I am a second year PhD candidate in the lab. Iâ€™ve done my B.Sc. in Chemical EngineeringÂ in Ben Gurion University of the Negav and my M.Sc. in BiomedicalÂ Engineering in Tel Aviv University. In my PhD Iâ€™m combining experimental biology work on mouse embryonic stem cells (mESCs) and myÂ engineeringÂ background to better understand what is the structure and function of the transition state in cell fate assignments. In my first part of my PhD I have focused on the role of a specific epigenetic modification (histone acetyltransferase (HAT) GCN5) on cell fate decisions, by inferring the transition rate of cells between the states of Nanog, a pluripotent marker.
Figure 1. Clustering each cell to the three subpopulation: high Nanog (yellow), mid Nanog (green) and low Nanog (blue) levels. The cells proportion for each group is the average across 100 repeats of the soft clustering procedure and the number in each bar represents the standard deviation of its corresponding cells proportion average.
My current focus of my PhD is to better define the Neuromesodermal progenitor (NMp).Â In amniote embryos the spinal cord develops from a small progenitor population that is independent from the neural plate and contains progenitors for both the paraxial mesoderm and the spinal cord, this population is the NMp. A recent work in the lab showed thatÂ controlled increases of Wnt/Î²-catenin and FGF signalling during adherent culture and aggregates differentiation of mESCs generates a population of adherent cells and three dimensional (3D) aggregates with many of the properties of the NMp. In my PhD work I will investigate the molecular mechanisms involved in the establishment and self-renewal of NMps in both the adherent culture and the 3D aggregates, and will strive to model the dynamic between the self-renewing and lineages committing rates, using single cell RNA expression techniques.
Figure 2. Schema of the NMps states: NMp are bi-potent cells and like stem cell can self-renew infinite times, we define this state as “Trapped state”. The cells in the trapped state are in equilibrium with cells in the transition state: cells that are committed progenitors that can self- renew limited number of times. The committed progenitors with right signals will become either neural progenitor or mesodermal progenitor.
List of Publications:
- S. Edri, E. Gazit, E.Choen, T. Tuller, “The RNA Polymerase Flow Model of Gene Transcription”, IEEE Transactions on Biomedical Circuits and Systems, 10.1109/TBCAS.2013.2290063,Â 2014.
- S. Edri and T. Tuller, “Quantifying the Effect of Ribosomal Density on mRNA Stabilityâ€, PLoS ONE, 10.1371/journal.pone.0102308, 2014.