Immune System Modeling and Analysis

Inferring upstream regulatory genes of FOXP3 in human regulatory T cells from time-series transcriptomic data

“…These methods mainly identify co-expression of genes, rather than causal interactions 52 , i.e., regulations. Also, mathematical models of Tregs' dynamics or wider parts of the immune system are not useful in finding novel regulatory genes of FOXP3 because they mainly included known regulations [53][54][55][56][57][58][59][60] . Thus, novel upstream genes regulating FOXP3 are still largely unknown.…”

Immunomics: a 21st century approach to vaccine development for complex pathogens

“…This wealth of information is a direct consequence of technological advances focused at the molecular level and allows for multidisciplinary approaches to identify target antigens for the development of vaccines, drugs and diagnostic tests, and for the development and application of methods to identify immune correlates of protection . Complementary methods, such as next-generation sequencing of lymphocyte epertoires (Mehr, 2014), complete T-and B-cell phenotype analysis (Zarnitsyna et al 2013), highlysensitive gene expression measurement using Fluidigm (Spurgeon et al 2008) or Nanostring (Geiss et al 2008), high-throughput profiling technologies using CyTOF mass cytometer (Kidd et al 2014;Hansmann et al 2015), and biophotonic imaging for visualizing the infectious disease process (Andreu et al 2011), among other advances, have the potential to enhance understanding of the interaction between host and pathogens at the molecular level. The availability and refinement of large-scale bioinformatic databases containing information on both host and pathogen can further advance the acquisition, analysis and application of research data to yield more clinically relevant outcomes, ideally leading to the development of vaccines that provide sterile life-long protective immunity without the need for boosting, or sensitive and specific biomarkers of pathogens exposure or protective immunity.…”