CD4+ T cells are a group of lymphocytes that play critical roles in the immune system. By releasing cytokines, CD4+ T cells regulate other immune cells for maximizing the efficiency of the system. Naive CD4+ T cells are activated and become mature upon engagement with antigens, and the mature CD4+ T cells have several subsets, which play diverse regulatory functions. For the past two decades, our understanding of CD4+ T cells has been advanced through the studies on the differentiation process and the lineage specification of various subsets of these cells.

Although in most experimental studies of CD4+ T cells, researchers focused on how transcription factors and signaling molecules influence the differentiation of a particular subset of these cells, many evidence have shown that the differentiation of CD4+ T cells can be heterogeneous in terms of the phenotypes of the cells involved. This dissertation describes a framework that uses mathematical models of the dynamics of the signaling pathways to explain heterogeneous differentiation. We show that the mutual inhibitions among the master regulators govern the formation of multi-stability behavior, which in turn gives rise to heterogeneous differentiation. The framework can be applied to systems with two or more master regulators, and models based on the framework can make specific predictions about heterogeneous differentiations.

In addition, this dissertation describes an experimental study on CD4+ T cell differentiation. Being part of the adaptive immune system, the differentiation of CD4+ T cells was previously known to be induced by the signals from the innate immune cells. However, the expression of Toll-like receptor in CD4+ T cells suggests that microbial products can also influence the differentiation directly. Using an in vitro cell differentiation approach, we show that the differentiation and proliferation of CD4+ T cells can be influenced by lipopolysaccharide under the condition that would favor the differentiation of induced regulatory T cells.

These theoretical and experimental studies give novel insights on how CD4+ T cells differentiate in response to pathogenic challenges, and help to gain deeper understanding of regulatory mechanisms of the complex immune system.