The Cancer Transcriptome Atlas (CTA) is designed for comprehensive profiling of the tumor biology, tumor microenvironment, and the immune response. It covers the RNA expression of over 1,800 genes simultaneously with spatial resolution in any region of interest from a single tissue section.

  • Extensive coverage of the immune response, tissue microenvironment, tumor biology, and genes from clinically relevant genes sets such as tumor inflammation
  • Spatial measurement of single cell signatures with high sensitivity and dynamic range
  • Inclusion of genes for the Tumor Inflammation Signature, PAM50 and other clinical signatures
  • Over 100 pathways to explore all aspects of cancer and tumor biology
The CTA assay is compatible with RNAscope® and antibody visualization markers. It can also be supplemented with up to 60 additional targets of interest.

Learn about out spatial transcriptomics services

Comprehensively Annotated Pathways in the CTA

Adaptive Immunity  







































Cell Function  







































Signaling Pathways
T cells B cells Apoptosis AMPK Signaling
TCR & BCR Signaling Autophagy Androgen Signaling
Cancer Antigens Cell Adhesion & Motility EGFR Signaling
MHC Class I & II Antigen Presentation Cell Cycle ERBB2 Signaling
T-cell Checkpoints Cilium Assembly Estrogen Signaling
TH1, TH2, TH9, Th17, and Treg Differentiation Differentiation FGFR Signaling
DNA Damage Repair FoxO Signaling
Innate Immunity EMT GPCR Signaling
Complement System Endocytosis Hedgehog Signaling
Dendritic Cells Epigenetic Modification HIF1 Signaling
DNA & RNA Sensing Immortality & Stemness Insulin Signaling
Glycan Sensing Ion Transport JAK-STAT Signaling
Host Defense Peptides Lysosome MAPK Signaling
Inflammasomes Oxidative Stress MET Signaling
Myeloid Inflammation Phagocytosis mTOR Signaling
Neutrophil Degranulation Proteotoxic Stress Myc
NK Activity RNA Processing NO Signaling
NLR Signaling Senescence Notch Signaling
RAGE Signaling p53 Signaling
TLR Signaling Metabolism PDGF Signaling
Amino Acid Synthesis & Transport PI3K-Akt Signaling
Immune Response Arginine & Glutamine Metabolism PPAR Signaling
Chemokine Signaling Fatty Acid Oxidation & Synthesis Purinergic Signaling
Cytotoxicity Glycolysis & Glucose Transport Retinoic Acid Signaling
IL-1, IL-2, IL-6 & IL-17 Signaling Glycosylation TGF-beta Signaling
Immune Exhaustion IDH1/2 VEGF Signaling
Interferon Response Genes Lipid Metabolism Wnt Signaling
Lymphocyte Regulation & Trafficking Mitochondrial Metabolism / TCA
NF-kB Signaling Nucleotide Synthesis Physiology & Disease
Other Interleukin Signaling Pentose Phosphate Angiotensin System
Prostaglandin Inflammation Tryptophan & Kynurenine Metabolism Circadian Clock
TNF Signaling Vitamin & Cofactor Metabolism Drug Resistance
Type I, II, & III Interferon Signaling  











Matrix Remodeling and Metastasis
Neuroendocrine Function
Prostate Cancer

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