Download or read book Bioinformatics Tools and Web Server for Cancer Biomarker Development written by Xiangqian Guo and published by Frontiers Media SA. This book was released on 2020-12-23 with total page 197 pages. Available in PDF, EPUB and Kindle. Book excerpt: This eBook is a collection of articles from a Frontiers Research Topic. Frontiers Research Topics are very popular trademarks of the Frontiers Journals Series: they are collections of at least ten articles, all centered on a particular subject. With their unique mix of varied contributions from Original Research to Review Articles, Frontiers Research Topics unify the most influential researchers, the latest key findings and historical advances in a hot research area! Find out more on how to host your own Frontiers Research Topic or contribute to one as an author by contacting the Frontiers Editorial Office: frontiersin.org/about/contact.
Download or read book Bioinformatics Tools and Web Server for Cancer Biomarker Development Volume II written by Xiangqian Guo and published by Frontiers Media SA. This book was released on 2022-06-16 with total page 297 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Bioinformatics for Diagnosis Prognosis and Treatment of Complex Diseases written by Bairong Shen and published by Springer Science & Business Media. This book was released on 2013-11-25 with total page 219 pages. Available in PDF, EPUB and Kindle. Book excerpt: The book introduces the bioinformatics tools, databases and strategies for the translational research, focuses on the biomarker discovery based on integrative data analysis and systems biological network reconstruction. With the coming of personal genomics era, the biomedical data will be accumulated fast and then it will become reality for the personalized and accurate diagnosis, prognosis and treatment of complex diseases. The book covers both state of the art of bioinformatics methodologies and the examples for the identification of simple or network biomarkers. In addition, bioinformatics software tools and scripts are provided to the practical application in the study of complex diseases. The present state, the future challenges and perspectives were discussed. The book is written for biologists, biomedical informatics scientists and clinicians, etc. Dr. Bairong Shen is Professor and Director of Center for Systems Biology, Soochow University; he is also Director of Taicang Center for Translational Bioinformatics.
Download or read book Cancer Bioinformatics written by and published by BoD – Books on Demand. This book was released on 2022-09-28 with total page 172 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book discusses the application of bioinformatics in cancer disease management. It covers general aspects of cancer as a disease but also as a success story in the translation of omics data in clinical settings. It provides an overview of the specific applications of bioinformatics tools in cancer epidemiology, prevention, and screening and in the identification of novel genetic and molecular biomarkers involved in cancer development. This is accomplished through the inclusion of numerous examples of the use of bioinformatics in precision oncology.
Download or read book Bioinformatics and Biomarker Discovery written by Francisco Azuaje and published by John Wiley & Sons. This book was released on 2011-08-24 with total page 206 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book is designed to introduce biologists, clinicians and computational researchers to fundamental data analysis principles, techniques and tools for supporting the discovery of biomarkers and the implementation of diagnostic/prognostic systems. The focus of the book is on how fundamental statistical and data mining approaches can support biomarker discovery and evaluation, emphasising applications based on different types of "omic" data. The book also discusses design factors, requirements and techniques for disease screening, diagnostic and prognostic applications. Readers are provided with the knowledge needed to assess the requirements, computational approaches and outputs in disease biomarker research. Commentaries from guest experts are also included, containing detailed discussions of methodologies and applications based on specific types of "omic" data, as well as their integration. Covers the main range of data sources currently used for biomarker discovery Covers the main range of data sources currently used for biomarker discovery Puts emphasis on concepts, design principles and methodologies that can be extended or tailored to more specific applications Offers principles and methods for assessing the bioinformatic/biostatistic limitations, strengths and challenges in biomarker discovery studies Discusses systems biology approaches and applications Includes expert chapter commentaries to further discuss relevance of techniques, summarize biological/clinical implications and provide alternative interpretations
Download or read book Cancer Systems Biology Bioinformatics and Medicine written by Alfredo Cesario and published by Springer Science & Business Media. This book was released on 2011-08-21 with total page 496 pages. Available in PDF, EPUB and Kindle. Book excerpt: This teaching monograph on systems approaches to cancer research and clinical applications provides a unique synthesis, by world-class scientists and doctors, of laboratory, computational, and clinical methods, thereby establishing the foundations for major advances not possible with current methods. Specifically, the book: 1) Sets the stage by describing the basis of systems biology and bioinformatics approaches, and the clinical background of cancer in a systems context; 2) Summarizes the laboratory, clinical, data systems analysis and bioinformatics tools, along with infrastructure and resources required; 3) Demonstrates the application of these tools to cancer research; 4) Extends these tools and methods to clinical diagnosis, drug development and treatment applications; and 5) Finishes by exploring longer term perspectives and providing conclusions. This book reviews the state-of-the-art, and goes beyond into new applications. It is written and highly referenced as a textbook and practical guide aimed at students, academics, doctors, clinicians, industrialists and managers in cancer research and therapeutic applications. Ideally, it will set the stage for integration of available knowledge to optimize communication between basic and clinical researchers involved in the ultimate fight against cancer, whatever the field of specific interest, whatever the area of activity within translational research.
Download or read book Cancer Biomarkers written by Mahmoud H. Hamdan and published by Wiley-Interscience. This book was released on 2007-02-09 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Tools, techniques, and progress in cancer biomarkers discovery The completion of a number of gene sequencing projects, recent advances in genomic and proteomic technologies, and the availability of powerful bioinformatics tools have led to promising new avenues and approaches in the search for cancer biomarkers. This book provides a comprehensive overview of current methodologies and technologies. It discusses biomarker discovery as a whole, rather than focusing on one specific marker or cancer. With information on both existing and potential biomarkers, Cancer Biomarkers: Analytical Techniques for Discovery: * Provides insights into the current technological platforms for biomarker discovery, including mass spectrometry combined with multidimensional chromatography, DIGE, and various chip technologies * Includes a detailed discussion of protein networks and protein phosphorylation in cancer * Details the use of imaging mass spectrometry, laser capture microdissection, serial analysis of gene expression, enzyme-linked immunosorbent assays, protein microarrays, antibody-based microarrays, and bioinformatics * Covers the emerging role of surface-enhanced laser desorption ionization (SELDI) and various tagging and labeling strategies * Discusses related regulatory and ethical issues With a wealth of information that can be applied to a broad spectrum of biomarker research projects, this is a core reference for biomarker researchers, scientists working in proteomics and bioinformatics, pharmaceutical scientists, oncologists, biochemists, biologists, and chemists.
Download or read book Computational Analyses Methods and Tools Supporting Cancer Biomarker Identification and Targeted Therapy Development written by Pichai Raman and published by . This book was released on 2016 with total page 452 pages. Available in PDF, EPUB and Kindle. Book excerpt: Over time, much has been done in attempt to understand the various causes and complex molecular mechanisms of cancer, yet it still represents one of the leading causes of mortality worldwide. Fortunately, cancer therapeutics have evolved, from broad chemotherapies with multiple harsh side effects to molecular missiles which target specific cancer causing genes, leaving a patient's normal cells largely untouched. Similarly, cancer detection strategies and prognosis methods have also advanced, allowing doctors and patients to better manage and control the disease. The main challenge currently is to identify those genes that are specific markers for a particular cancer and can inform prognosis and those that may be "targeted therapies". This can be accomplished most rapidly through the use of large-scale cancer genomic datasets and sophisticated integrative analyses, methods, and tools to detect and prioritize candidate genes and biomarkers. As such, the goal of this work is to develop analyses, methods, and frameworks that benefit the translational research community by identifying and prioritizing genes for biomarker and drug development. Specifically, using integrative approaches on The Cancer Genome Atlas (TCGA) and various datasets from Gene Expression Omnibus (GEO), we perform analyses to identify a marker of survival and Epithelial-mesenchymal transition (EMT) in ovarian serous adenocarcinoma and a 5-gene signature of survival and molecular subtype in pancreatic ductal adenocarcinoma. Additionally, we highlight associated oncogenic pathways and suggest potential therapeutic strategies in these analyses. In order to improve detection of these survival markers we also evaluate a suite of techniques used commonly in the literature for survival analysis and determine best practices when using RNA-Sequencing data. Finally, we develop an application that allows researcher to access cancer 'big data' and apply their experience and domain expertise alongside the application logic of the tool to identify survival markers, therapeutic avenues, and genes that may represent an 'Achilles heel' for a set of tumors. This undertaking involves many different facets of bioinformatics, including statistical methods of analysis, high-performance computing, graph theory, web programming, and UI/UX interaction, as well as domain expertise in cancer target discovery. While there is much activity in the translational cancer informatics domain, the current study adds to the wealth of knowledge and tools in the community and presents another foothold to gain novel insights into this devastating disease.
Download or read book Biomedical Informatics for Cancer Research written by Michael F. Ochs and published by Springer Science & Business Media. This book was released on 2010-04-06 with total page 293 pages. Available in PDF, EPUB and Kindle. Book excerpt: view, showing that multiple molecular pathways must be affected for cancer to develop, but with different specific proteins in each pathway mutated or differentially expressed in a given tumor (The Cancer Genome Atlas Research Network 2008; Parsons et al. 2008). Different studies demonstrated that while widespread mutations exist in cancer, not all mutations drive cancer development (Lin et al. 2007). This suggests a need to target only a deleterious subset of aberrant proteins, since any tre- ment must aim to improve health to justify its potential side effects. Treatment for cancer must become highly individualized, focusing on the specific aberrant driver proteins in an individual. This drives a need for informatics in cancer far beyond the need in other diseases. For instance, routine treatment with statins has become widespread for minimizing heart disease, with most patients responding to standard doses (Wilt et al. 2004). In contrast, standard treatment for cancer must become tailored to the molecular phenotype of an individual tumor, with each patient receiving a different combination of therapeutics aimed at the specific aberrant proteins driving the cancer. Tracking the aberrations that drive cancers, identifying biomarkers unique to each individual for molecular-level di- nosis and treatment response, monitoring adverse events and complex dosing schedules, and providing annotated molecular data for ongoing research to improve treatments comprise a major biomedical informatics need.
Download or read book Advances in Bioinformatics written by Vijai Singh and published by Springer Nature. This book was released on with total page 365 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Bioinformatics Approaches to Cancer Biomarker Discovery and Characterization written by Peter Lee Ming Liao and published by . This book was released on 2018 with total page 143 pages. Available in PDF, EPUB and Kindle. Book excerpt: Cancers are a heterogeneous set of diseases that are defined by uncontrolled cellular growth with the potential to invade or spread to adjacent and distant tissues. While sharing certain biological capabilities that define the development and behavior of all human malignancies, cancers are governed by complex molecular changes that are often tumor-specific. As a result, even tumors arising from the same cell-type can exhibit highly divergent prognoses and treatment responses depending upon the underlying molecular mechanisms that are dysregulated and that drive its abnormal growth and cellular processes. New data collection methods grant researchers unprecedented capability to investigate and characterize cancers on a systems level. Rather than being restricted in measurement to a specific target molecule or set of molecules, "-omics" approaches allow experiments to identify and measure thousands of molecules at a time. These "-omics" approaches can therefore characterize significant proportions of the genetic, transcript, protein, and post-translational modification landscapes that underlie and drive human malignancies. Because cancers represent such a diverse set of diseases, clinicians and researchers rely on biomarkers for a variety of uses in cancer, ranging from diagnosis to prognosis and prediction of treatment response. A good cancer biomarker is a molecular signal that is capable of distinguishing, for example, disease from normal, high-risk from low risk disease, or disease cases that may be particularly susceptible to targeted treatments.In this dissertation, I demonstrate the use of multiple bioinformatics tools for cancer biomarker discovery and characterization. Models of epigenetic age, termed epigenetic clocks, are investigated in gliomas and are shown to be associated with previously defined prognostic molecular subtypes and are independently predictive of survival. I introduce a novel method for phosphoproteomics analysis, termed pKSEA, which uses in silico kinase-substrate predictions to infer changes in kinase activity. pKSEA is described, benchmarked against previously published data, and compared to existing methods. Three examples are provided of pKSEA analysis in cancer-related data, identifying kinase activity signals that may be useful as biomarkers in identifying and targeting high risk glioblastomas, as well as identifying treatment-related phosphorylation signaling changes in response to kinase inhibition and phosphatase activation in cancer cells.
Download or read book Computational Intelligence in Oncology written by Khalid Raza and published by Springer Nature. This book was released on 2022-03-01 with total page 474 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book encapsulates recent applications of CI methods in the field of computational oncology, especially cancer diagnosis, prognosis, and its optimized therapeutics. The cancer has been known as a heterogeneous disease categorized in several different subtypes. According to WHO’s recent report, cancer is a leading cause of death worldwide, accounting for over 10 million deaths in the year 2020. Therefore, its early diagnosis, prognosis, and classification to a subtype have become necessary as it facilitates the subsequent clinical management and therapeutics plan. Computational intelligence (CI) methods, including artificial neural networks (ANNs), fuzzy logic, evolutionary computations, various machine learning and deep learning, and nature-inspired algorithms, have been widely utilized in various aspects of oncology research, viz. diagnosis, prognosis, therapeutics, and optimized clinical management. Appreciable progress has been made toward the understanding the hallmarks of cancer development, progression, and its effective therapeutics. However, notwithstanding the extrinsic and intrinsic factors which lead to drastic increment in incidence cases, the detection, diagnosis, prognosis, and therapeutics remain an apex challenge for the medical fraternity. With the advent in CI-based approaches, including nature-inspired techniques, and availability of clinical data from various high-throughput experiments, medical consultants, researchers, and oncologists have seen a hope to devise and employ CI in various aspects of oncology. The main aim of the book is to occupy state-of-the-art applications of CI methods which have been derived from core computer sciences to back medical oncology. This edited book covers artificial neural networks, fuzzy logic and fuzzy inference systems, evolutionary algorithms, various nature-inspired algorithms, and hybrid intelligent systems which are widely appreciated for the diagnosis, prognosis, and optimization of therapeutics of various cancers. Besides, this book also covers multi-omics exploration, gene expression analysis, gene signature identification of cancers, genomic characterization of tumors, anti-cancer drug design and discovery, drug response prediction by means of CI, and applications of IoT, IoMT, and blockchain technology in cancer research.
Download or read book Bioinformatics Tools for Detection and Clinical Interpretation of Genomic Variations written by Ali Samadikuchaksaraei and published by BoD – Books on Demand. This book was released on 2019-09-04 with total page 102 pages. Available in PDF, EPUB and Kindle. Book excerpt: Genomic variations and phenotypic diversity are closely linked and form the underlying mechanism for development of many human diseases. This book addresses the methods of detection, analysis, and interpretation of genomic variations in clinically relevant scenarios. If your research or clinical practice involves handling of genomic sequencing data, this book is for you. Topics covered include: methods for identifying genetic diversity, the workflow for analyzing whole exome and whole genome sequencing data, local ancestry deconvolution models, the value of molecular patterns and pattern biomarkers in cancer diagnosis and prognosis, and genotyping and profiling resistance-associated variants of hepatitis C. If your research or clinical practice involves handling of genomic sequencing data, this book is for you.
Download or read book Bioinformatics Tools for Discovery and Evaluation of Biomarkers written by and published by . This book was released on 2016 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Cancer Systems Biology Bioinformatics and Medicine written by Alfredo Cesario and published by Springer. This book was released on 2011-08-21 with total page 484 pages. Available in PDF, EPUB and Kindle. Book excerpt: This teaching monograph on systems approaches to cancer research and clinical applications provides a unique synthesis, by world-class scientists and doctors, of laboratory, computational, and clinical methods, thereby establishing the foundations for major advances not possible with current methods. Specifically, the book: 1) Sets the stage by describing the basis of systems biology and bioinformatics approaches, and the clinical background of cancer in a systems context; 2) Summarizes the laboratory, clinical, data systems analysis and bioinformatics tools, along with infrastructure and resources required; 3) Demonstrates the application of these tools to cancer research; 4) Extends these tools and methods to clinical diagnosis, drug development and treatment applications; and 5) Finishes by exploring longer term perspectives and providing conclusions. This book reviews the state-of-the-art, and goes beyond into new applications. It is written and highly referenced as a textbook and practical guide aimed at students, academics, doctors, clinicians, industrialists and managers in cancer research and therapeutic applications. Ideally, it will set the stage for integration of available knowledge to optimize communication between basic and clinical researchers involved in the ultimate fight against cancer, whatever the field of specific interest, whatever the area of activity within translational research.
Download or read book Clinical Immuno Oncology E Book written by John E. Niederhuber and published by Elsevier Health Sciences. This book was released on 2023-03-05 with total page 419 pages. Available in PDF, EPUB and Kindle. Book excerpt: Offering focused, practical, and up-to-date content on immunotherapies used to treat a wide variety of cancer types, Clinical Immuno-Oncology covers the basic cellular and molecular mechanisms involved in cancer initiation and progression. The text reviews the development of tumor specific antigens and the challenges of developing cancer immunotherapies. Every effort is made to relate the fundamental aspects of host immunity to the efficacy of current immunotherapies and how they work in conjunction with the immune system to combat cancer. This foundational resource explains the basics of cancer immunotherapy, discusses best practices, and provides recommendations from experienced clinicians in the field. Dr. John E. Niederhuber and a team of expert contributing authors provide clinically focused information essential for integrating these new therapies into practice—making this an ideal resource for fellows, practitioners, and other cancer team members in medical oncology, radiation oncology, cancer surgery, immunology, and cancer research. - Offers balanced and synthesized content on clinical science, clinical and translational research, and evidence-based practice for cutting-edge immunotherapies. - Discusses clinical applications of immunotherapies in common types of cancer including melanoma, breast cancer, pancreatic cancer, colon and rectum cancer, prostate cancer, leukemias, and hematologic malignancies. - Includes dedicated chapters on immune responses, innate immunity, active immunization against cancer, and cell-based therapies by leading experts. - Covers key topics such as cancer immunotherapy in the presence of COVID-19, immunotherapeutics, new findings concerning the role of the microbiome in immunotherapy, advances in engineered cell-based therapies, and active immunization against cancer.
Download or read book Cancer Bioinformatics written by Sylvia Nagl and published by . This book was released on 2006-03-06 with total page 320 pages. Available in PDF, EPUB and Kindle. Book excerpt: "The development and application of bioinformatics tools to basic and translational cancer research is, in fact, a rapidly expanding field that deserves a timely review. Therefore, a publication of this type is needed. The editors have done an excellent job in recruiting well-established scientists to author the various chapters of the book." —Dieter Naf, Jackson Laboratory, USA Cancer bioinformatics is now emerging as a new interdisciplinary field, which is facilitating an unprecedented synthesis of knowledge arising from the life and clinical sciences. This groundbreaking title provides a comprehensive and up-to-date account of the enormous range of bioinformatics for cancer therapy development from the laboratory to clinical trials. It functions as a guide to integrated data exploitation and synergistic knowledge discovery, and support the consolidation of the interdisciplinary research community involved.
