Preface |
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ix | |
Acknowledgments |
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xiii | |
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1 From Mendelian Genetics to 4D Genomics |
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1 | (1) |
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1.2 The Emergence of Genomics |
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2 | (13) |
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1.3 Diminishing Power of Gene-Based Genomics |
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15 | (22) |
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1.4 New Genomic Science on the Horizon |
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37 | (16) |
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2 Genes and Genomes Represent Different Biological Entities |
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53 | (1) |
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2.2 The Definition of the Genome |
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53 | (4) |
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2.3 "Parts Versus the Whole": The Emergent Relationship (Which Challenges Reductionism) |
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57 | (3) |
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2.4 ReExamining Gene Theory Predictions |
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60 | (23) |
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2.5 The Conflicting Relationship Between the Gene and the Genome |
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83 | (9) |
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2.6 Genome Context Determines Gene Function |
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92 | (1) |
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93 | (2) |
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3 Genome Chaos and Macrocellular Evolution: How Evolutionary Cytogenetics Unravels the Mystery of Cancer |
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95 | (1) |
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3.2 SOS: We Need a New Conceptual Framework for Cancer Research |
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96 | (38) |
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3.3 Genome Chaos: Rediscovery of the Importance of the Karyotype in Cancer |
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134 | (27) |
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3.4 A New Genomic Model for Cancer Evolution |
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161 | (8) |
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4 Chromosomal Coding and Fuzzy Inheritance: The Genomic Basis of Bio-information and Heterogeneity |
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169 | (1) |
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4.2 Chromosomal or Karyotype Coding |
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170 | (32) |
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202 | (40) |
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4.4 Overlooked Genome Variations |
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242 | (19) |
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5 Why Sex? Genome Reinterpretation Dethrones the Queen |
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261 | (1) |
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5.2 What Is the Purpose of Sex? The Answer Is Not Obvious |
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262 | (5) |
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5.3 Surprise! Asexual Reproduction Does Not Generate Clonal Progenitors! |
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267 | (6) |
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5.4 The Search for the Main Function and Common Mechanism of Sex |
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273 | (4) |
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5.5 The Battle Is On: Changing Concepts |
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277 | (9) |
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5.6 Simulation: Ask the Simplest Question About the Function of Sex |
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286 | (3) |
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5.7 Case Studies: Reinterpretation Using New Framework |
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289 | (3) |
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292 | (7) |
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6 Breaking the Genome Constraint: The Mechanism of Macroevolution |
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299 | (1) |
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6.2 Pattern of Cellular Evolution Challenges Current Evolutionary Theory |
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300 | (16) |
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6.3 Artificial Selection and Natural Selection Are Fundamentally Different |
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316 | (7) |
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6.4 Both Isolated Cases and Isolated Natural Environments Represent Exceptions That Fail to Demonstrate the Relationship Between Micro- and Macroevolution |
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323 | (9) |
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6.5 Maintaining Genome Integrity: The Major Evolutionary Constraint |
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332 | (6) |
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6.6 Implications of Genome Theory to Evolutionary Concepts |
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338 | (20) |
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6.7 Evolution Is True but Its Mechanism Must Be Reexamined |
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358 | (23) |
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6.8 Implications: Creating Artificial Species by Shattering the Genome Followed by Artificial Mating/Genome Selection |
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381 | (2) |
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7 The Genome Theory: A New Framework |
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383 | (1) |
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7.2 The Rationale for Establishing a Genome-Based Genomic Theory |
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383 | (4) |
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7.3 Unique Considerations for Genome Theory |
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387 | (5) |
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7.4 Outline of the Genome Theory |
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392 | (21) |
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7.5 The Predictions, Implications, Limitations, and Falsifiability of the Genome Theory |
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413 | (8) |
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421 | (6) |
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8 The Rationale and Challenges of Molecular Medicine |
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427 | (1) |
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8.2 A Brief History: The Promises of Molecular Medicine |
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427 | (3) |
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8.3 The Challenges and Opportunities for Precision Medicine |
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430 | (28) |
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458 | (23) |
Epilogue (or Why We Did What We Did) |
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481 | (8) |
Bibliography |
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489 | (46) |
Index |
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535 | |