[1] | Weinberg R (2007) The biology of cancer. New York: Garland Science.
|
[2] | Kumar V, Abbas AK, Aster JC, Fausto N (2010) Robbins and Cotran pathologic basis of disease. 8th ed. Philadelphia: W.B. Saunders Co.
|
[3] | Siegel R, Ward E, Brawley O, Jermal A (2011) Cancer Statistics, 2011: the impact of eliminating socioeconomic and racial disparities on premature cancer deaths. CA Cancer J. Clin. 61: 212–236.
|
[4] | Murray CJL, Lopez AD (1997) Alternative projections of mortality and disability by cause, 1920–2020: Global burden of disease study. Lancet 349: 1448–1504.
|
[5] | Clark WH (1991) Tumour progression and the nature of cancer. Br. J. Cancer 64: 631–644.
|
[6] | Martins ML, Ferreira Jr SC, Vilela MJ (2009) Multiscale model for biological systems. Curr. Opin. Colloid Interface Sci. 15: 18–23 (2010)..
|
[7] | Kauffman SA (1993) The origins of order: Self-organization and selection in evolution. New York: Oxford University Press.
|
[8] | Davidich MI, Bornholdt S (2008) Boolean network model predicts cell cycle sequence of fission yeast. PLoS One 3(2): e1672.
|
[9] | Fauré A, Naldi A, Chaouiya C, Thieffry D (2006) Dynamical analysis of a generic Boolean model for the control of the mammalian cell cycle. Bioinformatics 22(14): e124.
|
[10] | Silva HS, Martins ML (2003) A cellular automata model for cell differentiation. Phys. A 322: 555–566.
|
[11] | Saez-Rodrigues J, Simeoni L, Lindquist JA, Hemenway R, Bommhardt U, et al. (2007) A logical model provides insights into T cell receptor signaling. PLoS Comput. Biol. 3(8): e163.
|
[12] | Schlatter R, Schmich K, Vizcarra IA, Scheurich P, Sauter T, et al. (2009) ON/OFF and beyond - A Boolean model of apoptosis. PLoS Comput. Biol. 5(12): e1000595.
|
[13] | Mai Zhongxing, Liu Haiyan (2009) Boolean network-based analysis of the apoptosis network: irreversible apoptosis and stable surviving. J. Theor. Biol. 259: 760–769.
|
[14] | Hanahan D, Weinberg RA (2000) The hallmarks of cancer. Cell 100: 57–70.
|
[15] | Hanahan D, Weinberg RA (2011) Hallmarks of cancer: The next generation. Cell 144: 646–674.
|
[16] | Vogelstein B, Kinzel KW (2004) Cancer genes and the pathways they control. Nat. Med. 10(8): 789–799.
|
[17] | Oda K, Matsuoka Y, Funahashi A, Kitano H (2005) A comprehensive pathway map of epidermal growth factor receptor signaling. Mol. Syst. Biol. 1: 8–24.
|
[18] | Calzone L, Gelay A, Zinovyev A, Radvanyi F, Barillot E (2008) A comprehensive modular map of molecular interactions in RB/E2F pathway. Mol. Syst. Biol 4: 173.
|
[19] | Newman MEJ (2010) Networks: An Introduction. New York: Oxford University Press.
|
[20] | Evan GI, Vousden KH (2001) Proliferation, cell cycle, and apoptosis in cancer. Nature 411: 342–348.
|
[21] | Lendahl U, Lee KL, Yang H, Poellinger L (2009) Generating specificity and diversity in the transcriptional response to hypoxia. Nat. Rev. Genet. 10: 821–832.
|
[22] | Bunz F (2008) Principles of cancer genetics. Berlin: Springer.
|
[23] | Luo J, Solimini NL, Elledge S (2009) Principles of cancer therapy: oncogene and non-oncogene addiction. Cell 136: 823–837.
|
[24] | Santarius T, Shipley J, Brewer D, Stratton MR, Cooper CS (2010) A census of amplified and overexpressed human cancer genes. Nat. Rev. Cancer 10: 59–64.
|
[25] | Stratton MR, Campbell DJ, Futreal PA (2009) The cancer genome. Nature 458: 719–724.
|
[26] | Stephens PJ, Tarpey PS, Davies H, Loo PV, Greenman C, et al. (2012) The landscape of cancer genes and mutational processes in breast cancer. Nature 486: 400–404.
|
[27] | Banerji S, Cibulskis K, Rangel-Escareno C, Brown KK, Carter SL, et al. (2012) Sequence analysis of mutations and translocations across breast cancer subtypes. Nature 486: 405–409.
|
[28] | Sj?blom T, Jones S, Wood LD, Parsons DW, Lin J, et al. (2006) The consensus coding sequences of human breast and colorectal cancers. Science 314: 268–274.
|
[29] | The Cancer Genome Atlas Research Network (2011) Integrated genomic analysis of ovarian carcinoma. Nature 474: 609–615.
|
[30] | Pleasance ED, Stephens PJ, O'Meara S, McBride DJ, Meynert A, et al. (2010) A small-cell lung cancer genome with complex signatures of tobacco exposure. Nature 463: 184–190.
|
[31] | The Cancer Genome Atlas Research Network (2008) Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature 455: 1061–1068.
|
[32] | The Cancer Genome Atlas Research Network (2008) Comprehensive genomic characterization of squamous cell lung cancers. Nature 489: 519–525.
|
[33] | The Cancer Genome Atlas Research Network (2012) Comprehensive molecular characterization of human colon and rectal cancer. Nature 467: 330–337.
|
[34] | Greaves M, Maley CC (2012) Clonal evolution in cancer. Nature 481: 306–313.
|
[35] | Ferreira Jr SC, Martins ML, Vilela MJ (2002) Reaction-diffusion model for the growth of avascular tumor. Phys.Rev.E 65: 021907.
|
[36] | Paiva LR, Binny C, Ferreira Jr SC, Martins ML (2009) A multiscale mathematical model for oncolytic virotherapy. Cancer Res. 69: 1205–1211.
|
[37] | KEGG Pathway database, Kyoto Encyclopedia of Genes and Genomes. Available at http://www.genome.jp/kegg/pathway.html.
|
[38] | Vanhaesebroeck B, Stephens L, Hawkins P (2012) PI3K signalling: the path to discovery and understanding. Nat. Rev. Mol. Cell Biol. 13(3): 195–203.
|
[39] | Keith B, Johnson RS, Celeste Simon M (2012) HIF1 and HIF2: sibling rivalry in hypoxic tumour growth and progression. Nat. Rev. Cancer 12(1): 9–22.
|
[40] | Yarden Y, Pines G (2012) The ERBB network: at last, cancer therapy meets systems biology. Nat. Rev. Cancer 12(8): 553–563.
|
[41] | Massague J (2012) TGF signalling in context. Nature Rev. Mol. Cell Biol. 13: 616–630.
|
[42] | Anastas JN, Moon RT (2013) WNT signalling pathways as therapeutic targets in cancer. Nat. Rev. Cancer 13: 11–26.
|
[43] | Cotter TG (2009) Apoptosis and cancer: the genesis of a research field. Nat. Rev. Cancer 9: 501–507.
|
[44] | Batchelor E, Loewer A, Lahav G (2009) The ups and downs of p53: understanding protein dynamics in single cells. Nat. Rev. Cancer 9: 371–377.
|
[45] | Balkwill F (2009) Tumour necrosis factor and cancer. Nat. Rev. Cancer 9: 361–371.
|
[46] | Karin M, Cao Y, Greten FR, Li ZW (2002) NF-B in cancer: from innocent bystander to major culprit. Nat. Rev. Cancer 2: 301–310.
|
[47] | Smoot M, Ono K, Ruscheinski J, Wang PL, Ideker T (2010) Cytoscape 2.8: new features for data integration and network visualization. Bioinformatics 27(3): 431–432. Cytoscape is available for download at http://www.cytoscape.com.
|