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Genomics & Bioinformatics Reading List



General Genomics Books for Non-Biologists
These books are easy going reading for the relative newcomer to bioinformatics and genomics or for the non-biologist.

Essentials of Genomics and Bioinformatics
The chapters in this book capture the rapidly evolving field of genomics. Overviews of nucleic acid technologies, proteomics and bioinformatics are followed by chapters on applications, including human health, agriculture and comparative genomics. The book also includes two chapters on legal and ethical issues of Genomics, a topic that is becoming more and more important.

Essentials of Genomics and Bioinformatics
Genomics: The Science and Technology Behind the Human Genome Project
A unique exploration of the principles and methods underlying the Human Genome Project and modern molecular genetics and biotechnology from two top researchers, Charles R. Cantor, former director of the Human Genome Project, and Cassandra L. Smith. Written with a range of readers in mind.

Genomics: The Science and Technology Behind the Human Genome Project
Mapping the Code: The Human Genome Project and the Choices of Modern Science
A giant step for medicine or the most serious threat to personal freedom yet? Here is a behind-the-scenes account of the Human Genome Project, the most ethically and politically complex scientific undertaking of this generation. This book separates fact from fiction, identifies the real moral issues in the debate, and captures the drama -- as well as the intrigue and infighting -- that has riveted the scientific establishment throughout.

Mapping the Code: The Human Genome Project and the Choices of Modern Science
Bioinformatics For Dummies®
A practical introduction to bioinformatics -- computer technologies that biochemical and pharmaceutical researchers use to analyze genetic and biological data. This reference addresses common biological questions, problems, and projects, while also providing a UNIX/Linux overview and tips on tweaking bioinformatic applications using Perl.

Bioinformatics Textbooks for Research Biologists
These books are appropriate for use by researchers and within graduate level bioinformatics courses.

Bioinformatics: A Practical Guide to the Analysis of Genes and Proteins, 2nd Edition
This new edition provides a sound foundation of basic concepts, with practical discussions and comparisons of both computational tools and databases relevant to biological research. This is the standard text for most graduate level bioinformatics courses -- you must get comfortable with frequent equations in the text, but it does not assume a substantial background in computer science.

Bioinformatics: A Practical Guide to the Analysis of Genes and Proteins
Bioinformatics for Geneticists
Describes a step by step approach to key bioinformatics and genetic analysis procedures, based upon practical experience gained after many years of direct bioinformatics support for laboratory geneticists. It features detailed case studies of problems and analytical approaches that are specific to the needs of the genetics researcher. The book contains reviews of bioinformatics tools and genetic databases.

Bioinformatics for Geneticists
Structural Bioinformatics
This book aims to provide a basic understanding of the theories, associated algorithms, resources, and tools used in structural bioinformatics. The reader will emerge with the ability to make effective use of protein, DNA, RNA, carbohydrate, and complex structures to better understand biological function. Moreover, the book draws a clear connection between structural studies and the rational design of new therapies.

Structural Bioinformatics
Bioinformatics - From Genomes to Drugs, 2 Volume Set
Bioinformatics -- the use of computers to retrieve, process, analyze and simulate biological information -- promises to revolutionize the process of drug discovery and development. This book provides a broad, application-oriented overview of this technology. Contributions by internationally renowned specialists in the field afford a detailed insight into single bioinformatics components and algorithmic methods. In addition, the state-of-the-art in bioinformatics is evaluated equally from a global view by introducing real application scenarios such as genome projects that require the use of a whole set of bioinformatics tools.

Bioinformatics - From Genomes to Drugs
Bioinformatics: From Nucleic Acids and Proteins to Cell Metabolism
This GBF Monograph gives a general overview of the latest versatile activities in bioinformatics: Biological Data Bases; DNA and RNA; Protein Sequences and Structures; from Molecules to Cell Metabolism. The articles have been selected from contributions to a conference on Bioinformatics/Computer Application in the Biosciences, held in October 1995 in Braunschweig at the German National Research Center for Biotechnology.

Bioinformatics: From Nucleic Acids and Proteins to Cell Metabolism
This is an in-depth textbook written for the biologist who wants to get a thorough understanding of the popular bioinformatics programs and molecular databases current in use. It does not teach programming, but does explain the theory behind each of the algorithms.


Bioinformatics: Sequence and Genome Analysis
Michael Waterman is one of the founders of the field of bioinformatics. He co-developed the Smith-Waterman algorithm, which was the first effective way of making similarity searches in sequence databases. This book is the real deal for aspiring bioinformatics professionals and algorithm developers who want to study the mathematical and theoretical underpinnings of the field. Covers topics from graph theory to Hidden Markov Models with lots of equations on every page.


Introduction to Computational Biology: Maps, Sequences and Genomes
Genomics Textbooks

Genomes, 2nd Edition
Covers modern molecular genetics from the genomics perspective, incorporating major advances made in the past three years, including the sequencing of the human genome, characterization of genome expression and replication processes, and transcriptomics and proteomics. This text is richly illustrated with clear, easy-to-follow, full color diagrams, which are downloadable from the book's Web site. This is an innovative textbook for an undergraduate Introductory Biology course taught from the perspective of the genome as the primary organizing principle for biology. It is highly readable and engaging.

Genomes, 2nd Edition
Encyclopedic Dictionary of Genetics, Genomics, and Proteomics, 2nd Edition
This reference provides clearly written, thorough coverage of the breadth of topics in modern genetics, genomics, and proteomics. The author also includes a vast range of terms and concepts dealing with biochemistry, cell and developmental biology, immunology, hereditary diseases, and molecular evolution. The nearly 25,000 alphabetically arranged entries in this work are explained in a concise yet detailed manner, including ample cross-references, references to literature and databases, tables, and illustrations.

Encyclopedic Dictionary of Genetics, Genomics, and Proteomics, 2nd Edition
Handbook of Comparative Genomics: Principles and Methodology
A practical text for students and researchers covering basic and applied problems in the emerging field of comparative functional genomics. It offers a comparative perspective on the state of the art and key principles of genome sequencing, expression, evolution, and phylogenetics in organelles, prokaryotes, model organisms, and humans. Moreover, the Handbook provides a unique and thorough treatment of biological databases, analysis of the transcriptome and proteome, and the bioinformatic approaches for comparative genome analysis.

Handbook of Comparative Genomics: Principles and Methodology
Biotechnology, Volume 5B, Genomics and Bioinformatics
The chapters in this book try to capture the rapidly evolving field. Overviews of nucleic acid technologies, proteomics and bioinformatics are followed by chapters on applications, including human health, agriculture and comparative genomics. The book also includes two chapters on legal and ethical issues of Genomics, a topic that is becoming more and more important.

Biotechnology, Volume 5B, Genomics and Bioinformatics
The Dictionary of Gene Technology: Genomics, Transcriptomics, Proteomics, 2nd Edition
With more than 6000 technical terms, this dictionary reflects the importance of gene technology for present-day biology. Extensive explanations and illustrations accompany the terms. The book elucidates the jungle of synonyms, acronyms and swamps of jargon that have frustrated many a researcher. The multitude of cross-references enables non-specialists and experts -- students, researchers, officials and journalists -- alike to understand links to related sciences such as genetics, biotechnology, microbiology and biochemistry.

The Dictionary of Gene Technology: Genomics, Transcriptomics, Proteomics
Comparative and Functional Genomics
A new journal, in print and electronic formats, which contains original research articles and long and short reviews that deal with the post-sequencing phases of genome analysis. The journal provides a broad forum, covering studies of complex and model organisms. Research exploiting model organisms with fully sequenced genomes to understand gene function in more complex organisms also falls under its purview.

Comparative and Functional Genomics
Michael Waterman is one of the founders of the field of bioinformatics. He co-developed the Smith-Waterman algorithm, which was the first effective way of making similarity searches in sequence databases. This book is the real deal for aspiring bioinformatics professionals and algorithm developers who want to study the mathematical and theoretical underpinnings of the field. Covers topics from graph theory to Hidden Markov Models with lots of equations on every page.


Proteomics: From Protein Sequence to Function
Microarrays
Microarrays are the most widely adopted of the new genomics technologies. The primary emphasis of these books is on data analysis rather than biochemical protocols.

A Biologist's Guide to Analysis of DNA Microarray Data
This is the first authoritative text to focus on analysis (as opposed to technology) in diverse biological and medical applications of microarrays. Written for biologists without special training in data analysis and statistics, the Guide takes over where the image analysis software that accompanies DNA array equipment typically leaves off -- with a file of signal intensities and fold changes compared to a control.

A Biologist's Guide to Analysis of DNA Microarray Data
Microarray Analysis
This comprehensive and multidisciplinary text begins with an introduction to microarray analysis, and explores basic chemistry, biochemistry, and genomics. Separate chapters are devoted to surface chemistry, target and probe preparation, microarray manufacture and detection, and data analysis and modeling. Methodology, cleanroom technology, gene expression profiling, genetic screening and diagnostics, and novel technologies round out this classic textbook. Microarray Analysis provides any science student or professional all the tools required to understand this revolutionary technology.

Microarray Analysis
This book provides a systematic introduction to the use of DNA microarrays as an investigative tool for functional genomics. The presentation is appropriate for readers from biology or bioinformatics. After presenting a framework for the design of microarray-driven functional genomics experiments, the book discusses the foundations for analyzing microarray data sets, genomic data-mining, the creation of standardized nomenclature and data models, clinical applications of functional genomics research, and the future of functional genomics.


Microarrays for an Integrative Genomics
Because microarray data analysis is an emerging field, very few analytical models currently exist. Methods of Microarray Data Analysis II is the second book in this pioneering series dedicated to this exciting new field. In a single reference, readers can learn about the most up-to-date methods, ranging from data normalization, feature selection, and discriminative analysis to machine learning techniques. Currently, there are no standard procedures for the design and analysis of microarray experiments. Methods of Microarray Data Analysis II focuses on a single data set, using a different method of analysis in each chapter.


Methods of Microarray Data Analysis II
Genetics Textbooks
These are texbooks on genetics, molecular genetics, and human genetics -- the scientific underpinnings of genomics.

Principles of Genetics, 3rd Edition
High-quality illustrations with stepped-out art to help readers visualize complex processes.
* Human genetics and the role of the geneticist highlighted throughout.
* Two new features in each chapter: introductory "Key Questions" and closing "Basic Exercises."

Principles of Genetics
Understanding Genetics: A Molecular Approach
Offers a comprehensive and timely introduction to modern genetics. Focusing on the essential aspects of molecular biology, the editor provides a well-written, accessible presentation of the complex field of molecular genetics.

Understanding Genetics: A Molecular Approach
Human Molecular Genetics, 2nd Edition
HMG2 is the book of choice for readers requiring an authoritative and integrated approach to human genetics. Now extensively rewritten and updated, HMG2 guides students and researchers through the very latest developments in the most rapidly changing area of life science. The highly regarded structure of the bestselling first edition is retained, but a wealth of new data and features have been added to aid understanding of the principles of human molecular genetics
"...the best text to introduce students and scientists to the molecular aspects of human genetics" Trends in Genetics

Human Molecular Genetics
Computer Programming for Biologists

Biology, it seems, is a good showcase for the talents of Perl. Newcomers to Perl who understand biological information will find this book to be an excellent compendium of examples. Teachers of Perl will likewise find the text to be filled with fresh programming illustrations of growing scientific importance. Seasoned Perlmongers who want to learn biology, however, should search elsewhere, as Tisdall's emphasis is on Perl's logic rather than Mother Nature's.


Beginning Perl for Bioinformatics
Examining the application of computational and analytical methods to biological problems, this guide for biologists, researchers, and students, offers a structured approach to biological data and computer tools for analyzing it. The book covers the Unix file system, the development of tools and databases, computational approaches to biological problems, the use of Perl, data mining, data visualization, and customizing data analysis software. Gibas teaches biology at Virginia Tech; Jambeck studies bioengeering at the University of California, San Diego.


Developing Bioinformatics Computer Skills

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