Highly multiplexed spatial profiling with CODEX: bioinformatic analysis and application in human disease.
Wilson KuswantoGarry NolanGuolan LuPublished in: Seminars in immunopathology (2022)
Multiplexed imaging, which enables spatial localization of proteins and RNA to cells within tissues, complements existing multi-omic technologies and has deepened our understanding of health and disease. CODEX, a multiplexed single-cell imaging technology, utilizes a microfluidics system that incorporates DNA barcoded antibodies to visualize 50 + cellular markers at the single-cell level. Here, we discuss the latest applications of CODEX to studies of cancer, autoimmunity, and infection as well as current bioinformatics approaches for analysis of multiplexed imaging data from preprocessing to cell segmentation and marker quantification to spatial analysis techniques. We conclude with a commentary on the challenges and future developments for multiplexed spatial profiling.
Keyphrases
- single cell
- rna seq
- high resolution
- high throughput
- healthcare
- endothelial cells
- gene expression
- induced apoptosis
- mental health
- electronic health record
- deep learning
- single molecule
- mass spectrometry
- machine learning
- squamous cell carcinoma
- mesenchymal stem cells
- cell therapy
- nucleic acid
- cell proliferation
- social media
- artificial intelligence