ArticleBMC systems biology2011
Recipes and mechanisms of cellular reprogramming: a case study on budding yeast Saccharomyces cerevisiae.
Article in BMC systems biology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Who cites it
10 citing papers in PubMed.
- Antifragility Predicts the Robustness and Evolvability of Biological Networks through Multi-Class Classification with a Convolutional Neural Network.Entropy (Basel, Switzerland) · 2020Article
- Advances and challenges in logical modeling of cell cycle regulation: perspective for multi-scale, integrative yeast cell models.FEMS yeast research · 2017Review
- Attractor landscape analysis of colorectal tumorigenesis and its reversion.BMC systems biology · 2016Article
- A systems-biological study on the identification of safe and effective molecular targets for the reduction of ultraviolet B-induced skin pigmentation.Scientific reports · 2015Article
- Modeling the epigenetic attractors landscape: toward a post-genomic mechanistic understanding of development.Frontiers in genetics · 2015Review
- Robustness and evolvability of the human signaling network.PLoS computational biology · 2014Article
- Detecting cellular reprogramming determinants by differential stability analysis of gene regulatory networks.BMC systems biology · 2013Article
- Discovery of a kernel for controlling biomolecular regulatory networks.Scientific reports · 2013Article
- A checkpoints capturing timing-robust Boolean model of the budding yeast cell cycle regulatory network.BMC systems biology · 2012Article
- Systematic search for recipes to generate induced pluripotent stem cells.PLoS computational biology · 2011Article
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2 authors.
Funding
Abstract
backgroundGeneration of induced pluripotent stem cells (iPSCs) and converting one cell type to another (transdifferentiation) by manipulating the expression of a small number of genes highlight the progress of cellular reprogramming, which holds great promise for regenerative medicine. A key challenge is to find the recipes of perturbing genes to achieve successful reprogramming such that the reprogrammed cells function in the same way as the natural cells.
resultsWe present here a systems biology approach that allows systematic search for effective reprogramming recipes and monitoring the reprogramming progress to uncover the underlying mechanisms. Using budding yeast as a model system, we have curated a genetic network regulating cell cycle and sporulation. Phenotypic consequences of perturbations can be predicted from the network without any prior knowledge, which makes it possible to computationally reprogram cell fate. As the heterogeneity of natural cells is important in many biological processes, we find that the extent of this heterogeneity restored by the reprogrammed cells varies significantly upon reprogramming recipes. The heterogeneity difference between the reprogrammed and natural cells may have functional consequences.
conclusionsOur study reveals that cellular reprogramming can be achieved by many different perturbations and the reprogrammability of a cell depends on the heterogeneity of the original cell state. We provide a general framework that can help discover new recipes for cellular reprogramming in human.
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