and the pathogenesis of highly virulent and pandemic viruses. Seminars in Immunology 25(3):228-39 (2012) [Review]

Other links to my list of publications

My list of publications and the associated papers can also be obtained at: