Abstract
Immune cell composition is highly divergent across different tissues and diseases. A comprehensive resource of tissue immune cells across different conditions in mouse and human will thus provide great understanding of the immune microenvironment of many diseases. Recently, computational methods for estimating immune cell abundance from tissue transcriptome data have been developed and are now widely used. Using these computational tools, large-scale estimation of immune cell composition across tissues and conditions should be possible using gene expression data collected from public databases. In total, 266 tissue types and 706 disease types in humans, as well as 143 tissue types and 61 disease types, and 206 genotypes in mouse had been included in a database we have named ImmuCellDB (http://wap-lab.org:3200/ImmuCellDB/). In ImmuCellDB, users can search and browse immune cell proportions based on tissues, disease or genotype in mouse or humans. Additionally, the variation and correlation of immune cell abundance and gene expression level between different conditions can be compared and viewed in this database. We believe that ImmuCellDB provides not only an indicative view of tissue-dependent or disease-dependent immune cell profiles, but also represents an easy way to pre-determine immune cell abundance and gene expression profiles for specific situations.
Highlights
Tissues infiltrating immune cells have long been recognized as important regulators in both healthy and disease conditions
ImmuCellDB is a database for tissue immune cell composition and gene expression in nearly 266 tissue types and 706 disease types in humans and 143 tissue types, 61 disease types, and 206 genotypes in mouse (Figure 1C)
According to the expression data collected from Gene Expression Omnibus (GEO), the abundance of 21 different types of immune cells was inferred from the transcriptome data of tissues using deconvolution tools
Summary
Tissues infiltrating immune cells have long been recognized as important regulators in both healthy and disease conditions. In response to different stimuli, normal and abnormal immune reactions may be produced by the immune system. Autoimmune diseases can occur when the immune reactions targeting our body are too strong, whereas tumors can be established when immune responses to malignant cells are too weak. Inflammation or infection can occur depending on the magnitude and duration of immune responses Database of Tissue Immune Cell Composition in many diseases. Immune states in multiple irrespective areas can be reshaped by some cytokines, metabolites, etc., that are transported by the circulatory system [1]. Knowledge of the constitution of tissue immune cells under different conditions should greatly enhance our understanding of their roles
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