Mathematical model of adult stem cell regeneration with cross-talk between genetic and epigenetic regulation

Proceedings of the National Academy of Sciences of the United States of America

Volumn 111, Issue 10, 2014, Pages

  Lei, Jinzhi ^a   Levin, Simon A ^b   Nie, Qing ^c  

^a TSINGHUA UNIVERSITY   (China)

^b PRINCETON UNIVERSITY   (United States)

^c UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

Dynamic programming; Fitness function; Optimization; Robustness; Systems biology

Indexed keywords

ADAPTATION; ADULT STEM CELL; APOPTOSIS; ARTICLE; CELL CYCLE; CELL DIFFERENTIATION; CELL DIVISION; CELL POPULATION; CELL PROLIFERATION; CELL REGENERATION; FEEDBACK SYSTEM; GENETIC REGULATION; HOMEOSTASIS; MATHEMATICAL MODEL; PRIORITY JOURNAL;

DYNAMIC PROGRAMMING; FITNESS FUNCTION; OPTIMIZATION; ROBUSTNESS; SYSTEMS BIOLOGY;

ADULT; ADULT STEM CELLS; APOPTOSIS; CELL DIFFERENTIATION; CELL PROLIFERATION; EPIGENESIS, GENETIC; GENE EXPRESSION REGULATION; HUMANS; MODELS, BIOLOGICAL; REGENERATION; SYSTEMS BIOLOGY;

EID: 84896294641     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1324267111     Document Type: Article

References (36)

1. Baylin SB, Jones PA (2011) A decade of exploring the cancer epigenome-biological and translational implications. Nat Rev Cancer 11(10):726-734.
2. Sandoval J, Esteller M (2012) Cancer epigenomics: Beyond genomics. Curr Opin Genet Dev 22(1):50-55.
3. Huh D, Paulsson J (2011) Non-genetic heterogeneity from stochastic partitioning at cell division. Nat Genet 43(2):95-100.
4. Lane SW, Gilliland DG (2010) Leukemia stem cells. Semin Cancer Biol 20(2):71-76.
5. Liu S, Dontu G, Wicha MS (2005) Mammary stem cells, self-renewal pathways, and carcinogenesis. Breast Cancer Res 7(3):86-95.
6. Vijg J, Suh Y (2013) Genome instability and aging. Annu Rev Physiol 75:645-668.
7. Copley MR, Beer PA, Eaves CJ (2012) Hematopoietic stem cell heterogeneity takes center stage. Cell Stem Cell 10(6):690-697.
8. Dykstra B, et al. (2007) Long-term propagation of distinct hematopoietic differentiation programs in vivo. Cell Stem Cell 1(2):218-229.
9. Ehninger A, Trumpp A (2011) The bone marrow stem cell niche grows up: Mesenchymal stem cells and macrophages move in. J Exp Med 208(3):421-428.
10. Trumpp A, Essers M, Wilson A (2010) Awakening dormant haematopoietic stem cells. Nat Rev Immunol 10(3):201-209.
11. Lévesque JP, Helwani FM, Winkler IG (2010) The endosteal 'osteoblastic' niche and its role in hematopoietic stem cell homing and mobilization. Leukemia 24(12): 1979-1992.
12. Wilson A, Trumpp A (2006) Bone-marrow haematopoietic-stem-cell niches. Nat Rev Immunol 6(2):93-106.
13. Wilson A, et al. (2008) Hematopoietic stem cells reversibly switch from dormancy to self-renewal during homeostasis and repair. Cell 135(6):1118-1129.
14. Barker N, van de Wetering M, Clevers H (2008) The intestinal stem cell. Genes Dev 22 (14):1856-1864.
15. Leedham SJ, Brittan M, McDonald SA, Wright NA (2005) Intestinal stem cells. J Cell Mol Med 9(1):11-24.
16. van der Flier LG, Clevers H (2009) Stem cells, self-renewal, and differentiation in the intestinal epithelium. Annu Rev Physiol 71:241-260.
17. Lander AD, Gokoffski KK, Wan FY, Nie Q, Calof AL (2009) Cell lineages and the logic of proliferative control. PLoS Biol 7(1):e15.
18. Seita J, Rossi DJ, Weissman IL (2010) Differential DNA damage response in stem and progenitor cells. Cell Stem Cell 7(2):145-147.
19. Rich T, Allen RL, Wyllie AH (2000) Defying death after DNA damage. Nature 407 (6805):777-783.
20. Bondar T, Medzhitov R (2010) p53-mediated hematopoietic stem and progenitor cell competition. Cell Stem Cell 6(4):309-322.
21. Marusyk A, Porter CC, Zaberezhnyy V, DeGregori J (2010) Irradiation selects for p53-deficient hematopoietic progenitors. PLoS Biol 8(3):e1000324.
22. Wang J, et al. (2012) A differentiation checkpoint limits hematopoietic stem cell selfrenewal in response to DNA damage. Cell 148(5):1001-1014.
23. Hu GM, Lee CY, Chen YY, Pang NN, Tzeng WJ (2012) Mathematical model of heterogeneous cancer growth with an autocrine signalling pathway. Cell Prolif 45(5): 445-455.
24. MacKey MC (2001) Cell kinetic status of haematopoietic stem cells. Cell Prolif 34(2): 71-83.
25. Traulsen A, Lenaerts T, Pacheco JM, Dingli D (2013) On the dynamics of neutral mutations in a mathematical model for a homogeneous stem cell population. J R Soc Interface 10(79):20120810.
26. Lo WC, et al. (2009) Feedback regulation in multistage cell lineages. Math Biosci Eng 6(1):59-82.
27. Mangel M, Bonsall MB (2013) Stem cell biology is population biology: Differentiation of hematopoietic multipotent progenitors to common lymphoid and myeloid progenitors. Theor Biol Med Model 10(5):5.
28. Marciniak-Czochra A, Stiehl T, Ho AD, Jäger W, Wagner W (2009) Modeling of asymmetric cell division in hematopoietic stem cells-regulation of self-renewal is essential for efficient repopulation. Stem Cells Dev 18(3):377-385.
29. Johnston MD, Edwards CM, Bodmer WF, Maini PK, Chapman SJ (2007) Mathematical modeling of cell population dynamics in the colonic crypt and in colorectal cancer. Proc Natl Acad Sci USA 104(10):4008-4013.
30. Mangel M, Bonsall MB (2008) Phenotypic evolutionary models in stem cell biology: Replacement, quiescence, and variability. PLoS ONE 3(2):e1591.
31. Dingli D, Traulsen A, Pacheco JM (2007) Stochastic dynamics of hematopoietic tumor stem cells. Cell Cycle 6(4):461-466.
32. Rodriguez-Brenes IA, Komarova NL, Wodarz D (2011) Evolutionary dynamics of feedback escape and the development of stem-cell-driven cancers. Proc Natl Acad Sci USA 108(47):18983-18988.
33. Chou CS, et al. (2010) Spatial dynamics of multistage cell lineages in tissue stratification. Biophys J 99(10):3145-3154.
34. Ovadia J, Nie Q (2013) Stem cell niche structure as an inherent cause of undulating epithelial morphologies. Biophys J 104(1):237-246.
35. Burns FJ, Tannock IF (1970) On the existence of a G0 -phase in the cell cycle. Cell Tissue Kinet 3(4):321-334.
36. Mackey MC (1978) Unified hypothesis for the origin of aplastic anemia and periodic hematopoiesis. Blood 51(5):941-956.