Download or read book Proteomics Data Analysis written by Daniela Cecconi and published by . This book was released on 2021 with total page 326 pages. Available in PDF, EPUB and Kindle. Book excerpt: This thorough book collects methods and strategies to analyze proteomics data. It is intended to describe how data obtained by gel-based or gel-free proteomics approaches can be inspected, organized, and interpreted to extrapolate biological information. Organized into four sections, the volume explores strategies to analyze proteomics data obtained by gel-based approaches, different data analysis approaches for gel-free proteomics experiments, bioinformatic tools for the interpretation of proteomics data to obtain biological significant information, as well as methods to integrate proteomics data with other omics datasets including genomics, transcriptomics, metabolomics, and other types of data. Written for the highly successful Methods in Molecular Biology series, chapters include the kind of detailed implementation advice that will ensure high quality results in the lab. Authoritative and practical, Proteomics Data Analysis serves as an ideal guide to introduce researchers, both experienced and novice, to new tools and approaches for data analysis to encourage the further study of proteomics.
Download or read book Evolution of Translational Omics written by Institute of Medicine and published by National Academies Press. This book was released on 2012-09-13 with total page 354 pages. Available in PDF, EPUB and Kindle. Book excerpt: Technologies collectively called omics enable simultaneous measurement of an enormous number of biomolecules; for example, genomics investigates thousands of DNA sequences, and proteomics examines large numbers of proteins. Scientists are using these technologies to develop innovative tests to detect disease and to predict a patient's likelihood of responding to specific drugs. Following a recent case involving premature use of omics-based tests in cancer clinical trials at Duke University, the NCI requested that the IOM establish a committee to recommend ways to strengthen omics-based test development and evaluation. This report identifies best practices to enhance development, evaluation, and translation of omics-based tests while simultaneously reinforcing steps to ensure that these tests are appropriately assessed for scientific validity before they are used to guide patient treatment in clinical trials.
Download or read book Data Mining for Genomics and Proteomics written by Darius M. Dziuda and published by John Wiley & Sons. This book was released on 2010-07-16 with total page 348 pages. Available in PDF, EPUB and Kindle. Book excerpt: Data Mining for Genomics and Proteomics uses pragmatic examples and a complete case study to demonstrate step-by-step how biomedical studies can be used to maximize the chance of extracting new and useful biomedical knowledge from data. It is an excellent resource for students and professionals involved with gene or protein expression data in a variety of settings.
Download or read book Gene Quantification written by Francois Ferre and published by Springer Science & Business Media. This book was released on 2012-12-06 with total page 379 pages. Available in PDF, EPUB and Kindle. Book excerpt: Geneticists and molecular biologists have been interested in quantifying genes and their products for many years and for various reasons (Bishop, 1974). Early molecular methods were based on molecular hybridization, and were devised shortly after Marmur and Doty (1961) first showed that denaturation of the double helix could be reversed - that the process of molecular reassociation was exquisitely sequence dependent. Gillespie and Spiegelman (1965) developed a way of using the method to titrate the number of copies of a probe within a target sequence in which the target sequence was fixed to a membrane support prior to hybridization with the probe - typically a RNA. Thus, this was a precursor to many of the methods still in use, and indeed under development, today. Early examples of the application of these methods included the measurement of the copy numbers in gene families such as the ribosomal genes and the immunoglo bulin family. Amplification of genes in tumors and in response to drug treatment was discovered by this method. In the same period, methods were invented for estimating gene num bers based on the kinetics of the reassociation process - the so-called Cot analysis. This method, which exploits the dependence of the rate of reassociation on the concentration of the two strands, revealed the presence of repeated sequences in the DNA of higher eukaryotes (Britten and Kohne, 1968). An adaptation to RNA, Rot analysis (Melli and Bishop, 1969), was used to measure the abundance of RNAs in a mixed population.
Download or read book Reviews on Biomarker Studies in Psychiatric and Neurodegenerative Disorders written by Paul C. Guest and published by Springer. This book was released on 2019-02-12 with total page 336 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book includes a series of reviews on general aspects of biomarker use in the study of psychiatric and neurodegenerative diseases and the development of medications involved in their treatment. It describes the pros and cons of the various approaches and covers the successes and failures in this research field. It is only by a thorough understanding of the shortcomings that progress can be made. The overall goal is to facilitate the understanding and treatment of these disorders, by providing a viable mechanism of catching up with other areas of modern medicine, such as diabetes and heart disease. Finally, it is anticipated that the development and application of valid biomarker tests and the leveraging of novel drug targets will help the fields of psychiatry on neurodegenerative disorders move into the area of personalized medicine where the right patients can receive the right medication at the right time for the best possible outcome.
Download or read book Genomics Proteomics and Metabolomics written by Babak Arjmand and published by Springer Nature. This book was released on 2019-11-14 with total page 208 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides thorough coverage of high-throughput OMICs technologies for the monitoring of stem cells and regenerative medicine. Specific topics covered include the genomics, proteomics, and metabolomics aspects of regenerative medicine, metabolic profiling of mesenchymal stem cells, genome profiling of mesenchymal stem cells, OMICs monitoring of stem cell-derived exosomes, stem cell proteomics, lipidomics, OMICs profiling of cancer (stem) cells, and finally ethical considerations of OMICs-based investigations. Chapters are authored by world-renowned scientists who have valuable expertise in the field of OMICs and regenerative medicine. Genomics, Proteomics, and Metabolomics: Stem Cells Monitoring in Regenerative Medicine, part of Springer’s Stem Cell Biology and Regenerative Medicine series, is essential reading for researchers, clinicians, biologists, biochemists, and pharmaceutical experts conducting research in the fields of stem cell biology, molecular aspects of stem cell research, tissue engineering, regenerative medicine, cellular therapy, OMICs, bioinformatics, and ethics.
Download or read book Genomics Proteomics and Metabolomics in Nutraceuticals and Functional Foods written by Debasis Bagchi and published by John Wiley & Sons. This book was released on 2015-10-12 with total page 685 pages. Available in PDF, EPUB and Kindle. Book excerpt: Functional foods and nutraceuticals have received considerable interest in the past decade largely due to increasing consumer awareness of the health benefits associated with food. Diet in human health is no longer a matter of simple nutrition: consumers are more proactive and increasingly interested in the health benefits of functional foods and their role in the prevention of illness and chronic conditions. This, combined with an aging population that focuses not only on longevity but also quality of life, has created a market for functional foods and nutraceuticals. A fully updated and revised second edition, Genomics, Proteomics and Metabolomics in Nutraceuticals and Functional Foods reflects the recent upsurge in "omics" technologies and features 48 chapters that cover topics including genomics, proteomics, metabolomics, epigenetics, peptidomics, nutrigenomics and human health, transcriptomics, nutriethics and nanotechnology. This cutting-edge volume, written by a panel of experts from around the globe reviews the latest developments in the field with an emphasis on the application of these novel technologies to functional foods and nutraceuticals.
Download or read book Computational Genomics with R written by Altuna Akalin and published by CRC Press. This book was released on 2020-12-16 with total page 463 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.
Download or read book Genomics Transcriptomics Proteomics and Metabolomics of Crop Plants written by Azamal Husen and published by Elsevier. This book was released on 2023-07-11 with total page 405 pages. Available in PDF, EPUB and Kindle. Book excerpt: Genomics, Transcriptomics, Proteomics and Metabolomics of Crop Plants presents current operational methods applied to model crop plants. Including subcellular organelles, DNA fingerprinting and barcoding, sRNA, gene expression, rhizosphere engineering, marker assisted and 5G breeding, plant-microorganism interactions, stress signaling and responses, the book highlights important factors that are often overlooked and explores the latest research. The book also explores cutting-edge approaches for immediate application in new research such as OMICS, genome-wide transcriptome profiling, bioinformatics and database, DNA fingerprinting and barcoding, sRNA, gene expression, genome editing, diagnostics, rhizosphere engineering, marker assisted and 5G breeding, crop plant-microorganism interactions, stress signaling and responses. Additionally, the book describes opportunities to manipulate crop plants genetic and metabolic systems, while also exploring the related bioethical and biosafety issues. These topics are chosen and covered in detail to fill the gap in this understanding of crop molecular biology. - Includes coverage of the latest trends on plants bioinformatics and databases - Presents the overall scope of OMIC sciences with rich illustration - Provides implementation advice and future challenges
Download or read book Proteome Informatics written by Conrad Bessant and published by Royal Society of Chemistry. This book was released on 2016-11-15 with total page 429 pages. Available in PDF, EPUB and Kindle. Book excerpt: The field of proteomics has developed rapidly over the past decade nurturing the need for a detailed introduction to the various informatics topics that underpin the main liquid chromatography tandem mass spectrometry (LC-MS/MS) protocols used for protein identification and quantitation. Proteins are a key component of any biological system, and monitoring proteins using LC-MS/MS proteomics is becoming commonplace in a wide range of biological research areas. However, many researchers treat proteomics software tools as a black box, drawing conclusions from the output of such tools without considering the nuances and limitations of the algorithms on which such software is based. This book seeks to address this situation by bringing together world experts to provide clear explanations of the key algorithms, workflows and analysis frameworks, so that users of proteomics data can be confident that they are using appropriate tools in suitable ways.
Download or read book Bioinformatics and the Cell written by Xuhua Xia and published by Springer Science & Business Media. This book was released on 2007-05-08 with total page 376 pages. Available in PDF, EPUB and Kindle. Book excerpt: Biological and biomedical sciences are becoming more interdisciplinary, and scientists of the future need inte rdisciplinary training instead of the conventional disciplinary training. Just as Sean Eddy (2005) wiselypointed out that sending monolingual diplomats to the United Nations maynot enhance international collaborations, combining strictly disciplinary scientists trained in either mathematics, computational science or molecular biology will not create a productive inte rdisciplinary team ready to solve interdisciplinary problems. Molecular biology is an interdiscip linary science back in its heyday, and founders of molecular biology were ofte n interdisciplinary scientists. Indeed, Francis Crick considered himself as “a mixture of crystallographer, biophysicist, biochemist, and geneticist” (Crick, 1965). Because it was too cumbersome to explain to people that he was such a mixture, the term “molecular biologist” came handy. To get the crystallographer, biophysicist, biochemist, and geneticist within hi mself to collaborate with each other probably worked better than a team with a crystallographer, a biophysicist, a biochemist and a geneticist who maynot even be interested in each other’s problems.
Download or read book Plant Systems Biology written by Sacha Baginsky and published by Springer Science & Business Media. This book was released on 2007-06-25 with total page 362 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume aims to provide a timely view of the state-of-the-art in systems biology. The editors take the opportunity to define systems biology as they and the contributing authors see it, and this will lay the groundwork for future studies. The volume is well-suited to both students and researchers interested in the methods of systems biology. Although the focus is on plant systems biology, the proposed material could be suitably applied to any organism.
Download or read book Data Analytics in Bioinformatics written by Rabinarayan Satpathy and published by John Wiley & Sons. This book was released on 2021-01-20 with total page 433 pages. Available in PDF, EPUB and Kindle. Book excerpt: Machine learning techniques are increasingly being used to address problems in computational biology and bioinformatics. Novel machine learning computational techniques to analyze high throughput data in the form of sequences, gene and protein expressions, pathways, and images are becoming vital for understanding diseases and future drug discovery. Machine learning techniques such as Markov models, support vector machines, neural networks, and graphical models have been successful in analyzing life science data because of their capabilities in handling randomness and uncertainty of data noise and in generalization. Machine Learning in Bioinformatics compiles recent approaches in machine learning methods and their applications in addressing contemporary problems in bioinformatics approximating classification and prediction of disease, feature selection, dimensionality reduction, gene selection and classification of microarray data and many more.
Download or read book The Statistical Analysis of Compositional Data written by John Aitchison and published by . This book was released on 2003 with total page 416 pages. Available in PDF, EPUB and Kindle. Book excerpt: Originally published in 1986, this text contains a new Foreword, extensive postscript detailing developments in the field since its first publication, and a selection of more recent literature references. The work provides a clear and systematic account of statistical methods designed to meet the special needs of the compositional data analyst. (Mathematics)
Download or read book Unsupervised Learning Models for Unlabeled Genomic Transcriptomic Proteomic Data written by Jianing Xi and published by Frontiers Media SA. This book was released on 2022-01-05 with total page 109 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Applications of Toxicogenomic Technologies to Predictive Toxicology and Risk Assessment written by National Research Council and published by National Academies Press. This book was released on 2007-12-19 with total page 300 pages. Available in PDF, EPUB and Kindle. Book excerpt: The new field of toxicogenomics presents a potentially powerful set of tools to better understand the health effects of exposures to toxicants in the environment. At the request of the National Institute of Environmental Health Sciences, the National Research Council assembled a committee to identify the benefits of toxicogenomics, the challenges to achieving them, and potential approaches to overcoming such challenges. The report concludes that realizing the potential of toxicogenomics to improve public health decisions will require a concerted effort to generate data, make use of existing data, and study data in new waysâ€"an effort requiring funding, interagency coordination, and data management strategies.
Download or read book Genomics in the Cloud written by Geraldine A. Van der Auwera and published by O'Reilly Media. This book was released on 2020-04-02 with total page 496 pages. Available in PDF, EPUB and Kindle. Book excerpt: Data in the genomics field is booming. In just a few years, organizations such as the National Institutes of Health (NIH) will host 50+ petabytes—or over 50 million gigabytes—of genomic data, and they’re turning to cloud infrastructure to make that data available to the research community. How do you adapt analysis tools and protocols to access and analyze that volume of data in the cloud? With this practical book, researchers will learn how to work with genomics algorithms using open source tools including the Genome Analysis Toolkit (GATK), Docker, WDL, and Terra. Geraldine Van der Auwera, longtime custodian of the GATK user community, and Brian O’Connor of the UC Santa Cruz Genomics Institute, guide you through the process. You’ll learn by working with real data and genomics algorithms from the field. This book covers: Essential genomics and computing technology background Basic cloud computing operations Getting started with GATK, plus three major GATK Best Practices pipelines Automating analysis with scripted workflows using WDL and Cromwell Scaling up workflow execution in the cloud, including parallelization and cost optimization Interactive analysis in the cloud using Jupyter notebooks Secure collaboration and computational reproducibility using Terra
