A multiscale signalling network map of innate immune response in cancer reveals cell heterogeneity signatures.
Maria KondratovaUrszula CzerwinskaNicolas SompairacSebastian D AmigorenaVassili SoumelisEmmanuel BarillotAndrei ZinovyevInna KupersteinPublished in: Nature communications (2019)
The lack of integrated resources depicting the complexity of the innate immune response in cancer represents a bottleneck for high-throughput data interpretation. To address this challenge, we perform a systematic manual literature mining of molecular mechanisms governing the innate immune response in cancer and represent it as a signalling network map. The cell-type specific signalling maps of macrophages, dendritic cells, myeloid-derived suppressor cells and natural killers are constructed and integrated into a comprehensive meta map of the innate immune response in cancer. The meta-map contains 1466 chemical species as nodes connected by 1084 biochemical reactions, and it is supported by information from 820 articles. The resource helps to interpret single cell RNA-Seq data from macrophages and natural killer cells in metastatic melanoma that reveal different anti- or pro-tumor sub-populations within each cell type. Here, we report a new open source analytic platform that supports data visualisation and interpretation of tumour microenvironment activity in cancer.
Keyphrases
- immune response
- single cell
- rna seq
- papillary thyroid
- dendritic cells
- high throughput
- squamous cell
- stem cells
- systematic review
- lymph node metastasis
- healthcare
- squamous cell carcinoma
- toll like receptor
- gene expression
- big data
- social media
- natural killer cells
- lymph node
- induced apoptosis
- bone marrow
- cell therapy
- rectal cancer