The Algorithmic Genome
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Genome Scale Algorithm Design
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Author : Veli Mäkinen
language : en
Publisher: Cambridge University Press
Release Date : 2023-10-12
Genome Scale Algorithm Design written by Veli Mäkinen and has been published by Cambridge University Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2023-10-12 with Computers categories.
Presenting the fundamental algorithms and data structures that power bioinformatics workflows, this book covers a range of topics from the foundations of sequence analysis (alignments and hidden Markov models) to classical index structures (k-mer indexes, suffix arrays, and suffix trees), Burrows–Wheeler indexes, graph algorithms, network flows, and a number of advanced omics applications. The chapters feature numerous examples, algorithm visualizations, and exercises, providing graduate students, researchers, and practitioners with a powerful algorithmic toolkit for the applications of high-throughput sequencing. An accompanying website (www.genome-scale.info) offers supporting teaching material. The second edition strengthens the toolkit by covering minimizers and other advanced data structures and their use in emerging pangenomics approaches.
The Algorithmic Genome
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Author : Josh Luberisse
language : en
Publisher: Fortis Novum Mundum
Release Date :
The Algorithmic Genome written by Josh Luberisse and has been published by Fortis Novum Mundum this book supported file pdf, txt, epub, kindle and other format this book has been release on with Medical categories.
What if machines could evolve, adapt, and self-replicate just as living organisms do? What if artificial life, guided by principles of evolution, begins to rival biology in complexity, intelligence, and creativity? In The Algorithmic Genome: Synthetic Evolution, Artificial Life, and the Advent of Autonomous Intelligence, a groundbreaking exploration of the future of technology, intelligence, and society, these questions are not only asked but rigorously investigated. At the heart of this book lies a bold concept: the "algorithmic genome," a digital parallel to DNA, capable of encoding the structure, behavior, and evolution of autonomous systems. By drawing on the principles of biological evolution—mutation, adaptation, and selection—this framework offers a revolutionary lens for understanding how machines might evolve beyond the bounds of human programming, shaping a world where artificial lifeforms rival and surpass the capabilities of their creators. The book journeys across disciplines to uncover the implications of synthetic evolution. From the design of self-replicating machines and the creation of digital ecosystems to the emergence of adaptive systems that address humanity's greatest challenges, The Algorithmic Genome delivers a sweeping vision of the transformative potential of evolving AI. It examines the mechanisms enabling machines to iterate and innovate autonomously while probing the ethical and societal dilemmas that accompany their rise. Key themes include: Revolutionizing Science and Technology: Discover how synthetic evolution could accelerate breakthroughs in chemistry, medicine, and sustainability, offering new ways to combat climate change, design life-saving drugs, and explore uncharted frontiers in space. Navigating Ethical Frontiers: Explore the profound questions of agency, accountability, and coexistence as machines redefine intelligence, creativity, and life itself. How do we ensure that evolving AI remains aligned with human values? Building Guardrails for Innovation: Delve into proposed frameworks for safety, governance, and oversight, from multi-stage verification systems to digital immune mechanisms inspired by biology. These guardrails are essential to harness the promise of synthetic evolution while mitigating its risks. Imagining the Future: Envision the far-reaching implications of artificial life, from machines colonizing space to digital ecosystems that reimagine how intelligence and society evolve in tandem. With clarity, precision, and a deep respect for the complexity of its subject, The Algorithmic Genome bridges the gap between science and society, offering a roadmap for a future where humanity and artificial life co-create new possibilities. This book is not just a technical exploration; it’s a philosophical invitation to rethink the boundaries of life, intelligence, and innovation. Whether you are a scientist, policymaker, technologist, or curious reader, The Algorithmic Genome provides a rare synthesis of cutting-edge research and thought-provoking questions. It challenges readers to envision a world shaped by machines that evolve as nature does—unpredictable, dynamic, and full of potential. Prepare to step into an era of synthetic evolution where the lines between biology and technology blur, and the advent of autonomous intelligence reshapes our understanding of what it means to innovate, coexist, and thrive. This book will leave you questioning not just the future of machines, but the future of life itself.
Models And Algorithms For Genome Evolution
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Author : Cedric Chauve
language : en
Publisher: Springer Science & Business Media
Release Date : 2013-09-17
Models And Algorithms For Genome Evolution written by Cedric Chauve and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2013-09-17 with Computers categories.
This authoritative text/reference presents a review of the history, current status, and potential future directions of computational biology in molecular evolution. Gathering together the unique insights of an international selection of prestigious researchers, this must-read volume examines the latest developments in the field, the challenges that remain, and the new avenues emerging from the growing influx of sequence data. These viewpoints build upon the pioneering work of David Sankoff, one of the founding fathers of computational biology, and mark the 50th anniversary of his first scientific article. The broad spectrum of rich contributions in this essential collection will appeal to all computer scientists, mathematicians and biologists involved in comparative genomics, phylogenetics and related areas.
Genome Sequencing Technology And Algorithms
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Author : Sun Kim
language : en
Publisher: Artech House Publishers
Release Date : 2008
Genome Sequencing Technology And Algorithms written by Sun Kim and has been published by Artech House Publishers this book supported file pdf, txt, epub, kindle and other format this book has been release on 2008 with Computers categories.
The 2003 completion of the Human Genome Project was just one step in the evolution of DNA sequencing. This trailblazing work gives researchers unparalleled access to state-of-the-art DNA sequencing technologies, new algorithmic sequence assembly techniques, and emerging methods for both resequencing and genome analysis.
Computational Genomics With R
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Author : Altuna Akalin
language : en
Publisher: CRC Press
Release Date : 2020-12-16
Computational Genomics With R written by Altuna Akalin and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2020-12-16 with Mathematics categories.
Computational Genomics with R provides a starting point for beginners in genomic data analysis and also guides more advanced practitioners to sophisticated data analysis techniques in genomics. The book covers topics from R programming, to machine learning and statistics, to the latest genomic data analysis techniques. The text provides accessible information and explanations, always with the genomics context in the background. This also contains practical and well-documented examples in R so readers can analyze their data by simply reusing the code presented. As the field of computational genomics is interdisciplinary, it requires different starting points for people with different backgrounds. For example, a biologist might skip sections on basic genome biology and start with R programming, whereas a computer scientist might want to start with genome biology. After reading: You will have the basics of R and be able to dive right into specialized uses of R for computational genomics such as using Bioconductor packages. You will be familiar with statistics, supervised and unsupervised learning techniques that are important in data modeling, and exploratory analysis of high-dimensional data. You will understand genomic intervals and operations on them that are used for tasks such as aligned read counting and genomic feature annotation. You will know the basics of processing and quality checking high-throughput sequencing data. You will be able to do sequence analysis, such as calculating GC content for parts of a genome or finding transcription factor binding sites. You will know about visualization techniques used in genomics, such as heatmaps, meta-gene plots, and genomic track visualization. You will be familiar with analysis of different high-throughput sequencing data sets, such as RNA-seq, ChIP-seq, and BS-seq. You will know basic techniques for integrating and interpreting multi-omics datasets. Altuna Akalin is a group leader and head of the Bioinformatics and Omics Data Science Platform at the Berlin Institute of Medical Systems Biology, Max Delbrück Center, Berlin. He has been developing computational methods for analyzing and integrating large-scale genomics data sets since 2002. He has published an extensive body of work in this area. The framework for this book grew out of the yearly computational genomics courses he has been organizing and teaching since 2015.
Algorithms In Bioinformatics
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Author : Wing-Kin Sung
language : en
Publisher: CRC Press
Release Date : 2009-11-24
Algorithms In Bioinformatics written by Wing-Kin Sung and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2009-11-24 with Computers categories.
Thoroughly Describes Biological Applications, Computational Problems, and Various Algorithmic Solutions Developed from the author's own teaching material, Algorithms in Bioinformatics: A Practical Introduction provides an in-depth introduction to the algorithmic techniques applied in bioinformatics. For each topic, the author clearly details the bi
Bioinformatics Algorithms
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Author : Phillip Compeau
language : en
Publisher:
Release Date : 1986-06
Bioinformatics Algorithms written by Phillip Compeau and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 1986-06 with categories.
Bioinformatics Algorithms: an Active Learning Approach is one of the first textbooks to emerge from the recent Massive Online Open Course (MOOC) revolution. A light-hearted and analogy-filled companion to the authors' acclaimed online course (http://coursera.org/course/bioinformatics), this book presents students with a dynamic approach to learning bioinformatics. It strikes a unique balance between practical challenges in modern biology and fundamental algorithmic ideas, thus capturing the interest of students of biology and computer science students alike.Each chapter begins with a central biological question, such as "Are There Fragile Regions in the Human Genome?" or "Which DNA Patterns Play the Role of Molecular Clocks?" and then steadily develops the algorithmic sophistication required to answer this question. Hundreds of exercises are incorporated directly into the text as soon as they are needed; readers can test their knowledge through automated coding challenges on Rosalind (http://rosalind.info), an online platform for learning bioinformatics.The textbook website (http://bioinformaticsalgorithms.org) directs readers toward additional educational materials, including video lectures and PowerPoint slides.
Artificial Intelligence
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Author :
language : en
Publisher: BoD – Books on Demand
Release Date : 2019-07-31
Artificial Intelligence written by and has been published by BoD – Books on Demand this book supported file pdf, txt, epub, kindle and other format this book has been release on 2019-07-31 with Medical categories.
Artificial intelligence (AI) is taking on an increasingly important role in our society today. In the early days, machines fulfilled only manual activities. Nowadays, these machines extend their capabilities to cognitive tasks as well. And now AI is poised to make a huge contribution to medical and biological applications. From medical equipment to diagnosing and predicting disease to image and video processing, among others, AI has proven to be an area with great potential. The ability of AI to make informed decisions, learn and perceive the environment, and predict certain behavior, among its many other skills, makes this application of paramount importance in today's world. This book discusses and examines AI applications in medicine and biology as well as challenges and opportunities in this fascinating area.
Algorithms On Strings Trees And Sequences
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Author : Dan Gusfield
language : en
Publisher: Cambridge University Press
Release Date : 1997-05-28
Algorithms On Strings Trees And Sequences written by Dan Gusfield and has been published by Cambridge University Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 1997-05-28 with Computers categories.
String algorithms are a traditional area of study in computer science. In recent years their importance has grown dramatically with the huge increase of electronically stored text and of molecular sequence data (DNA or protein sequences) produced by various genome projects. This book is a general text on computer algorithms for string processing. In addition to pure computer science, the book contains extensive discussions on biological problems that are cast as string problems, and on methods developed to solve them. It emphasises the fundamental ideas and techniques central to today's applications. New approaches to this complex material simplify methods that up to now have been for the specialist alone. With over 400 exercises to reinforce the material and develop additional topics, the book is suitable as a text for graduate or advanced undergraduate students in computer science, computational biology, or bio-informatics. Its discussion of current algorithms and techniques also makes it a reference for professionals.
Algorithms For Computational Biology
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Author : Adrian-Horia Dediu
language : en
Publisher: Springer
Release Date : 2014-06-07
Algorithms For Computational Biology written by Adrian-Horia Dediu and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2014-06-07 with Computers categories.
This book constitutes the refereed proceedings of the First International Conference, AlCoB 2014, held in July 2014 in Tarragona, Spain. The 20 revised full papers were carefully reviewed and selected from 39 submissions. The scope of AlCoB includes topics of either theoretical or applied interest, namely: exact sequence analysis, approximate sequence analysis, pairwise sequence alignment, multiple sequence alignment, sequence assembly, genome rearrangement, regulatory motif finding, phylogeny reconstruction, phylogeny comparison, structure prediction, proteomics: molecular pathways, interaction networks, transcriptomics: splicing variants, isoform inference and quantification, differential analysis, next-generation sequencing: population genomics, metagenomics, metatranscriptomics, microbiome analysis, systems biology.