Network analysis of large-scale ImmGen and Tabula Muris datasets highlights metabolic diversity of tissue mononuclear phagocytes

ImmGen Consortium, Anastasiia Gainullina, Denis A. Mogilenko, Li Hao Huang, Helena Todorov, Vipin Narang, Ki Wook Kim, Lim Sheau Yng, Andrew Kent, Baosen Jia, Kumba Seddu, Karen Krchma, Jun Wu, Karine Crozat, Elena Tomasello, Regine Dress, Peter See, Charlotte Scott, Sophie Gibbings, Geetika BajpaiJigar V. Desai, Barbara Maier, Sébastien This, Peter Wang, Stephanie Vargas Aguilar, Lucie Poupel, Sébastien Dussaud, Tyng An Zhou, Veronique Angeli, J. Magarian Blander, Kyunghee Choi, Marc Dalod, Ivan Dzhagalov, Emmanuel L. Gautier, Claudia Jakubzick, Kory Lavine, Michail S. Lionakis, Helena Paidassi, Michael H. Sieweke, Florent Ginhoux, Martin Guilliams, Christophe Benoist, Miriam Merad, Gwendalyn J. Randolph, Alexey Sergushichev, Maxim N. Artyomov

Research output: Contribution to journalArticlepeer-review

4 Scopus citations


The diversity of mononuclear phagocyte (MNP) subpopulations across tissues is one of the key physiological characteristics of the immune system. Here, we focus on understanding the metabolic variability of MNPs through metabolic network analysis applied to three large-scale transcriptional datasets: we introduce (1) an ImmGen MNP open-source dataset of 337 samples across 26 tissues; (2) a myeloid subset of ImmGen Phase I dataset (202 MNP samples); and (3) a myeloid mouse single-cell RNA sequencing (scRNA-seq) dataset (51,364 cells) assembled based on Tabula Muris Senis. To analyze such large-scale datasets, we develop a network-based computational approach, genes and metabolites (GAM) clustering, for unbiased identification of the key metabolic subnetworks based on transcriptional profiles. We define 9 metabolic subnetworks that encapsulate the metabolic differences within MNP from 38 different tissues. Obtained modules reveal that cholesterol synthesis appears particularly active within the migratory dendritic cells, while glutathione synthesis is essential for cysteinyl leukotriene production by peritoneal and lung macrophages.

Original languageEnglish
Article number112046
JournalCell Reports
Issue number2
StatePublished - Feb 28 2023


  • CP: Immunology
  • CP: Metabolism
  • ImmGen
  • immunometabolism
  • mononuclear phagocytes
  • myeloid cells
  • network analysis
  • single-cell RNA-seq


Dive into the research topics of 'Network analysis of large-scale ImmGen and Tabula Muris datasets highlights metabolic diversity of tissue mononuclear phagocytes'. Together they form a unique fingerprint.

Cite this