Download or read book Integrative Omics in Parkinson s Disease written by Joanne Trinh and published by Elsevier. This book was released on 2024-09-19 with total page 276 pages. Available in PDF, EPUB and Kindle. Book excerpt: Integrative Omics in Parkinson's Disease provides a comprehensive understanding of the current literature on high-throughput technologies relating to discoveries for Parkinson's disease etiology. This emerging field uses large omics datasets to investigate the etiology of Parkinson's disease and other forms of parkinsonism. The book traces the evolution of omics technologies from the discovery of monogenic Parkinson's disease forms. Chapters delve into genomics, transcriptomics, epigenomics, artificial intelligence, and gene-environment interactions. Furthermore, it examines the potential therapeutic applications of these advancements and provides insights into the future of omics research in Parkinson's disease. - Reviews evolution of omics technologies from the first identification of monogenic forms of Parkinson's disease - Outlines machine learning algorithm application to Parkinson's disease datasets - Reviews big datasets on gene-environment interactions, genomics, epigenetics, and transcriptomics - Identifies how the microbiome influences Parkinson's disease in mouse models and patients - Provides outlook for therapies with induced-pluripotent stem cell models

Download or read book Integrative approach to Parkinson s disease written by Hi-Joon Park and published by Frontiers Media SA. This book was released on 2020-01-30 with total page 177 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 Computational Methods for Functional Interpretation of Diverse Omics Data written by Sumaiya Nazeen and published by . This book was released on 2019 with total page 218 pages. Available in PDF, EPUB and Kindle. Book excerpt: Recent technological advances have resulted in an explosive growth of various types of “omics” data, including genomic, transcriptomic, proteomic, and metagenomic data. Functional interpretation of these data is key to elucidating the potential role of different molecular levels (e.g., genome, transcriptome, proteome, metagenome) in human health and disease. However, the massive size and heterogeneity of raw data pose substantial computational and statistical challenges in integrating and interpreting these data. To overcome these challenges, we need sophisticated approaches and scalable analytical frameworks. This thesis outlines two research efforts along these lines. First, we develop a novel three-tiered integrative omics framework for integrating and functionally analyzing heterogeneous omics datasets across a group of co-occurring diseases. We demonstrate the effectiveness of this framework in investigating the shared pathophysiology of autism spectrum disorder (ASD) and its multi-organ-system co-morbid diseases (e.g., inflammatory bowel disease, asthma, muscular dystrophy, cerebral palsy) and uncover a novel innate immunity connection between them. Second, we develop a new end-to-end computational tool, Carnelian, for robust, alignment-free functional profiling of whole metagenome sequencing reads, that is uniquely suited to finding hidden functional trends across diverse data sets in comparative analysis. Carnelian can find shared metabolic pathways, concordant functional dysbioses, and distinguish microbial metabolic function missed by state-of- the-art functional annotation tools. We demonstrate Carnelian’s effectiveness on large-scale metagenomic studies of type-2 diabetes, Crohn’s disease, Parkinson’s disease, and industrialized versus non-industrialized cohorts.

Download or read book Integrative Omics written by Manish Kumar Gupta and published by Elsevier. This book was released on 2024-05-03 with total page 434 pages. Available in PDF, EPUB and Kindle. Book excerpt: Integrative Omics: Concepts, Methodology and Applications provides a holistic and integrated view of defining and applying network approaches, integrative tools, and methods to solve problems for the rationalization of genotype to phenotype relationships. The reference includes a range of chapters in a systemic 'step by step' manner, which begins with the basic concepts from Omic to Multi Integrative Omics approaches, followed by their full range of approaches, applications, emerging trends, and future trends. All key areas of Omics are covered including biological databases, sequence alignment, pharmacogenomics, nutrigenomics and microbial omics, integrated omics for Food Science and Identification of genes associated with disease, clinical data integration and data warehousing, translational omics as well as omics technology policy and society research. Integrative Omics: Concepts, Methodology and Applications highlights the recent concepts, methodologies, advancements in technologies and is also well-suited for researchers from both academic and industry background, undergraduate and graduate students who are mainly working in the area of computational systems biology, integrative omics and translational science. The book bridges the gap between biological sciences, physical sciences, computer science, statistics, data science, information technology and mathematics by presenting content specifically dedicated to mathematical models of biological systems. - Provides a holistic, integrated view of a defining and applying network approach, integrative tools, and methods to solve problems for rationalization of genotype to phenotype relationships - Offers an interdisciplinary approach to Databases, data analytics techniques, biological tools, network construction, analysis, modeling, prediction and simulation of biological systems leading to 'translational research', i.e., drug discovery, drug target prediction, and precision medicine - Covers worldwide methods, concepts, databases, and tools used in the construction of integrated pathways

Download or read book OMICS written by Debmalya Barh and published by CRC Press. This book was released on 2016-04-19 with total page 609 pages. Available in PDF, EPUB and Kindle. Book excerpt: A reflection of the explosion of research and development in this field, OMICS: Biomedical Perspectives and Applications explores applications of omics in bioinformatics, cancer research and therapy, diabetes research, plant science, molecular biology, and neurosciences. A select editorial panel of experts discusses their cutting edge omics researc

Download or read book Computational Systems Biology written by Andres Kriete and published by Academic Press. This book was released on 2013-11-26 with total page 549 pages. Available in PDF, EPUB and Kindle. Book excerpt: This comprehensively revised second edition of Computational Systems Biology discusses the experimental and theoretical foundations of the function of biological systems at the molecular, cellular or organismal level over temporal and spatial scales, as systems biology advances to provide clinical solutions to complex medical problems. In particular the work focuses on the engineering of biological systems and network modeling. - Logical information flow aids understanding of basic building blocks of life through disease phenotypes - Evolved principles gives insight into underlying organizational principles of biological organizations, and systems processes, governing functions such as adaptation or response patterns - Coverage of technical tools and systems helps researchers to understand and resolve specific systems biology problems using advanced computation - Multi-scale modeling on disparate scales aids researchers understanding of dependencies and constraints of spatio-temporal relationships fundamental to biological organization and function.

Download or read book Microbial Omics in Environment and Health written by Minu Kesheri and published by Springer Nature. This book was released on with total page 427 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Download or read book Extracellular Matrix Omics written by Sylvie Ricard-Blum and published by Springer Nature. This book was released on 2020-12-15 with total page 232 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book covers different omics aspects related to the extracellular matrix (ECM), namely specific omics resources focused on the extracellular matrix (e.g., databases, repositories and atlases), quantitative proteomics applied to specific extracellular matrices (e.g. basement membranes), biological processes such as ECM degradation (degradomics), cell-matrix interactions (adhesomes), signaling pathways, biomarker discovery and diseases, and interactomics (extracellular matrix interaction networks including not only protein-protein but also protein-glycosaminoglycan interactions). The volume also includes recent advances in glycomics and glycobioinformatics applied to proteoglycans and glycosaminoglycans, which are key biological players. The use of omics data to build dynamic models of ECM-regulated biological pathways is addressed, together with the requirement to standardize omic data, which is a prerequisite for the FAIR (Findability, Accessibility, Interoperability, and Reusability) guiding principles for scientific data management. This book will be of great interest to a broad readership from beginners to advanced researchers, who are interested in extracellular matrix omics and will inspire future research topics.

Download or read book OMICS written by Debmalya Barh and published by CRC Press. This book was released on 2013-03-26 with total page 721 pages. Available in PDF, EPUB and Kindle. Book excerpt: With the advent of new technologies and acquired knowledge, the number of fields in omics and their applications in diverse areas are rapidly increasing in the postgenomics era. Such emerging fields—including pharmacogenomics, toxicogenomics, regulomics, spliceomics, metagenomics, and environomics—present budding solutions to combat global challenges in biomedicine, agriculture, and the environment. OMICS: Applications in Biomedical, Agricultural, and Environmental Sciences provides valuable insights into the applications of modern omics technologies to real-world problems in the life sciences. Filling a gap in the literature, it offers a broad, multidisciplinary view of current and emerging applications of omics in a single volume. Written by highly experienced active researchers, each chapter describes a particular area of omics and the associated technologies and applications. Topics covered include: Proteomics, epigenomics, and pharmacogenomics Toxicogenomics and the assessment of environmental pollutants Applications of plant metabolomics Nutrigenomics and its therapeutic applications Microalgal omics and omics approaches in biofuel production Next-generation sequencing and omics technology for transgenic plant analysis Omics approaches in crop improvement Engineering dark-operative chlorophyll synthesis Computational regulomics Omics techniques for the analysis of RNA splicing New fields, including metagenomics, glycomics, and miRNA Breast cancer biomarkers for early detection Environomics strategies for environmental sustainability This timely book explores a wide range of omics application areas in the biomedical, agricultural, and environmental sciences. Throughout, it highlights working solutions as well as open problems and future challenges. Demonstrating the diversity of omics, it introduces readers to state-of-the-art developments and trends in omics-driven research.

Download or read book Networks in Systems Biology written by Fabricio Alves Barbosa da Silva and published by Springer Nature. This book was released on 2020-10-03 with total page 381 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents a range of current research topics in biological network modeling, as well as its application in studies on human hosts, pathogens, and diseases. Systems biology is a rapidly expanding field that involves the study of biological systems through the mathematical modeling and analysis of large volumes of biological data. Gathering contributions from renowned experts in the field, some of the topics discussed in depth here include networks in systems biology, the computational modeling of multidrug-resistant bacteria, and systems biology of cancer. Given its scope, the book is intended for researchers, advanced students, and practitioners of systems biology. The chapters are research-oriented, and present some of the latest findings on their respective topics.

Download or read book Biotechnology and Drug Development for Targeting Human Diseases written by Israel Valencia Quiroz and published by Bentham Science Publishers. This book was released on 2024-03-14 with total page 235 pages. Available in PDF, EPUB and Kindle. Book excerpt: Biotechnology and Drug Development for Targeting Human Diseases is an insightful compendium on drug development technologies for professionals and students in biotechnology and pharmacology. This book meticulously explores the intersection of biotechnology with drug development, emphasizing its crucial role in creating new therapies for human disease. Central to the book is the innovative use of biotechnology in understanding and treating diseases. It begins with an exploration of multi-omics profiles, shedding light on disease mechanisms and drug development. Subsequent chapters explain in silico methods for drug design, the role of natural products in antimicrobial applications and wound healing, and the use of viruses as carriers in biotechnology. Key features of this reference include a blend of theoretical knowledge and practical insights, detailed analyses of molecular docking in drug discovery, the repurposing of drugs for various diseases, and the emerging field of omics technologies in drug interaction studies. Each chapter is comprehensive, offering current information backed by extensive references, making the book both a foundational and advanced resource. Readership Students and professionals in the fields of biotechnology and pharmacology.

Download or read book Multi Omics Approaches to Study Signaling Pathways written by Jyoti Sharma and published by Frontiers Media SA. This book was released on 2020-11-18 with total page 154 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 Omic Network Modules in Complex diseases written by Tejaswi Venkata Satya Badam and published by Linköping University Electronic Press. This book was released on 2021-01-15 with total page 72 pages. Available in PDF, EPUB and Kindle. Book excerpt: Biological systems encompass various molecular entities such as genes, proteins, and other biological molecules, including interactions among those components. Understanding a given phenotype, the functioning of a cell or tissue, aetiology of disease, or cellular organization, requires accurate measurements of the abundance profiles of these molecular entities in the form of biomedical data. The analysis of the interplay between these different entities at various levels represented in the form of biological network provides a mechanistic understanding of the observed phenotype. In order to study this interplay, there is a requirement of a conceptual and intuitive framework which can model multiple omics such as genome, transcriptome, or a proteome. This can be addressed by application of network-based strategies. Translational bioinformatics deals with the development of analytic and interpretive methods to optimize the transformation of different omics and clinical data to understanding of complex diseases and improving human health. Complex diseases such as multiple sclerosis (MS), rheumatoid arthritis (RA), systemic lupus erythematosus (SLE), and non-small cell lung cancer (NSCLC) etc., are hypothesized to be a result of a disturbance in the omic networks rendering the healthy cells to be in a state of malfunction. Even though there are numerous methods to layout the relation of the interactions among omics in complex diseases, the output network modules were not clearly interpreted. In this PhD thesis, we showed how different omic data such as transcriptome and methylome can be mapped to the network of interactions to extract highly interconnected gene sets relevant to the disease, so called disease modules. First, we selected common module identification methods and assembled them into a unified framework of the methods implemented in an Rpackage MODifieR (Paper I). Secondly, we showed that the concept of the network modules can be applied on the whole genome sequencing data for developing a tested model for predicting myelosuppressive toxicity (Paper II). Furthermore, we demonstrated that network modules extracted using the methylome data helped identifying several genes that were associated with pregnancy-induced pathways and were enriched for disease-associated methylation changes that were also shared by three auto-immune and inflammatory diseases, namely MS, RA, and SLE (Paper III). Remarkably, those methylation changes correlated with the expected outcome from clinical experience in those diseases. Last, we benchmarked the omic network modules on 19 different complex diseases using both transcriptomic and methylomic data. This led to the identification of a multi-omic MS module that was highly enriched disease-associated genes identified by genome-wide association studies, but also genes associated with the most common environmental risk factors of MS (Paper IV). The application of the network modules concept on different omics is the centrepiece of the research presented in this PhD thesis. The thesis represents the application of omic network modules in complex diseases and how these modules should be integrated and interpreted. In particular, it aimed to show the importance of networks owing to the incomplete knowledge of the genes dysregulated in complex diseases and the contribution of this thesis that provides tools and benchmarks for the methods as well as insights into how a network module can be extracted and interpreted from the omic data in complex diseases. Biologiska system består av gener, proteiner och andra biologiska molekyler, liksom interaktioner mellan dessa komponenter. Förståelse av en given fenotyp, funktion av en cell eller vävnad, etiologi av sjukdomar eller cellulär organisation kräver exakta mätningar av uttrycksprofilerna för dessa molekyler, vilket ger upphov till enorma mängder av biomedicinska data. Analys av biomedicinska data tillåter oss att förklara viktiga funktioner i interaktionerna som leder till en mekanistisk förståelse av den observerade fenotypen. Samspelet mellan olika komponenter på olika nivåer kan representeras i form av biologiska nätverk, till exempel protein-protein interaktioner (PPI). Nätverk ger en konceptuell och intuitiv ram för att modellera olika komponenter i flera omik-data, såsom transkriptom. De topologiska egenskaperna hos sjukdomsassocierade gener varierar signifikant från sjukdom till sjukdom. Translationell bioinformatik handlar om utveckling av analytiska och tolkningsmetoder för att omvandla omik-data till förståelsen av komplexa sjukdomar. Komplexa sjukdomar som multipel skleros, reumatoid artrit och lungcancer är några av de sjukdomar som antas vara resultat av underliggande störningar i omik nätverken. Även om det finns många metoder för att modellera interaktioner mellan omik-data vid komplexa sjukdomar saknas det fortfarande tydlighet i hur de resulterande nätverksmodulerna ska tolkas. I denna doktorsavhandling visade vi hur olika omik-data som transkriptom och metylom kan användas överlagrat på nätverket av proteininteraktioner och att extrahera tätt sammankopplade nätverksstrukturer av relevans för sjukdom, så kallade sjukdomsmoduler. I den första artikeln gjorde vi ett urval av de mest förekommande metoder för identifiering av sjukdomsmoduler och implementerade dessa i ett R-paket MODifieR, som erbjuder en lättanvänd gemensam struktur för olika metoder, samt möjlighet att kombinera moduler från olika metoder. I den andra artikeln visade vi hur nätverksmodulskoncept kan tillämpas på data från helgenomsekvensering för att utveckla en modell för prediktion av myelosuppressiv toxicitet i icke-småcellig lungcancer. I tredje artikeln demonstrerades ytterligare en framgångsrik tillämning av nätverksmoduler som användes för att identifiera gener som är associerade med biologiska "pathways" samt sjukdomsassocierade metyleringsförändringar relaterade till multipel skleros, reumatoid artrit och systemisk lupus erythematosus, där sjukdomskopplingar till graviditet undersöktes. Sedan utvärderades de omiska nätverksmodulerna på 19 olika komplexa sjukdomar genom att använda både transkriptom och metylom data. Vidare identifierade vi också en multi-omik modul i multipel skleros, med signifikant koppling till sjukdomsriskfaktorer genom att utnyttja genomisk överensstämmelse, dvs att flera omik ska ge höga genöverlapp. Tillämpningen av nätverksmodulerna som ett koncept för att koppla omikdata till sjukdomsmekanismer är kärnan i forskningen som presenteras i denna doktorsavhandling. I synnerhet syftade den till att visa betydelse av hur nätverksomik-koncept kan bidra till kunskap om gener som är dysreglerade vid komplexa sjukdomar för att förstå sjukdomsmekanismer. Denna avhandling ger också verktyg och riktmärken för metoder och insikter i hur en nätverksmodul kan extraheras och tolkas från omik-data vid komplexa sjukdomar.

Download or read book Mitochondrial Dysfunction Caused by Drugs and Environmental Toxicants written by Yvonne Will and published by John Wiley & Sons. This book was released on 2018-03-23 with total page 816 pages. Available in PDF, EPUB and Kindle. Book excerpt: Developed as a one-stop reference source for drug safety and toxicology professionals, this book explains why mitochondrial failure is a crucial step in drug toxicity and how it can be avoided. • Covers both basic science and applied technology / methods • Allows readers to understand the basis of mitochondrial function, the preclinical assessments used, and what they reveal about drug effects • Contains both in vitro and in vivo methods for analysis, including practical screening approaches for drug discovery and development • Adds coverage about mitochondrial toxicity underlying organ injury, clinical reports on drug classes, and discussion of environmental toxicants affecting mitochondria

Download or read book Parkinson s Disease written by Patrik Verstreken and published by Academic Press. This book was released on 2016-12-19 with total page 332 pages. Available in PDF, EPUB and Kindle. Book excerpt: Parkinson's Disease: Molecular Mechanisms Underlying Pathology explores the molecular pathways at the basis of the cellular defects connected to Parkinson's disease, the second most common neurodegenerative disease, and the most common movement disorder. This book presents the latest research on the pathways and mechanisms that have been discovered to play a role in Parkinson's pathology. This focus on mechanisms rather than individual genes allows the contributors to elaborate on overlapping and joint functions of different causative genes. Readers will find descriptions of model systems that present parallels (and differences) between discoveries in different species, demonstrating the importance of multidisciplinary research that spans a broad array of technologies and model organisms. Written from both a cross-methodology and cross-species perspective, the book provides readers with the current state of knowledge on the molecular biology of Parkinson's. - Written by experts in the field that focus on pathways and mechanisms implicated in Parkinson's pathology - Draws parallels between multidisciplinary discoveries in different model organisms using an array of technologies - Provides a cross-methodology and cross-species approach to understanding the molecular biology of Parkinson's disease - Includes approximately 25 color Illustrations and diagrams to explain concepts and models - Focuses on key pathways and mechanisms (as opposed to model organism or gene) to provide a multidisciplinary approach to Parkinson's disease

Download or read book The Charnoly Body written by Sushil Sharma and published by CRC Press. This book was released on 2019-01-30 with total page 388 pages. Available in PDF, EPUB and Kindle. Book excerpt: Diversified physicochemical injuries trigger Charnoly body (CB) formation as pleomorphic, electron-dense, multi-lamellar stacks of nonfunctional mitochondrial membranes in the most vulnerable cell. Free radicals induce downregulation of mitochondrial DNA, microRNA, AgNOR, and epigenetics to trigger CB molecular pathogenesis. CB is eliminated by energy (ATP)-driven lysosome-dependent charnolophagy as a basic molecular mechanism of intracellular detoxification to prevent acute and chronic diseases. Accumulation of CB at the junction of axon hillock and charnolosome (CS) at the synapses causes cognitive impairments; whereas, nonspecific induction of CB causes GIT stress, myelosuppression, alopecia, neurotoxicity, cardiotoxicity, and infertility in multidrug-resistant malignancies. Hence, stem cell-specific CB, charnolophagy, and CS agonists/antagonists are introduced as novel charnolopharmacotherapeutics for the successful treatment of cardiovascular diseases, neurodegenerative diseases, infectious diseases, drug addiction, and cancer. Nanoparticles to improve drug delivery, CS exocytosis, and disease-specific spatiotemporal charnolosomics employing correlative and combinatorial bioinformatics boost mitochondrial bioenergetics through balanced diet, exercise, and antioxidants. The book will be of interest to medical scientists and practitioners.

Download or read book Biological Insights of Multi Omics Technologies in Human Diseases written by Aarif Ali and published by Elsevier. This book was released on 2024-05-23 with total page 420 pages. Available in PDF, EPUB and Kindle. Book excerpt: "Biological Insights of Multi-Omics Technologies in Human Diseases ́ provides detailed information about the basics of multi-omic technologies including ethics, historical perspective, science, drug discovery, and development and metabolism. With a strong focus on the practical application of omics approaches in cancer, cardiovascular, neurology, respiratory, viral, gastroenterology, autoimmune diseases, PCOS and tuberculosis, this book also includes special topics related to COVID-19 and Machine learning approaches. In 13 chapters this book provides comprehensive coverage of the challenges and opportunities facing the therapeutic implications of multi-omics from academic, regulatory, pharmaceutical, socio-ethical, and economic perspectives. The chapters are designed in a well-defined chronology such that readers will intuitively understand the central idea. This book is an ideal resource for health professionals, scientists and researchers, nutritionists, health practitioners, students, and all those who wish to broaden their knowledge in the allied field. • Explains the in-depth role of multi-omics on drug discovery/metabolism, diseases, and highlights progress in both the research and clinical areas of computation, as well as relevant implementation experience and challenges. • Describes the practice of multi-omic technologies in the treatment of several diseases.• Includes practical application and machine learning approaches of multi-omics.