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Published: 6 September 2023

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1

Rangwala, Huzefa. Introduction to protein structure prediction: Methods and algorithms. Hoboken, N.J: Wiley, 2010.

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2

Rangwala, Huzefa, G. Karypis, and G. Karypis. Introduction to protein structure prediction: Methods and algorithms. Hoboken, N.J: Wiley, 2010.

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3

Pan, Yi, Jianxin Wang, and Min Li. Algorithmic and Artificial Intelligence Methods for Protein Bioinformatics. Hoboken, NJ, USA: John Wiley & Sons, Inc., 2013. http://dx.doi.org/10.1002/9781118567869.

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4

Algorithmic and artificial intelligence methods for protein bioinformatics. Hoboken, New Jersey: Wiley, IEEE Computer Society, 2014.

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5

Donald, Bruce R. Algorithms in structural molecular biology. Cambridge, Mass: MIT Press, 2011.

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6

Inge, Jonassen, and Taylor W. R, eds. Protein bioinformatics: An algorithmic approach to sequence and structure analysis. New York: J. Wiley & Sons, 2004.

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7

M, Sansano Allen, and Langley Research Center, eds. Minimizing overhead in parallel algorithms through overlapping communication/computation. Hampton, Va: National Aeronautics and Space Administration, Langley Research Center, 1997.

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8

Sokolov, Artem, and Oleg Zhdanov. Cryptographic constructions on the basis of functions of multivalued logic. ru: INFRA-M Academic Publishing LLC., 2020. http://dx.doi.org/10.12737/1045434.

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Symmetric encryption algorithms have been successfully used to protect information during transmission on an open channel. The classical approach to the synthesis of modern cryptographic algorithms and cryptographic primitives on which they are based, is the use of mathematical apparatus of Boolean functions. The authors demonstrate that the use to solve this problem of functions of multivalued logic (FML) allows to largely improve the durability of the cryptographic algorithms and to extend the used algebraic structures. On the other hand, the study of functions of multivalued logic in cryptography leads to a better understanding of the principles of cryptographic primitives and the emergence of new methods of describing cryptographic constructions. In the monograph the results of theoretical and experimental studies of the properties of the FML, the presented algorithms for generating high-quality S-blocks for the symmetric encryption algorithms, as well as full-working samples of the cryptographic algorithms ready for practical implementation. For students and teachers and all those interested in issues of information security.
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9

Kostyukov, Viktor. Molecular mechanics of biopolymers. ru: INFRA-M Academic Publishing LLC., 2020. http://dx.doi.org/10.12737/1010677.

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The monograph is devoted to molecular mechanics simulations of biologically important polymers like proteins and nucleic acids. It is shown that the algorithms based on the classical laws of motion of Newton, with high-quality parameterization and sufficient computing resources is able to correctly reproduce and predict the structure and dynamics of macromolecules in aqueous solution. Summarized the development path of biopolymers molecular mechanics, its theoretical basis, current status and prospects for further progress. It may be useful to researchers specializing in molecular Biophysics and molecular biology, as well as students of senior courses of higher educational institutions, studying the biophysical and related areas of training.
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10

Information-theoretic evaluation for computational biomedical ontologies. Cham: Springer, 2014.

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11

Karypis, George, and Huzefa Rangwala. Introduction to Protein Structure Prediction: Methods and Algorithms. Wiley & Sons, Incorporated, John, 2011.

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12

Karypis, George, and Huzefa Rangwala. Introduction to Protein Structure Prediction: Methods and Algorithms. Wiley & Sons, Incorporated, John, 2010.

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13

Karypis, George, and Huzefa Rangwala. Introduction to Protein Structure Prediction: Methods and Algorithms. Wiley & Sons, Incorporated, John, 2010.

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14

Karypis, George, and Huzefa Rangwala. Introduction to Protein Structure Prediction: Methods and Algorithms. Wiley & Sons, Incorporated, John, 2011.

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15

Protein Structure Prediction Using Parallel Linkage Investigating Genetic Algorithms. Storming Media, 1999.

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16

Kurgan, Lukasz. Machine Learning in Bioinformatics of Protein Sequences: Algorithms, Databases and Resources for Modern Protein Bioinformatics. World Scientific Publishing Co Pte Ltd, 2022.

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17

Das, Swagatam, Nanda Dulal Jana, and Jaya Sil. A Metaheuristic Approach to Protein Structure Prediction: Algorithms and Insights from Fitness Landscape Analysis. Springer, 2018.

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18

Das, Swagatam, Nanda Dulal Jana, and Jaya Sil. A Metaheuristic Approach to Protein Structure Prediction: Algorithms and Insights from Fitness Landscape Analysis. Springer, 2018.

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19

Solving the Protein Structure Prediction Problem With Fast Messy Genetic Algorithms (Scaling the Fast Messy Genetic Algorithm to Medium-Sized Peptides by Detecting Secondary Structures). Storming Media, 2001.

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20

Algorithmic and Artificial Intelligence Methods for Protein Bioinformatics. IEEE Computer Society Press, 2013.

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21

Pan, Yi, Jianxin Wang, and Min Li. Algorithmic and Artificial Intelligence Methods for Protein Bioinformatics. Wiley & Sons, Limited, John, 2013.

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22

Pan, Yi, Jianxin Wang, and Min Li. Algorithmic and Artificial Intelligence Methods for Protein Bioinformatics. IEEE Computer Society Press, 2013.

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23

Pan, Yi, Jianxin Wang, and Min Li. Algorithmic and Artificial Intelligence Methods for Protein Bioinformatics. IEEE Computer Society Press, 2013.

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24

Donald, Bruce R. Algorithms in Structural Molecular Biology. MIT Press, 2011.

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25

Eidhammer, Ingvar, Inge Jonassen, and William R. Taylor. Protein Bioinformatics: An Algorithmic Approach to Sequence and Structure Analysis. Wiley & Sons, Limited, John, 2012.

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26

Ghalayini, Iman. IMPROVED SCATTER SEARCH ALGORITHM FOR PREDICTING PROTEIN STRUCTURES: All-Atoms Model. VDM Verlag Dr. Müller, 2011.

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27

Minimizing overhead in parallel algorithms through overlapping communication/computation. Hampton, Va: National Aeronautics and Space Administration, Langley Research Center, 1997.

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28

Wang, Jason T. L., Bruce A. Shapiro, and Dennis Shasha, eds. Pattern Discovery in Biomolecular Data. Oxford University Press, 1999. http://dx.doi.org/10.1093/oso/9780195119404.001.0001.

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Finding patterns in biomolecular data, particularly in DNA and RNA, is at the center of modern biological research. These data are complex and growing rapidly, so the search for patterns requires increasingly sophisticated computer methods. Pattern Discovery in Biomolecular Data provides a clear, up-to-date summary of the principal techniques. Each chapter is self-contained, and the techniques are drawn from many fields, including graph theory, information theory, statistics, genetic algorithms, computer visualization, and vision. Since pattern searches often benefit from multiple approaches, the book presents methods in their purest form so that readers can best choose the method or combination that fits their needs. The chapters focus on finding patterns in DNA, RNA, and protein sequences, finding patterns in 2D and 3D structures, and choosing system components. This volume will be invaluable for all workers in genomics and genetic analysis, and others whose research requires biocomputing.
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29

Petersen, Jennifer. How Machines Came to Speak. Duke University Press, 2022. http://dx.doi.org/10.1215/9781478021827.

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In How Machines Came to Speak Jennifer Petersen constructs a genealogy of how legal conceptions of “speech” have transformed over the last century in response to new media technologies. Drawing on media and legal history, Petersen shows that the legal category of speech has varied considerably, evolving from a narrow category of oratory and print publication to a broad, abstract conception encompassing expressive nonverbal actions, algorithms, and data. She examines a series of pivotal US court cases in which new media technologies—such as phonographs, radio, film, and computer code—were integral to this shift. In judicial decisions ranging from the determination that silent films were not a form of speech to the expansion of speech rights to include algorithmic outputs, courts understood speech as mediated through technology. Speech thus became disarticulated from individual speakers. By outlining how legal definitions of speech are indelibly dependent on technology, Petersen demonstrates that future innovations such as artificial intelligence will continue to restructure speech law in ways that threaten to protect corporate and institutional forms of speech over the rights and interests of citizens.
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30

Hybrid Media Activism: Ecologies, Imaginaries, Algorithms. Routledge, 2018.

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31

Treré, Emiliano. Hybrid Media Activism: Ecologies, Imaginaries, Algorithms. Taylor & Francis Group, 2018.

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32

Treré, Emiliano. Hybrid Media Activism: Ecologies, Imaginaries, Algorithms. Taylor & Francis Group, 2018.

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33

Treré, Emiliano. Hybrid Media Activism: Ecologies, Imaginaries, Algorithms. Taylor & Francis Group, 2018.

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34

Treré, Emiliano. Hybrid Media Activism: Ecologies, Imaginaries, Algorithms. Taylor & Francis Group, 2018.

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35

Ford, Roger Allan. Trade Secrets and Information Security in the Age of Sports Analytics. Edited by Michael A. McCann. Oxford University Press, 2017. http://dx.doi.org/10.1093/oxfordhb/9780190465957.013.30.

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The growth of sports analytics has made professional teams more and more reliant on proprietary data and algorithms, which are only valuable as long as they remain unknown to competitors. Teams are, however, relatively poorly equipped to protect these secrets. This chapter reviews five options available to teams looking to protect their secret information: league rules and norms, nondisclosure and noncompete agreements, trade-secrecy law, criminal law, and information-security efforts. None of the legal options are perfect, since breaches can be difficult to detect and legal remedies expose teams to unwanted publicity and risks of further breaches. Teams, then, should focus their efforts on building robust security systems to prevent problems from arising in the first place. The chapter concludes by discussing trends that are likely to increase the importance of information security in professional sports.
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36

Baracos, Vickie E., Sharon M. Watanabe, and Kenneth C. H. Fearon. Aetiology, classification, assessment, and treatment of the anorexia-cachexia syndrome. Oxford University Press, 2015. http://dx.doi.org/10.1093/med/9780199656097.003.0205.

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Anorexia-cachexia is a heterogeneous and multifactorial syndrome most likely driven by systemic inflammation and neuroendocrine activation. Key diagnostic features include reduced appetite, weight loss, and muscle wasting. Key clinical problems include management of anorexia without resort to artificial nutritional support, and muscle wasting that cannot be completely arrested/reversed even with such intervention. Assessment should cover domains such as body stores of energy and protein, food intake, performance status, and factors resulting in excess catabolism. Intervention should be early rather than late, informed by the assessment process and focused on a multimodal approach (nutrition, exercise, and pharmacological agents). This chapter aims to discuss these issues and provide (a) the reader with some background principles to classification, (b) a simple approach to patient assessment and a robust algorithm for basic multimodal treatment, and (c) an overview of the evidence base for different pharmacological interventions.
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37

Schäfer, Andreas, and David Meiering, eds. (Ent-)Politisierung? Nomos Verlagsgesellschaft mbH & Co. KG, 2020. http://dx.doi.org/10.5771/9783748904076.

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Contradictory trends of depoliticisation and (re-)politicisation seem to characterise current democratic society. Protest movements and populism polarise opinions on both the streets and social media, while anonymous algorithms or scientific expertise threaten to technocratise political decision-making. At the same time, these phenomena raise the question of democratic theoretical standards of evaluation. This special volume provides a conceptual framework for the analysis and interpretation of these processes and relates previously unconnected fields of research. Theoretical perspectives and empirical findings thus form a debate on the understanding as well as the manifestations and dynamics of politics in the 21st century. With contributions by Priska Daphi, Beth Gharrity Gardner, Anna Geis, Samuel Greef, Simon Hegelich, Eva Her-schinger, Fabienne Marco, David Meiering,Michael Neuber, Orestis Papakyriakopoulos, Friedbert W. Rüb, Linda Sauer, Andreas Schäfer, Wolfgang Schroeder, Hanna Schwander, Grit Straßenberger, Jennifer Ten Elsen, Lena Ulbricht and Claudia Wiesner.
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38

Carter, Joshua D., Chenxiang Lin, Yan Liu, Hao Yan, and Thomas H. LaBean. DNA-based self-assembly of nanostructures. Edited by A. V. Narlikar and Y. Y. Fu. Oxford University Press, 2017. http://dx.doi.org/10.1093/oxfordhb/9780199533053.013.24.

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This article examines the DNA-based self-assembly of nanostructures. It first reviews the development of DNA self-assembly and DNA-directed assembly, focusing on the main strategies and building blocks available in the modern molecular construction toolbox, including the design, construction, and analysis of nanostructures composed entirely of synthetic DNA, as well as origami nanostructures formed from a mixture of synthetic and biological DNA. In particular, it considers the stepwise covalent synthesis of DNA nanomaterials, unmediated assembly of DNA nanomaterials, hierarchical assembly, nucleated assembly, and algorithmic assembly. It then discusses DNA-directed assembly of heteromaterials such as proteins and peptides, gold nanoparticles, and multicomponent nanostructures. It also describes the use of complementary DNA cohesion as 'smart glue' for bringing together covalently linked functional groups, biomolecules, and nanomaterials. Finally, it evaluates the potential future of DNA-based self-assembly for nanoscale manufacturing for applications in medicine, electronics, photonics, and materials science.
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39

Lattman, Eaton E., Thomas D. Grant, and Edward H. Snell. Biological Small Angle Scattering. Oxford University Press, 2018. http://dx.doi.org/10.1093/oso/9780199670871.001.0001.

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The technique of small angle solution scattering has been revolutionized in the last two decades. Exponential increases in computing power, parallel algorithm development, and the development of synchrotron, free-electron X-ray sources, and neutron sources, have combined to allow new classes of studies for biological specimens. These include time-resolved experiments in which functional motions of proteins are monitored on a picosecond timescale, and the first steps towards determining actual electron density fluctuations within particles. In addition, more traditional experiments involving the determination of size and shape, and contrast matching that isolate substructures such as nucleic acid, have become much more straightforward to carry out, and simultaneously require much less material. These new capabilities have sparked an upsurge of interest in solution scattering on the part of investigators in related disciplines. Thus, this book seeks to guide structural biologists to understand the basics of small angle solution scattering in both the X-ray and neutron case, to appreciate its strengths, and to be cognizant of its limitations. It is also directed at those who have a general interest in its potential. The book focuses on three areas: theory, practical aspects and applications, and the potential of developing areas. It is an introduction and guide to the field but not a comprehensive treatment of all the potential applications.
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40

Prassl, Jeremias. Humans as a Service. Oxford University Press, 2018. http://dx.doi.org/10.1093/oso/9780198797012.001.0001.

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The rise of the gig economy is disrupting business models across the globe. Platforms’ digital work intermediation has had a profound impact on traditional conceptions of the employment relationship. The completion of ‘tasks’, ‘gigs’, or ‘rides’ in the (digital) crowd fundamentally challenges our understanding of work in modern labour markets: gone are the stable employment relationships between firms and workers, replaced by a world in which everybody can be ‘their own boss’ and enjoy the rewards—and face the risks—of independent businesses. Is this the future of work? What are the benefits and challenges of crowdsourced work? How can we protect consumers and workers without stifling innovation? Humans as a Service provides a detailed account of the growth and operation of gig-economy platforms, and develops a blueprint for solutions to the problems facing on-demand workers, platforms, and their customers. Following a brief introduction to the growth and operation of on-demand platforms across the world, the book scrutinizes competing narratives about ‘gig’ work. Drawing on a wide range of case studies, it explores how claims of ‘disruptive innovation’ and ‘micro-entrepreneurship’ often obscure the realities of precarious work under strict algorithmic surveillance, and the return to a business model that has existed for centuries. Humans as a Service shows how employment law can address many of these problems: gigs, tasks, and rides are work—and should be regulated as such. A concluding chapter demonstrates the broader benefits of a level playing field for consumers, taxpayers, and innovative entrepreneurs.
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