Algorithm for cellular reprogramming #MMPMID29078370
Ronquist S; Patterson G; Muir LA; Lindsly S; Chen H; Brown M; Wicha MS; Bloch A; Brockett R; Rajapakse I
Proc Natl Acad Sci U S A 2017[Nov]; 114 (45): 11832-7 PMID29078370show ga
Reprogramming the human genome toward any desirable state is within reach; application of select transcription factors drives cell types toward different lineages in many settings. We introduce the concept of data-guided control in building a universal algorithm for directly reprogramming any human cell type into any other type. Our algorithm is based on time series genome transcription and architecture data and known regulatory activities of transcription factors, with natural dimension reduction using genome architectural features. Our algorithm predicts known reprogramming factors, top candidates for new settings, and ideal timing for application of transcription factors. This framework can be used to develop strategies for tissue regeneration, cancer cell reprogramming, and control of dynamical systems beyond cell biology.