Department of Bioengineering, Gebze Technical University, Kocaeli/Turkey
Mathematical analysis of transcriptomic and epigenetic trajectories of stem differentiation and reprogramming
Somatic cells can be reprogrammed into stem cells, which can be in turn differentiated into various tissue cells. While these techniques have enormous potential in clinical use, both processes can take up to weeks to complete and they are highly inefficient. The reprogramming and differentiation depends on time-dependent changes in molecular profiles of the cells. The key changes take place in transcription and epigenetic landscape of the cells. We aim to compare the transcriptomic and epigenetic trajectories of stem of differentiation and reprogramming processes. The reversibility of differentiation and reprogramming (or lack of it) will help us better understand the molecular mechanisms, which can lead to more efficient clinical use of stem cells. We use bioinformatics and mathematical modelling on high-throughput data such as RNA-seq, Chip-seq and methylome.