March 15, 2019  |  FlowSOM, viSNE

Beginner’s guide to FlowSOM: Profiling the innate immune response to viral infection

FlowSOM detailChikungunya virus is transmitted to humans in tropical regions through the bite of a mosquito carrying the virus. Pediatric populations are most at risk for developing acute illness of fever, rash, and joint pain, often followed chronic, debilitating arthritis. With no available vaccine or effective anti-viral treatment, a comprehensive immunophenotyping study was performed by Michlmayr et. al. on PBMCs of 42 children during acute and convalescent phases of infection, to better understand the innate anti-viral immune response.

Using 35-parameter CyTOF data available on ImmPort (SDY1288), we applied Cytobank’s machine learning tools viSNE followed by FlowSOM to simplify visualization, then cluster cells and identify which clusters were altered during acute infection. More »