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Calculating the Secrets of Life

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      As researchers have pursued biology's secrets to the molecular level, mathematical and computer sciences have played an increasingly important role?in genome mapping, population genetics, and even the controversial search for "Eve," hypothetical mother of the human race.In this first-ever survey of the partnership between the two fields, leading experts look at how mathematical research and methods have made possible important discoveries in biology.The volume explores how differential geometry, topology, and differential mechanics have allowed researchers to "wind" and "unwind" DNA's double helix to understand the phenomenon of supercoiling. It explains how mathematical tools are revealing the workings of enzymes and proteins. And it describes how mathematicians are detecting echoes from the origin of life by applying stochastic and statistical theory to the study of DNA sequences.This informative and motivational book will be of interest to researchers, research administrators, and educators and students in mathematics, computer sciences, and biology.Table of ContentsFront MatterChapter 1 The Secrets of Life: A Mathematician's Introduction toMolecular BiologyBIOCHEMISTRYCLASSICAL GENETICSMOLECULAR BIOLOGYTHE RECOMBINANT DNA REVOLUTIONMOLECULAR GENETICS IN THE 1990STHE HUMAN GENOME PROJECTCOMING ATTRACTIONSREFERENCESChapter 2 Mapping Heredity: Using Probabilistic Models andAlgorithms to Map Genes and GenomesThe Concept of Genetic MapsChallenges of Genetic Mapping: Human Families and Complex TraitsMAXIMUM LIKELIHOOD ESTIMATIONEfficient AlgorithmsExcursion: Susceptibility to Colon Cancer in Mice and the LargeDeviation Theory of Diffusion ProcessesAssembling Physical Maps by "Fingerprinting" Random ClonesExcursion: Designing a Strategy to Map the Human GenomeCONCLUSIONREFERENCESChapter 3 Seeing Conserved Signals: Using Algorithms to DetectSimilarities between BiosequencesFINDING GLOBAL SIMILARITIESVisualizing Alignments: Edit GraphsThe Basic Dynamic Programming AlgorithmFINDING LOCAL SIMILARITIESVariations in Gap Cost PenaltiesThe Duality Between Similarity and Difference MeasuresAligning More Than Two Sequences at a TimeK-Best AlignmentsApproximate Pattern MatchingParallel ComputingCOMPARING ONE SEQUENCE AGAINST A DATABASEHeuristic AlgorithmsSublinear Similarity SearchesOPEN PROBLEMSREFERENCESChapter 4 Hearing Distant Echoes: Using Extremal Statistics toProbe Evolutionary OriginsSequence AlignmentAlignment GivenAlignment UnknownAlignment GivenAlignment UnknownAPPLICATION TO RNA EVOLUTIONTWO BEHAVIORS SUFFICERNA EVOLUTION REVISITEDREFERENCESChapter 5 Calibrating the Clock: Using Stochastic Processes toMeasure the Rate of EvolutionOVERVIEWTHE COALESCENT AND MUTATIONThe Ewens Sampling FormulaTop-downBottom-upThe Infinitely-Many-Sites ModelK-Allele ModelsThe Finitely-Many-Sites ModelsApproximations for the Ewens Sampling FormulaCombinatorial AssembliesOther Combinatorial StructuresThe Large ComponentsWHERE TO NEXT?Likelihood MethodsDiscussionGeneral-P
      Format: CONTRIBUTORS: EAN: 9780309075022 COUNTRY: United States PAGES: WEIGHT: 0 g HEIGHT: 229 cm
      PUBLISHED BY: National Academies Press DATE PUBLISHED: 1995-05-06 CITY: GENRE: SCIENCE / Life Sciences / Biology, SCIENCE / Life Sciences / General WIDTH: 152 cm SPINE:

      Book Themes:

      Biology, life sciences

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      Eric S. Lander and Michael S. Waterman, Editors; Committee on the Mathematical Sciences in Genome and Protein Structure Research, National Research Council
      As researchers have pursued biology's secrets to the molecular level, mathematical and computer sciences have played an increasingly important role?in genome mapping, population genetics, and even the controversial search for "Eve," hypothetical mother of the human race.In this first-ever survey of the partnership between the two fields, leading experts look at how mathematical research and methods have made possible important discoveries in biology.The volume explores how differential geometry, topology, and differential mechanics have allowed researchers to "wind" and "unwind" DNA's double helix to understand the phenomenon of supercoiling. It explains how mathematical tools are revealing the workings of enzymes and proteins. And it describes how mathematicians are detecting echoes from the origin of life by applying stochastic and statistical theory to the study of DNA sequences.This informative and motivational book will be of interest to researchers, research administrators, and educators and students in mathematics, computer sciences, and biology.Table of ContentsFront MatterChapter 1 The Secrets of Life: A Mathematician's Introduction toMolecular BiologyBIOCHEMISTRYCLASSICAL GENETICSMOLECULAR BIOLOGYTHE RECOMBINANT DNA REVOLUTIONMOLECULAR GENETICS IN THE 1990STHE HUMAN GENOME PROJECTCOMING ATTRACTIONSREFERENCESChapter 2 Mapping Heredity: Using Probabilistic Models andAlgorithms to Map Genes and GenomesThe Concept of Genetic MapsChallenges of Genetic Mapping: Human Families and Complex TraitsMAXIMUM LIKELIHOOD ESTIMATIONEfficient AlgorithmsExcursion: Susceptibility to Colon Cancer in Mice and the LargeDeviation Theory of Diffusion ProcessesAssembling Physical Maps by "Fingerprinting" Random ClonesExcursion: Designing a Strategy to Map the Human GenomeCONCLUSIONREFERENCESChapter 3 Seeing Conserved Signals: Using Algorithms to DetectSimilarities between BiosequencesFINDING GLOBAL SIMILARITIESVisualizing Alignments: Edit GraphsThe Basic Dynamic Programming AlgorithmFINDING LOCAL SIMILARITIESVariations in Gap Cost PenaltiesThe Duality Between Similarity and Difference MeasuresAligning More Than Two Sequences at a TimeK-Best AlignmentsApproximate Pattern MatchingParallel ComputingCOMPARING ONE SEQUENCE AGAINST A DATABASEHeuristic AlgorithmsSublinear Similarity SearchesOPEN PROBLEMSREFERENCESChapter 4 Hearing Distant Echoes: Using Extremal Statistics toProbe Evolutionary OriginsSequence AlignmentAlignment GivenAlignment UnknownAlignment GivenAlignment UnknownAPPLICATION TO RNA EVOLUTIONTWO BEHAVIORS SUFFICERNA EVOLUTION REVISITEDREFERENCESChapter 5 Calibrating the Clock: Using Stochastic Processes toMeasure the Rate of EvolutionOVERVIEWTHE COALESCENT AND MUTATIONThe Ewens Sampling FormulaTop-downBottom-upThe Infinitely-Many-Sites ModelK-Allele ModelsThe Finitely-Many-Sites ModelsApproximations for the Ewens Sampling FormulaCombinatorial AssembliesOther Combinatorial StructuresThe Large ComponentsWHERE TO NEXT?Likelihood MethodsDiscussionGeneral-P
      Format: CONTRIBUTORS: EAN: 9780309075022 COUNTRY: United States PAGES: WEIGHT: 0 g HEIGHT: 229 cm
      PUBLISHED BY: National Academies Press DATE PUBLISHED: 1995-05-06 CITY: GENRE: SCIENCE / Life Sciences / Biology, SCIENCE / Life Sciences / General WIDTH: 152 cm SPINE:

      Book Themes:

      Biology, life sciences

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      Eric S. Lander and Michael S. Waterman, Editors; Committee on the Mathematical Sciences in Genome and Protein Structure Research, National Research Council

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