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This book provides a practical guide to current methods for profiling and interpreting genomic alterations in tumors. Chapters detail methods to interrogate DNA variation, RNA expression, and epigenetic changes using both next-generation sequencing and microarray techniques, common bioinformatics and annotation tools to glean relevant driver genomic events, and different performance characteristics as well as quality metrics necessary for the robust validation of tumor profiling as a diagnostic test for medical laboratories. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Tumor Profiling: Methods and Protocols aims to be a useful resource for learning about technical details, applications, and strengths and limitations of the latest technologies as applied to this increasingly important field.
Expression Profiling of Human Tumors by Marc Ladanyi,William L. Gerald Pdf
A comprehensive review of the use of global gene expression profiling to understand human tumors. The authors focus on the analysis of human tissue samples for a variety of cancers, including breast, colorectal, lung, renal, ovarian, bone, and brain tumors, among others. A primer on the technology and its novel analytical methods. Contains over 40 color images. Explains both the theory and practice of comprehensive gene expression profiling. Timely and topical, Expression Profiling of Human Tumors: Diagnostic and Research Applications offers every oncologist, pathologists, and cancer surgeons an essential introduction to the most promising new high-throughput investigative approaches in molecular biology-technology that is already dramatically reshaping the future of cancer research, diagnostic pathology, and clinical oncology.
Personalized Drug Screening for Functional Tumor Profiling by Victoria El-Khoury,Tatiana Michel,Hichul Kim,Yong-Jun Kwon Pdf
Despite considerable advances in our understanding of the biology that underlies tumor development and progression of cancer and the rapidly evolving field of personalized medicine, cancer is still one of the deadliest diseases. Many cancer patients have benefited from the survival improvements observed with targeted therapies but only a small subset of patients receiving targeted drugs experience an objective response. Because cancer is a complex and heterogeneous disease, the search for effective cancer treatments will need to address not only patient-specific molecular defects but also aspects of the tumor microenvironment. The functional tumor profiling directly measures the cellular phenotype, in particular tumor growth, in response to drugs using patient-derived tumor models and might be the next step toward precision oncology. In this Element, the authors discuss the personalized drug screening as a novel patient stratification strategy for the determination of individualized treatment choices in oncology.
Fast Facts: Molecular Profiling in Solid Tumors by P. Cheema,E. Garralda,B.S. Sheffield,P. Pisapia Pdf
Identifying tumor-specific molecular aberrations via molecular profiling is vital for the use of targeted therapies. Understanding a patient’s unique tumor genetics provides predictive and prognostic information that enables a personalized care plan to be put in place, improving outcomes and minimizing ineffective treatments. 'Fast Facts: Molecular Profiling in Solid Tumors' provides a firm knowledge foundation of somatic molecular profiling methodologies, key information to help with the use of molecular profiling in daily practice and advice on communicating with patients about molecular testing and results. Table of Contents: • Molecular profiling: the basics • Rationale for testing • Sample collection • Test selection and process • Interpreting the report • Talking to patients • Challenges and opportunities
Precision Cancer Medicine by Sameek Roychowdhury,Eliezer M. Van Allen Pdf
Genomic sequencing technologies have augmented the classification of cancer beyond tissue of origin and towards a molecular taxonomy of cancer. This has created opportunities to guide treatment decisions for individual patients with cancer based on their cancer’s unique molecular characteristics, also known as precision cancer medicine. The purpose of this text will be to describe the contribution and need for multiple disciplines working together to deliver precision cancer medicine. This entails a multi-disciplinary approach across fields including molecular pathology, computational biology, clinical oncology, cancer biology, drug development, genetics, immunology, and bioethics. Thus, we have outlined a current text on each of these fields as they work together to overcome various challenges and create opportunities to deliver precision cancer medicine. As trainees and junior faculty enter their respective fields, this text will provide a framework for understanding the role and responsibility for each specialist to contribute to this team science approach.
Fast Facts: Molecular Profiling in Solid Tumors by Parneet Cheema,Elena Garralda,Brandon S. Sheffield,Pasquale Pisapia Pdf
Identifying tumor-specific molecular aberrations via molecular profiling is vital for the use of targeted therapies. Understanding a patient’s unique tumor genetics provides predictive and prognostic information that enables a personalized care plan to be put in place, improving outcomes and minimizing ineffective treatments. 'Fast Facts: Molecular Profiling in Solid Tumors' provides a firm knowledge foundation of somatic molecular profiling methodologies, key information to help with the use of molecular profiling in daily practice and advice on communicating with patients about molecular testing and results. Table of Contents: • Molecular profiling: the basics • Rationale for testing • Sample collection • Test selection and process • Interpreting the report • Talking to patients • Challenges and opportunities
Gene Expression Profiling in Cancer by Dimitrios Vlachakis Pdf
The contribution of modern-day genetics in designing efficient gene expression profiles for cancer is immense. The progress of technology and science in recent years provides the opportunity for discovery and application of new techniques for treating various diseases that affect humanity. Methods for finding and analyzing the profile of gene expression of infected cells give scientists the ability to develop more targeted and effective treatments, especially for diseases such as cancer. The development of gene expression profiling is one of the most important achievements in cancer genetics in our time. It is essentially the driving force behind personalized and precision medicine. This book highlights recent developments, applications, and breakthroughs in the field of gene expression profiling in cancer.
Fast Facts: Comprehensive Genomic Profiling by Bernardo L. Rapoport ,Giancarlo Troncone ,Fernando Schmitt ,Simon Nayler Pdf
Cancer is a multifaceted disease in which genetic changes induce uncontrolled tumor growth. Genomic characterization of cancer is now leading to better diagnostic, prognostic and predictive biomarkers, and effective individualized management. 'Fast Facts: Comprehensive Genomic Profiling' provides a crash course in the science, methods and application of genomic profiling. Assuming only the most basic knowledge – or memory – of cell biology, the authors provide an overview of DNA and RNA biology and next-generation sequencing. This sets in context the descriptions of prognostic and predictive biomarkers for different cancer types and genomic-based treatments. Finally, but importantly, some of the practicalities of gaining and interpreting genomic information are described. Whether you need a primer or a refresher, this short colorful book demystifies this complex subject. Contents: • Genetic mutations and biomarkers • Understanding next-generation sequencing • Elements of comprehensive genomic profiles • Role in precision oncology • Predictive and prognostic biomarkers • Overcoming barriers to genotype-directed therapy
Expression Profiling of Human Tumors by Marc Ladanyi,William L. Gerald Pdf
A comprehensive review of the use of global gene expression profiling to understand human tumors. The authors focus on the analysis of human tissue samples for a variety of cancers, including breast, colorectal, lung, renal, ovarian, bone, and brain tumors, among others. A primer on the technology and its novel analytical methods. Contains over 40 color images. Explains both the theory and practice of comprehensive gene expression profiling. Timely and topical, Expression Profiling of Human Tumors: Diagnostic and Research Applications offers every oncologist, pathologists, and cancer surgeons an essential introduction to the most promising new high-throughput investigative approaches in molecular biology-technology that is already dramatically reshaping the future of cancer research, diagnostic pathology, and clinical oncology.
Microarray Technology and Cancer Gene Profiling by Simone Mocellin Pdf
Given the revolutionary implications that the use of this technology might have in the clinical management of cancer patients, the principles of DNA array-based tumor gene profiling must be clearly understood for the data to be correctly interpreted and appreciated. This book, written by leading experts, discusses the technical features characterizing the powerful laboratory tool of microarray technology, and reviews applications in the field of oncology.
Impact of Gene Expression Profiling Tests on Breast Cancer Outcomes by Luigi Marchionni Pdf
Assesses the evidence that three marketed gene expression-based assays improve prognostic accuracy, treatment choice, and health outcomes in women diagnosed with early stage breast cancer. Three gene expression assays were evaluated; Oncotype DX¿, MammaPrint® and the Breast Cancer Profiling (BCP or H/I ratio) test, and for gene expression signatures underlying the assays. They sought evidence on: analytic performance of tests; clinical validity; clinical utility; harms; and impact on clinical decision making and health care costs. Conclusions: Oncotype DX is furthest along the validation pathway, with retrospective evidence that it predicts distant spread and chemotherapy benefit to a clinically relevant extent over standard predictors. Illus.
Cancer of Unknown Primary by Alwin Krämer,Harald Löffler Pdf
This book presents an up-to-date and thorough overview of cancer of unknown primary, encompassing topics ranging from epidemiology, tumor biology, and prognostic factors through to the most recent diagnostic and therapeutic advances. All aspects of management are covered, including radiological, nuclear medicine, and pathological diagnosis, site-specific therapies, platinum-based combination chemotherapy, radiotherapy, and novel targeted treatments. Clear guidance is offered on diagnosis of the tissue of origin by means of gene expression and micro-RNA analyses and its therapeutic implications. Detailed directions are also provided on the identification of subsets of patients with a more favorable prognosis, in whom specific treatment offers the chance of long-term survival or even cure. Readers will find Cancer of Unknown Primary to be an ideal source of practically oriented information that will assist in delivery of the best possible care for patients with this challenging diagnosis.
Tissue Phenomics: Profiling Cancer Patients for Treatment Decisions by Gerd Binnig,Ralf Huss,Günter Schmidt Pdf
In the age of digitization our society is transformed into a new state. In particular, machine intelligence dramatically elevates our capability to create and digest information. Naturally, healthcare is also impacted by this trend and will even be more transformed into a informatic driven discipline in the future. In the most important area of histo-pathology, the interpretation of tissue slices from cancer patients, informatics will have an early and huge impact on treatment decisions and probably will act as the leading discipline for this transformation in medicine. Tissue Phenomics provides a comprehensive methodology aiming at the discovery of the most accurate tissue-based decision support algorithm by close integration of assay development, image analysis and bioinformatics, and optimization feedback loops. In this book the methodology of Tissue Phenomics and its benefits and wealth’s are described. The different components of Tissue Phenomics are explained in the different chapters. In the chapters 2 to 4 of this book different authors describe various approaches on how to convert the wealth of tissue slide pixel data into mineable information using knowledge-based and data-driven image analysis methods. Subsequently, the datafication of images and the bioinformatics part plays a crucial role in generating prognostic and predictive models for disease progression. The integration of other data sources such as genomics, radiomics and patient related information is also important and is described as well. As discussed in chapters 5 and 6, these models may classify patients in distinct groups such as those responding to a given therapy. Since Tissue Phenomics provides a huge set of potentially prognostic features (phenes), one focus of both chapters is robust feature selection methods by advanced Monte-Carlo cross validation algorithms. In chapter 7 we discuss multiple application examples of Tissue Phenomics in academic and commercial settings and its tremendous impact to advances in biomedical sciences. Building on the successes in research, chapters 8 and 9 discuss applications in clinical environments and provide a flavor to the future envision in chapter 10, where tissue datafication and subsequent patient profiling is part of every routine examination, with the goal to best match patients with the most successful therapy, as predicted by tissue phenes.
Author : Mark Jesus M. Magbanua,John W. Park Publisher : Springer Page : 301 pages File Size : 50,6 Mb Release : 2017-05-29 Category : Medical ISBN : 9783319559476
Isolation and Molecular Characterization of Circulating Tumor Cells by Mark Jesus M. Magbanua,John W. Park Pdf
Numerous studies have shown that elevated levels of circulating tumor cells (CTCs) in blood of cancer patients are associated with poor response to treatment and inferior survival probabilities. Despite this clinical significance, the molecular biology of CTCs remains poorly understood. The paucity in molecular information can be attributed to the tremendous technical challenges involved in isolating these extremely rare cells. Recent technological advancements in rare-cell technology, however, have allowed for the reliable enrichment and isolation of CTCs. Consequently, the use of recently developed molecular approaches —e.g., multiplexed QPCR, microarray, and next generation sequencing analyses— to profile CTCs have provided novel insights into the molecular makeup of these tumor cells. This book discusses approaches for enrichment and isolation of CTCs as well as recent advances in comprehensive molecular profiling of CTCs using cutting-edge omics technology.
This book presents current advances in the emerging interdisciplinary field of microRNA research of human cancers from a unique perspective of quantitative sciences: bioinformatics, computational and systems biology, and mathematical modeling. This volume contains adaptations and critical reviews of recent state-of-the-art studies, ranging from technological advances in microRNA detection and profiling, clinically oriented microRNA profiling in several human cancers, to a systems biology analysis of global patterns of microRNA regulation of signaling and metabolic pathways. Interactions with transcription factor regulatory networks and mathematical modeling of microRNA regulation are also discussed.
