To request an R package–please contact us .
A macrophage annotation system that allows comprehensive analysis of heterogeneous subpopulations and their multifaceted activation states under various in vitro and in vivo conditions, including the identification of condition-specific signature genes. Each subpopulation identified by MacSpectrum can be further analyzed for cell function and intracellular signaling networks in conjunction with other programs, such as Ingenuity Pathway Analysis by Qiagen, NIH DAVID, and others.
With MacSpectrum, you can:
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- generate MacSpectrum Plots to visualize the heterogeneity of your macrophage data-sets.
- Identify and visualize the signature gene list in macrophage subsets identified by MacSpectrum.
Citation: Chuan Li, Antoine Menoret, Cullen Farragher, Zhengqing Ouyang, Christopher Bonin, Paul Holvoet, Anthony T. Vella, Beiyan Zhou. Single cell transcriptomics-based MacSpectrum reveals novel macrophage activation signatures in diseases. JCI insight. April 16 2019. PMID: 30990466
MacBrowser
Using our newly launched MacBrowser, you can check the MPI/AMDI plots and gene expressions of murine bone marrow-derived macrophages that were not stimulated (“M0”), or stimulated LPS+IFNγ (“M1”) or IL4+IL13 (“M2”). You can check their MPI/AMDI distributions and expression patterns of any genes. Please refer to our JCI insight publication (PMID: 30990466) for more details of the dataset.
AtheroSpectrum (Comming soon)
Citation: AtheroSpectrum Reveals Novel Macrophage Foam Cell Gene Signatures Associated With Atherosclerotic Cardiovascular Disease Risk . Chuan Li*, Lili Qu*, Alyssa J. Matz*, Patrick A. Murphy, Yongmei Liu, Ani W. Manichaikul, Derek Aguiar, Stephen S. Rich, David M. Herrington, David Vu, W. Craig Johnston, Jerome I. Rotter, Wendy S. Post, Anthony T. Vella, Annabelle Rodriguez-Oquendo, and Beiyan Zhou# Circulation. 2022;145:206–218. https://doi.org/10.1161/CIRCULATIONAHA.121.054285