Publications - Chevrier Lab

Molecular and cellular cartography of the laboratory mouse using whole-body sections

Clevenger M,* Cipurko D,* Patil A,* Li B,* Takahama M,* Mei L, Plaster M, Richey G, Kawamoto T, Bao F, Chevrier N.

Cell, in press, (2026)

Two microbiome metabolites competing for tRNA modification impact mammalian cell proliferation and translation quality control

Zhang W, Lahry K, Cipurko D, Huang SH, Zbihley O, Rudzka D, Frietze LR, Assari M, Katanski CD, Singh M, Attina A, Guillorit H, Watkins CP, Gourlain D, Varlet D, Falconi J, Djiane A, Hirtz C, Chen HK, Macari F, Johnson K, Chevrier N*, David A*, Pan T*.

Nature Cell Biology, (2025)

Gut inflammation promotes microbiota-specific CD4 T cell-mediated neuroinflammation

White Z, Cabrera I, Mei L, Clevenger M, Ochoa-Raya A, Kapustka I, Dominguez JR, Zhou J, Koster KP, Anwar S, Wang Q, Ng C, Sagoshi S, Matsuo T, Jayawardena D, Kim SH, Kageyama T, Mitchell BJ, Rivera D, Dudeja PK, Lutz SE, Kim KW, Yoshii A, Chevrier N, Inoue M, Sano T.

Nature, 643(8071):509-518 (2025)

Mammalian queuosine tRNA modification impacts translation to enhance cell proliferation and MHC-II expression

Zbihley ONP, Johnson K, Frietze LR, Zhang W, Foo W, Tran HAV, Chevrier N, Pan T.

Journal of Molecular Biology, 437(16):169188 (2025)

IL-10 sensing by lung interstitial macrophages prevents bacterial dysbiosis-driven pulmonary inflammation and maintains immune homeostasis

Kim SH, White Z, Gainullina A, Kang S, Kim J, Dominguez JR, Choi Y, Cabrera I, Plaster M, Takahama M, Czepielewski RS, Yeom J, Gunzer M, Hay N, David O, Chevrier N, Sano T*, Kim KW*.

Immunity, 58(5):1306-1326.e7 (2025)

Repurposing Large-Format Microarrays for Scalable Spatial Transcriptomics

Cipurko D, Ueda T, Mei L, Chevrier N.

Nature Methods, 22(1):145-155 (2025)

PubMed PMID: 39562752

Scripts

A Flexible Model for Correlated Count Data, with Application to Multicondition Differential Expression Analyses of Single-Cell RNA Sequencing Data

Liu Y, Carbonetto P, Takahama M, Gruenbaum A, Xie D, Chevrier N, Stephens M.

The Annals of Applied Statistics, 18(3): 2551-2575 (2024)

A Pairwise Cytokine Code Explains the Organism-Wide Response to Sepsis

Takahama M, Patil A, Richey G, Cipurko D, Johnson K, Carbonetto P, Plaster M, Pandey S, Cheronis K, Ueda T, Gruenbaum A, Kawamoto T, Stephens M, Chevrier N.

Nature Immunology, 25, 226–239 (2024)

PubMed PMID: 38191855

Scripts

Featured in:

Research Briefing

Pairwise Stimulations of Pathogen-Sensing Pathways Predict Immune Responses to Multi-Adjuvant Combinations

Pandey S, Gruenbaum A, Kashanova T, Mertins P, Cluzel P, Chevrier N.

Cell Systems, 11(5):495-508.e10 (2020)

PubMed PMID: 33113356

Scripts

A Whole-Tissue RNA-seq Toolkit for Organism-Wide Studies of Gene Expression with PME-seq

Pandey S, Takahama M, Gruenbaum A, Zewde M, Cheronis K, Chevrier N.

Nature Protocols, 15(4):1459-1483 (2020)

PubMed PMID: 32076350

Scripts

Decoding the Body Language of Immunity: Tackling the Immune System at the Organism Level

Chevrier N.

Current Opinion in Systems Biology, 18, 19-26 (2019)

PubMed PMID: 32490290

Organism-Level Analysis of Vaccination Reveals Networks of Protection Across Tissues

Kadoki M, Patil A, Thaiss C, Brooks DJ, Pandey S, Deep D, Alvarez D, von Andrian UH, Wagers AJ, Nakai K, Mikkelsen T, Soumillon M, Chevrier N.

Cell, 171(2):398-413 (2017)

PubMed PMID: 28942919

Featured in:

Trends in Immunology,

F1000 Faculty,

Cell Systems