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Recommended Books on Microarrays
Functional Protein Microarrays in Drug Discovery (Drug Discovery Series) As central actors in most biological functions, proteins are the subject of intense study. This has driven the development of increasingly sophisticated approaches for the study of proteins, which has extended to proteomic level methodologies. Yet currently no book has addressed all aspects of functional microarrays in a coherent and integrated fashion. Until now. Meeting the need for comprehensive and authoritative information, Functional Protein Microarrays in Drug Discovery provides an up-to-date overview of the field and the background required to actually design and develop arrays or perform and analyze array experiments.
The book is divided into five main sections that address critical aspects of the field. The first focuses on the generation of functional protein content, the first and perhaps most challenging aspect of protein microarrays. The second section describes âstandardâ and state-of-the-art fabrication methods, focusing on issues of particular significance to functional protein microarrays. Similarly, the third section reviews current and next generation approaches to assay detection. The fourth and largest section, dedicated to applications, spans the breadth of published applications, from biomolecular interaction discovery and characterization to humoral response biomarker profiling, enzyme substrate identification and drug discovery. The final section addresses fundamental computational issues including image and data analysis as well as data visualization. While the fieldâs early successes have set the stage for rapid growth, it is not without challenges. Indeed, challenges are to be expected in a fast-moving, interdisciplinary endeavor such as this, where molecular biology, protein chemistry, bioinformatics, engineering, and physical sciences intersect. As the first integrated reference for functional protein microarrays, this book helps you not only meet the challenges but also excel in your research.
A Beginner's Guide to Microarrays Microarray technology is more accessible than ever, and an ever-widening field of scientists is using this technology. However, the manufacture, experimental design, and analysis of microarrays are not always straightforward, and researchers new to the field run into technical and theoretical roadblocks that can hinder progress with this powerful new technology.
A Beginner's Guide to Microarrays addresses two audiences - the core facility manager who produces, hybridizes, and scans arrays, and the basic research scientist who will be performing the analysis and interpreting the results. User friendly coverage and detailed protocols are provided for the technical steps and procedures involved in many facets of microarray technology, including:
-Cleaning and coating glass slides,
-Designing oligonucleotide probes,
-Constructing arrays for the detection and quantification of different bacterial species,
-Preparing spotting solutions,
-Troubleshooting spotting problems,
-Setting up and running a core facility,
-Normalizing background signal and controlling for systematic variance,
-Designing experiments for maximum effect,
-Analyzing data with statistical procedures,
-Clustering data with machine-learning protocols. This book is addressed to researchers using microarrays for the first time. One faces a myriad of problems at the outset of such a task, and there is no need to 'reinvent the wheel' for each scientist that runs into these problems. Knowing the strengths and weaknesses of microarrays before research begins can save time, money, and resources.
DNA Microarrays: A Molecular Cloning Manual DNA microarray technology is a new and powerful means to analyze genomes and characterize patterns of gene expression. Its applications are widespread across the many fields of plant and animal biological and biomedical research. This manual, designed to extend and to complement the information in the best-selling Molecular Cloning, is a synthesis of the expertise and experience of more than 30 contributors-all innovators in a fast-moving field. DNA Microarrays provides authoritative, detailed instruction on the design, construction, and applications of microarrays, as well as comprehensive descriptions of the software tools and strategies required for analysis of images and data.
Frontiers in Biochip Technology
Frontiers in Biochip Technology
Dr. Wan-Li Xing and Dr. Jing Cheng Frontiers in Biochip Technology serves as an essential collection of new research in the field of biochip technology. This comprehensive collection covers emerging technologies and cutting âedge research in the field of biochip technology, with all chapters written by the international stars of this evolving field. Key topics and current trends in biochip technology covered include: -microarray technology and its applications - microfluidics - drug discovery - detection technology - lab-on-chip technology and bioinformatics. Frontiers in Biochip Technology is an important volume for all biotechnologists, bioengineers, genetic engineers, pharmacological researchers, and general bench researchers who want to be up-to-date on the latest advances in the rapidly growing field of biochip technology. The Editors: Dr. Wan-Li Xing, Tsinghua University School of Medicine, National Engineering Research Center for Beijing Biochip Technology (NERCBBT), and CapitalBio Corporation, Beijing, China
Dr. Xing is a Professor at Medical Systems Biology Research Center, Tsinghua University School of Medicine, and also serves as the Executive Deputy Director at NERCBBT, CapitalBio Corporation, a world-leader in biochip research. Dr. Xing has published widely and obtained many patents and applications. Dr. Jing Cheng, Tsinghua University School of Medicine, National Engineering Research Center for Beijing Biochip Technology (NERCBBT), and CapitalBio Corporation, Beijing, China
Dr. Jing Cheng is the Cheung Kong Professor at Medical Systems Biology Research Center, Tsinghua University School of Medicine, the Director of NERCBBT and CEO & CTO of CapitalBio. Dr. Cheng developed the worldâs first system of laboratory-on-a-chip in 1998; this work was featured in the front-cover story of the June 1998 issue of Nature Biotechnology and cited as the breakthrough of the year by Science in the same year. He has been awarded Nanogenâs most prestigious award Nano Grant, Distinguished Achievement Award for Overseas Chinese Scholars Returned, Chinaâs Science & Technology Award for Outstanding Youth, and Qiushi Technology Transfer Award for Outstanding Youth. Dr. Cheng has published over 90 peer-reviewed papers. In addition, he has obtained over 60 European and U.S. patents and applications.
Protein Microarrays Protein Microarrays is one of the first books in this exciting new technology and will be an essential reference for most biologists and biotechnology professionals.
Microarray Analysis This authoritative text begins with an introduction to basic microarray technology. The author then provides clear explanations of the conceptual and theoretical basis of this technology, followed by thorough and multi-disciplinary coverage of modern and emerging applications. The coverage includes chapters on microarray informatics, gene expression profiling, genetic diagnostics, and novel microarray technologies.
A Practical Approach to Microarray Data Analysis A Practical Approach to Microarray Data Analysis is for all life scientists, statisticians, computer experts, technology developers, managers, and other professionals tasked with developing, deploying, and using microarray technology including the necessary computational infrastructure and analytical tools. The book addresses the requirement of scientists and researchers to gain a basic understanding of microarray analysis methodologies and tools. It is intended for students, teachers, researchers, and research managers who want to understand the state of the art and of the presented methodologies and the areas in which gaps in our knowledge demand further research and development. The book is designed to be used by the practicing professional tasked with the design and analysis of microarray experiments or as a text for a senior undergraduate- or graduate level course in analytical genetics, biology, bioinformatics, computational biology, statistics and data mining, or applied computer science.
Key topics covered include:
-Format of result from data analysis, analytical modeling/experimentation;
-Validation of analytical results;
-Data analysis/Modeling task;
-Analysis/modeling tools;
-Scientific questions, goals, and tasks;
-Application;
-Data analysis methods;
-Criteria for assessing analysis methodologies, models, and tools.
Principal Manifolds for Data Visualization and Dimension Reduction (Lecture Notes in Computational Science and Engineering)
In 1901, Karl Pearson invented Principal Component Analysis (PCA). Since then, PCA serves as a prototype for many other tools of data analysis, visualization and dimension reduction: Independent Component Analysis (ICA), Multidimensional Scaling (MDS), Nonlinear PCA (NLPCA), Self Organizing Maps (SOM), etc. The book starts with the quote of the classical Pearson definition of PCA and includes reviews of various methods: NLPCA, ICA, MDS, embedding and clustering algorithms, principal manifolds and SOM. New approaches to NLPCA, principal manifolds, branching principal components and topology preserving mappings are described as well. Presentation of algorithms is supplemented by case studies, from engineering to astronomy, but mostly of biological data: analysis of microarray and metabolite data. The volume ends with a tutorial "PCA and K-means decipher genome". The book is meant to be useful for practitioners in applied data analysis in life sciences, engineering, physics and chemistry; it will also be valuable to PhD students and researchers in computer sciences, applied mathematics and statistics.
DNA Microarrays: A Practical Approach (Practical Approach Series) DNA Microarrays: A Practical Approach is the first comprehensive overview of an exciting and powerful new technology. DNA microarrays, or biochips, are small glass chips embedded with ordered rows of DNA, providing a massive parallel platform for data gathering and representing a fundamental
technical advance in biomedical research. Such biochips gather data at an unprecedented rate by enabling the use of advanced fabrication, detection, and data mining technologies. Written and edited by experts in the field, this book provides fascinating insight into this remarkable advancement. It
opens with an introduction to the technology of DNA microarrays, emphasizing the methodological fundamentals of biochips, and continues with descriptions of the use of confocal scanning in microarray detection and techniques for the efficient cloning and screening of differentially expressed genes.
The chapters address many topics, among them assay optimization, antisense scanning arrays, the manufacture of molecular arrays, and gene expression analysis. Also addressed are the uses of expression data in bioinformatics, of active microelectronic arrays for DNA hybridization analysis, and of
microarray technology in pharmacogenomics. DNA Microarrays: A Practical Approach is ideal for researchers investigating patterns of gene expression (and the relationship with disease), and it is essential for any researcher interested in the use of biochips.
The Analysis of Gene Expression Data This book presents practical approaches for the analysis of data from gene expression microarrays. Each chapter describes the conceptual and methodological underpinning for a statistical tool and its implementation in software. Methods cover all aspects of statistical analysis of microarrays, from annotation and filtering to clustering and classification. Chapters are written by the developers of the software. All software packages described are free to academic users. The book includes coverage of various packages that are part of the Bioconductor project and several related R tools. The materials presented cover a range of software tools designed for varied audiences. Some chapters describe simple menu-driven software in a user-friendly fashion, and are designed to be accessible to microarray data analysts without formal quantitative training. Most chapters are directed at microarray data analysts with master-level training in computer science, biostatistics or bioinformatics. A minority of more advanced chapters are intended for doctoral students and researchers. The team of editors is from the Johns Hopkins Schools of Medicine and Public Health and has been involved with developing methods and software for microarray data analysis since the inception of this technology. Giovanni Parmigiani is Associate Professor of Oncology, Pathology and Biostatistics. He is the author of the book on "Modeling in Medical decision Making," a fellow of the ASA, and a recipient of the Savage Awards for Bayesian statistics. Elizabeth S. Garrett is Assistant Professor of Oncology and Biostatistics, and recipient of the Abbey Award for statistical education. Rafael A Irizarry is Assistant Professor of Biostatistics, and recipient of the Noether Award for non-parametric statistics. Scott L. Zeger is Professor and chair of Biostatistics. He is co-author of the book "Longitudinal Data Analysis," a fellow of the ASA and recipient of the Spiegelman Award for public health statistics.
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