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Logic Based Mechanistic Model Of CD4 And T Cell Phenotypes

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In this study, we sought to investigate possible CD4+ T cell phenotypes under diverse environmental conditions, and how the dosage of extracellular inputs (cytokines and TCR) regulates these phenotypes. To study these questions, we build a knowledge driven logic based mechanistic model of CD4+ T-cells. We performed extensive search of published literature to build the model, however it is possible that model may have missing links or components. Logic based models found to be useful in the absence of detailed biochemical information and were previously used to model gene regulation, and signal transduction (Ref.). Next, using all inputs compositions, we systematically characterized the network behaviors. We found that the network arrived …show more content…

Thus, the clear differentiation of Th17 will depend on dosage of IL6. In a recent study it was found that RORγt – Foxp3 co-expressing cells were enriched in the large intestine (Ohnmacht et al., 2015, Fang and Zhu, 2017). Furthermore, Th17-Treg phenotypes were also observed in vivo in autoimmune diabetes model and in vitro in lamina propria (Ichiyama et al., 2008; Zhou et al., 2008; Evans and Jenner, 2013). Moreover, Th1-Treg intermediate phenotypes were observed during Th1 polarizing infections (Stock et al., 2004; Koch et al., 2009, Oldenhove et al., 2009; Evans and Jenner, 2013).
In addition to the hybrid phenotypes co-expressing two lineage specifying T cells, we also obtained phenotypes with the activity of more than two TFs, i.e., Th1-Th2-Treg, Th1-Th17-treg, and Th1-Th2-Th17-Treg. It was shown previously that the basal levels of Tbet and GATA3 can be expressed by subset of Treg cells and the dynamic balance of these TFs helps in maintaining immune tolerance (Yu et al., 2015). Here, we predict the novel phenotypes that can activate three TFs (Tbet-GATA3-Foxp3, Tbet-RORγt-Foxp3) and all four TFs (Tbet-GATA3-RORγt-Foxp3). However, in these phenotypes Tbet and GATA3 have the higher activity levels than the activity levels of Foxp3.
By analyzing all possible input compositions, we obtained the minimal and maximal inputs for each phenotype. The minimal composition include minimum number of inputs that can stimulate a phenotype, on the

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