Invitation To Protein Sequence Analysis Through Probability And Information
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Invitation to Protein Sequence Analysis Through Probability and Information
This book explores the remarkable information correspondences and probability structures of proteins. Correspondences are pervasive in biochemistry and bioinformatics: proteins share homologies, folding patterns, and mechanisms. Probability structures are just as paramount: folded state graphics reflect Angstrom-scale maps of electron density. The author explores protein sequences (primary structures), both individually and in sets (systems) with the help of probability and information tools. This perspective will enhance the reader’s knowledge of how an important class of molecules is designed and put to task in natural systems, and how we can approach class members in hands-on ways.
Invitation to Protein Sequence Analysis Through Probability and Information
This book explores the remarkable information correspondences and probability structures of proteins. Correspondences are pervasive in biochemistry and bioinformatics: proteins share homologies, folding patterns, and mechanisms. Probability structures are just as paramount: folded state graphics reflect Angstrom-scale maps of electron density. The author explores protein sequences (primary structures), both individually and in sets (systems) with the help of probability and information tools. This perspective will enhance the reader's knowledge of how an important class of molecules is designed and put to task in natural systems, and how we can approach class members in hands-on ways.
The Thermodynamics of Mathematical Representation
Thermodynamics is the physical science surrounding work, heat, and relationships across fundamental quantities, and situates itself near the center of multiple disciplines through its generality and timelessness. Its laws required no rewriting after the twentieth century revolutions of quantum mechanics, relativity, and solid state physics, just to name three subjects. The nine chapters of this book make appeal to thermodynamic notions and laws to get under the hood of mathematics—the language of the physical sciences—without just echoing things best said and written in math books. It takes a system to learn about another system—we all need thermometers, voltmeters, and other gadgets to get to know objects of interest. But just as critical are the numbers and functions we put to the task, however relegated they are to computers in the modern day for the heavy lifting. To be sure, mathematical representations like x = 1⁄2, 5.2, π, e, etc., and f(x) = x2, sin(x), etc., are never in physical contact with the solids, liquids, and gases that draw our attention, but they are as impacted by the same natural laws as the lab apparatus itself. This book shows how the thermodynamic laws impact our number systems. The laws affirm that we have direct access to a vanishingly small fraction of the real numbers. They further establish that the real numbers present a maximum-evolved system impacting all matters of computation, graphing, differentiation, and integration. For completeness, one of the chapters includes cases where the thermodynamic laws have little, if anything, constructive to say about representations in mathematics. This book presents a novel perspective to students and teachers in the physical sciences, biology, and mathematics, with the goal of enriching classroom and seminar hours. The chapters are self-contained and written informally, and readers with rudimentary knowledge of energy, numbers, and functions should handle the material well.