Gene Skyline
The Skyline presents the expression profiles of a selected gene in a chosen group of cell types, in either microarray or ULI RNA-seq data.
Single Cell Profiling
Display Single Cell RNA-seq profiles from immunological organs and cell-types, and their distinguishing gene modules.
Gene Constellation
The Constellation view presents the genes most closely correlated to a chosen gene, grouped by genomic location or secondary correlation.
MicroRNA
MicroRNA abundance profiles in different immunological cell-types (Qiagen qPCR), viewed by cell-type of by predicted target sites.
GEM (Gene Expression Map)
Dive into a zoom-enabled representation of the genome, with gene expression (microarray) as pseudo-color barcodes positioned along the chromosomes, marking specific genes or differentially expressed regions.
MyGeneset
See how your gene set is expressed across ImmGen cell-types.
Population Comparison
Performs a comparison of gene expression between 2 cell-types (or groups of cell-types), returns the most differential genes and their statistics.
Chromatin
Chromatin profiles in different immunological cell-types (ChIPseq, ATACseq).
Human/Mouse Comparison
Compares the expression of individual genes in human and mouse immune cell lineages, and their co-regulated gene modules.
Enhancer Networks
The Enhancer Networks databrowser allows users to explore the "Open Chromatin Region" of accessible chromatin (mostly promoters or enhancers) associated with a particular gene within the mouse immune system.
Deep RNAseq
Gene expression profiles from different immunological cell-types by TrueSeq RNA-seq, visualized on the UCSC Genome Browser.
Differential Splicing
Differentially spliced isoforms in different immunological cell-types, from RNA-seq junction analysis and from feature-level microarray analysis.
Genetic variation
A series of comparison tools and tables exploring the variation in gene expression between mouse inbred strains.
Modules and regulators
Interactive display of the modules of co-regulated genes across immunological cell-types, and the transcription factors (TFs) predicted to control them.
Cytokines
Presents the transcriptional signatures of cytokines in different immunocyte lineages, predicted regulatory networks and chromatin rearrangements.




ImmGen Datasets
The ImmGen data and browsers are developed as a general resource for the community, principally supported by funds from NIH/NIAID. Datasets can be downloaded from NCBI’s GEO and SRA data repositories, this searchable table provides links to all ImmGen data series and normalized gene tables.
Individual Datasets Retrieval
Download individual datasets (Microarray only).
Drag each population or the whole branch of interest from the left tree and drop onto the cart. Then click the download button on the right. We will send you by email a link to retrieve the requested dataset.