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Single Cell Omics Solutions for Macrophages

Macrophages are well known for their dual role in coordinating inflammatory responses and regulating tissue repair. To help scientists study the heterogeneity of inflammatory macrophages in more details, Creative Biolabs has launched single-cell multi-omics services for macrophages at different stages of inflammatory development. Our single cell omics services can be applied to discover new immune cell types, reveal hematopoietic lineages, identify gene modules that determine immune responses, and study lymphocyte antigen receptor diversity.


Macrophages perform a variety of functions during acute inflammation, including the production of inflammatory cytokines, the phagocytosis of cellular debris, and the production of repair molecules. Therefore, they are attractive candidates for therapeutic interventions for inflammatory diseases. However, targeting of macrophages has been hindered by lack of precise understanding of their dynamic activities in inflamed tissues. Single-cell omics analysis can be valuable and unbiased approach to dissect cellular heterogeneity, explore more functional phenotypes and protein events.

Single Cell Detection of Heterogeneity of Macrophages

The emergence of sequencing technologies that detect transcriptomes at single-cell level has revolutionized the way we study the immune system. Scientists can therefore detect differences between single cells that were previously masked by cellular homologous gene expression. These same intercellular heterogeneities caused by intrinsic and extrinsic variability cannot be studied at the bulk population level. In view of this, our single cell analysis platforms provide customers with comprehensive single cell omics solutions for categorizing different cell populations.

Macrophage heterogeneity. Fig.1 Macrophage heterogeneity. (Qian, 2019)

We provide a comprehensive set of single cell omics solutions including but not limited to the followings:

  • Single-cell RNA Sequencing-based Identification of Macrophage Populations

    Since it has been found that macrophages can perform a variety of different functions controlling the development of various diseases, it is generally believed that macrophages contain several phenotypic heterogeneous subsets. Empowered by the single cell RNA sequencing technology, it opens the possibility to unbiasedly map cellular heterogeneity and recover cellular identities and can furthermore uncover previously unrecognized disease-associated cell populations, functional states, markers, as well as potential molecular regulators.

  • Single-cell RNA Sequencing-based Gene Expression Heterogeneity in Macrophage Populations

    We offer single cell differential expression (SCDE) analysis for different macrophage populations to identify the different gene expression level at single-cell level. It has been found that gene expression level is highly heterogeneous which is critical for the macrophage involved in disease development.

Published Data

Here are two examples using single cell technologies to unravel the heterogeneity of macrophages.

  • Example 1

    372 cells from the control and 854 cells from the diseased aorta were isolated for single-cell RNA sequencing analysis. The gene expression data of the cells extracted from these two conditions were compared through t-random neighbor embedding (t-SNE), identifying immune cell populations associated with atherosclerosis (see Fig.2).

    Identification of atherosclerosis-associated immune cell populations. Fig.2 . Identification of atherosclerosis-associated immune cell populations. (Cochain, 2018)

  • Example 2

    Here is an example to explore the gene expression signature of macrophages in the atherosclerotic aorta (see Fig.3).

Gene expression signature of macrophages in the atherosclerotic aorta. Fig.3 . Gene expression signature of macrophages in the atherosclerotic aorta. (Cochain, 2018)

With advanced single cell analysis platforms and extensive expertise,Creative Biolabs is dedicated to offering customized single cell solutions for macrophages. We focus on heterogeneous genetic and environmental modifications to macrophages, and exploring novel macrophage cell types. If you are interested in our single cell analysis services, please contact us by email or send us an inquiry to get a complete solution for your program.


  1. Qian, C.; et al. Heterogeneous macrophages: Supersensors of exogenous inducing factors[J]. Scandinavian journal of immunology. 2019: e12768.
  2. Cochain, C.; et al. Single-cell RNA-seq reveals the transcriptional landscape and heterogeneity of aortic macrophages in murine atherosclerosis[J]. Circulation research. 2018, 122(12): 1661-1674.
! ! For Research Use Only. Not for diagnostic or therapeutic purposes.