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Bioinformatics Analysis Of Single Cell Sequencing And Multi Omics In The Aging And Age Associated Diseases
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Book Synopsis Bioinformatics analysis of single cell sequencing and multi-omics in the aging and age-associated diseases by : Shouneng Peng
Download or read book Bioinformatics analysis of single cell sequencing and multi-omics in the aging and age-associated diseases written by Shouneng Peng and published by Frontiers Media SA. This book was released on 2024-03-13 with total page 139 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Bioinformatics Analysis of Single Cell Sequencing Data and Applications in Precision Medicine by : Jialiang Yang
Download or read book Bioinformatics Analysis of Single Cell Sequencing Data and Applications in Precision Medicine written by Jialiang Yang and published by Frontiers Media SA. This book was released on 2020-02-27 with total page 136 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Bioinformatics Methods by : Shili Lin
Download or read book Bioinformatics Methods written by Shili Lin and published by CRC Press. This book was released on 2022-09-16 with total page 351 pages. Available in PDF, EPUB and Kindle. Book excerpt: The past three decades have witnessed an explosion of what is now referred to as high-dimensional `omics' data. Bioinformatics Methods: From Omics to Next Generation Sequencing describes the statistical methods and analytic frameworks that are best equipped to interpret these complex data and how they apply to health-related research. Covering the technologies that generate data, subtleties of various data types, and statistical underpinnings of methods, this book identifies a suite of potential analytic tools, and highlights commonalities among statistical methods that have been developed. An ideal reference for biostatisticians and data analysts that work in collaboration with scientists and clinical investigators looking to ensure rigorous application of available methodologies. Key Features: Survey of a variety of omics data types and their unique features Summary of statistical underpinnings for widely used omics data analysis methods Description of software resources for performing omics data analyses
Book Synopsis Single Cell Sequencing and Systems Immunology by : Xiangdong Wang
Download or read book Single Cell Sequencing and Systems Immunology written by Xiangdong Wang and published by Springer. This book was released on 2015-03-27 with total page 184 pages. Available in PDF, EPUB and Kindle. Book excerpt: The volume focuses on the genomics, proteomics, metabolomics, and bioinformatics of a single cell, especially lymphocytes and on understanding the molecular mechanisms of systems immunology. Based on the author’s personal experience, it provides revealing insights into the potential applications, significance, workflow, comparison, future perspectives and challenges of single-cell sequencing for identifying and developing disease-specific biomarkers in order to understand the biological function, activation and dysfunction of single cells and lymphocytes and to explore their functional roles and responses to therapies. It also provides detailed information on individual subgroups of lymphocytes, including cell characters, function, surface markers, receptor function, intracellular signals and pathways, production of inflammatory mediators, nuclear receptors and factors, omics, sequencing, disease-specific biomarkers, bioinformatics, networks and dynamic networks, their role in disease and future prospects. Dr. Xiangdong Wang is a Professor of Medicine, Director of Shanghai Institute of Clinical Bioinformatics, Director of Fudan University Center for Clinical Bioinformatics, Director of the Biomedical Research Center of Zhongshan Hospital, Deputy Director of Shanghai Respiratory Research Institute, Shanghai, China.
Book Synopsis Systems Analytics and Integration of Big Omics Data by : Gary Hardiman
Download or read book Systems Analytics and Integration of Big Omics Data written by Gary Hardiman and published by MDPI. This book was released on 2020-04-15 with total page 202 pages. Available in PDF, EPUB and Kindle. Book excerpt: A “genotype" is essentially an organism's full hereditary information which is obtained from its parents. A "phenotype" is an organism's actual observed physical and behavioral properties. These may include traits such as morphology, size, height, eye color, metabolism, etc. One of the pressing challenges in computational and systems biology is genotype-to-phenotype prediction. This is challenging given the amount of data generated by modern Omics technologies. This “Big Data” is so large and complex that traditional data processing applications are not up to the task. Challenges arise in collection, analysis, mining, sharing, transfer, visualization, archiving, and integration of these data. In this Special Issue, there is a focus on the systems-level analysis of Omics data, recent developments in gene ontology annotation, and advances in biological pathways and network biology. The integration of Omics data with clinical and biomedical data using machine learning is explored. This Special Issue covers new methodologies in the context of gene–environment interactions, tissue-specific gene expression, and how external factors or host genetics impact the microbiome.
Book Synopsis Integrative analysis of single-cell and/or bulk multi-omics sequencing data by : Geng Chen
Download or read book Integrative analysis of single-cell and/or bulk multi-omics sequencing data written by Geng Chen and published by Frontiers Media SA. This book was released on 2023-03-13 with total page 189 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Multi-omic Data Integration by : Paolo Tieri
Download or read book Multi-omic Data Integration written by Paolo Tieri and published by Frontiers Media SA. This book was released on 2015-09-17 with total page 137 pages. Available in PDF, EPUB and Kindle. Book excerpt: Stable, predictive biomarkers and interpretable disease signatures are seen as a significant step towards personalized medicine. In this perspective, integration of multi-omic data coming from genomics, transcriptomics, glycomics, proteomics, metabolomics is a powerful strategy to reconstruct and analyse complex multi-dimensional interactions, enabling deeper mechanistic and medical insight. At the same time, there is a rising concern that much of such different omic data –although often publicly and freely available- lie in databases and repositories underutilised or not used at all. Issues coming from lack of standardisation and shared biological identities are also well-known. From these considerations, a novel, pressing request arises from the life sciences to design methodologies and approaches that allow for these data to be interpreted as a whole, i.e. as intertwined molecular signatures containing genes, proteins, mRNAs and miRNAs, able to capture inter-layers connections and complexity. Papers discuss data integration approaches and methods of several types and extents, their application in understanding the pathogenesis of specific diseases or in identifying candidate biomarkers to exploit the full benefit of multi-omic datasets and their intrinsic information content. Topics of interest include, but are not limited to: • Methods for the integration of layered data, including, but not limited to, genomics, transcriptomics, glycomics, proteomics, metabolomics; • Application of multi-omic data integration approaches for diagnostic biomarker discovery in any field of the life sciences; • Innovative approaches for the analysis and the visualization of multi-omic datasets; • Methods and applications for systematic measurements from single/undivided samples (comprising genomic, transcriptomic, proteomic, metabolomic measurements, among others); • Multi-scale approaches for integrated dynamic modelling and simulation; • Implementation of applications, computational resources and repositories devoted to data integration including, but not limited to, data warehousing, database federation, semantic integration, service-oriented and/or wiki integration; • Issues related to the definition and implementation of standards, shared identities and semantics, with particular focus on the integration problem. Research papers, reviews and short communications on all topics related to the above issues were welcomed.
Book Synopsis Bioinformatics Analysis of Omics Data for Biomarker Identification in Clinical Research by : Lixin Cheng
Download or read book Bioinformatics Analysis of Omics Data for Biomarker Identification in Clinical Research written by Lixin Cheng and published by Frontiers Media SA. This book was released on 2022-01-10 with total page 574 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Single-cell Sequencing and Methylation by : Buwei Yu
Download or read book Single-cell Sequencing and Methylation written by Buwei Yu and published by Springer Nature. This book was released on 2020-09-19 with total page 247 pages. Available in PDF, EPUB and Kindle. Book excerpt: With the rapid development of biotechnologies, single-cell sequencing has become an important tool for understanding the molecular mechanisms of diseases, defining cellular heterogeneities and characteristics, and identifying intercellular communications and single-cell-based biomarkers. Providing a clear overview of the clinical applications, the book presents state-of-the-art information on immune cell function, cancer progression, infection, and inflammation gained from single-cell DNA or RNA sequencing. Furthermore, it explores the role of target gene methylation in the pathogenesis of diseases, with a focus on respiratory cancer, infection and chronic diseases. As such it is a valuable resource for clinical researchers and physicians, allowing them to refresh their knowledge and improve early diagnosis and therapy for patients.
Book Synopsis Artificial Intelligence and Bioinformatics Applications for Omics and Multi-Omics Studies by : Angelo Facchiano
Download or read book Artificial Intelligence and Bioinformatics Applications for Omics and Multi-Omics Studies written by Angelo Facchiano and published by Frontiers Media SA. This book was released on 2024-02-07 with total page 160 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Advances in methods and tools for multi-omics data analysis by : Ornella Cominetti
Download or read book Advances in methods and tools for multi-omics data analysis written by Ornella Cominetti and published by Frontiers Media SA. This book was released on 2023-05-12 with total page 184 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Single Molecule and Single Cell Sequencing by : Yutaka Suzuki
Download or read book Single Molecule and Single Cell Sequencing written by Yutaka Suzuki and published by Springer. This book was released on 2019-04-09 with total page 150 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents an overview of the recent technologies in single molecule and single cell sequencing. These sequencing technologies are revolutionizing the way of the genomic studies and the understanding of complex biological systems. The PacBio sequencer has enabled extremely long-read sequencing and the MinION sequencer has made the sequencing possible in developing countries. New developments and technologies are constantly emerging, which will further expand sequencing applications. In parallel, single cell sequencing technologies are rapidly becoming a popular platform. This volume presents not only an updated overview of these technologies, but also of the related developments in bioinformatics. Without powerful bioinformatics software, where rapid progress is taking place, these new technologies will not realize their full potential. All the contributors to this volume have been involved in the development of these technologies and software and have also made significant progress on their applications. This book is intended to be of interest to a wide audience ranging from genome researchers to basic molecular biologists and clinicians.
Book Synopsis Methodologies of Multi-Omics Data Integration and Data Mining by : Kang Ning
Download or read book Methodologies of Multi-Omics Data Integration and Data Mining written by Kang Ning and published by Springer. This book was released on 2024-01-16 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book features multi-omics big-data integration and data-mining techniques. In the omics age, paramount of multi-omics data from various sources is the new challenge we are facing, but it also provides clues for several biomedical or clinical applications. This book focuses on data integration and data mining methods for multi-omics research, which explains in detail and with supportive examples the “What”, “Why” and “How” of the topic. The contents are organized into eight chapters, out of which one is for the introduction, followed by four chapters dedicated for omics integration techniques focusing on several omics data resources and data-mining methods, and three chapters dedicated for applications of multi-omics analyses with application being demonstrated by several data mining methods. This book is an attempt to bridge the gap between the biomedical multi-omics big data and the data-mining techniques for the best practice of contemporary bioinformatics and the in-depth insights for the biomedical questions. It would be of interests for the researchers and practitioners who want to conduct the multi-omics studies in cancer, inflammation disease, and microbiome researches.
Book Synopsis Single Cell Transcriptomics by : Raffaele A. Calogero
Download or read book Single Cell Transcriptomics written by Raffaele A. Calogero and published by Springer Nature. This book was released on 2022-12-10 with total page 394 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume provides up-to-date methods on single cell wet and bioinformatics protocols based on the researcher experiment requirements. Chapters detail basic analytical procedures, single-cell data QC, dimensionality reduction, clustering, cluster-specific features selection, RNA velocity, multi-modal data integration, and single cell RNA editing. 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. Cutting-edge and comprehensive, Single Cell Transcriptomics: Methods and Protocols aims to be a valuable resource for all researchers interested in learning more about this important and developing field.
Book Synopsis Big Data in Omics and Imaging by : Momiao Xiong
Download or read book Big Data in Omics and Imaging written by Momiao Xiong and published by CRC Press. This book was released on 2017-12-01 with total page 668 pages. Available in PDF, EPUB and Kindle. Book excerpt: Big Data in Omics and Imaging: Association Analysis addresses the recent development of association analysis and machine learning for both population and family genomic data in sequencing era. It is unique in that it presents both hypothesis testing and a data mining approach to holistically dissecting the genetic structure of complex traits and to designing efficient strategies for precision medicine. The general frameworks for association analysis and machine learning, developed in the text, can be applied to genomic, epigenomic and imaging data. FEATURES Bridges the gap between the traditional statistical methods and computational tools for small genetic and epigenetic data analysis and the modern advanced statistical methods for big data Provides tools for high dimensional data reduction Discusses searching algorithms for model and variable selection including randomization algorithms, Proximal methods and matrix subset selection Provides real-world examples and case studies Will have an accompanying website with R code The book is designed for graduate students and researchers in genomics, bioinformatics, and data science. It represents the paradigm shift of genetic studies of complex diseases– from shallow to deep genomic analysis, from low-dimensional to high dimensional, multivariate to functional data analysis with next-generation sequencing (NGS) data, and from homogeneous populations to heterogeneous population and pedigree data analysis. Topics covered are: advanced matrix theory, convex optimization algorithms, generalized low rank models, functional data analysis techniques, deep learning principle and machine learning methods for modern association, interaction, pathway and network analysis of rare and common variants, biomarker identification, disease risk and drug response prediction.
Book Synopsis Omics Data Integration towards Mining of Phenotype Specific Biomarkers in Cancers and Diseases by : Liang Cheng
Download or read book Omics Data Integration towards Mining of Phenotype Specific Biomarkers in Cancers and Diseases written by Liang Cheng and published by Frontiers Media SA. This book was released on 2022-02-16 with total page 769 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Translational Bioinformatics in Heritable Cancer Susceptibility Diseases by :
Download or read book Translational Bioinformatics in Heritable Cancer Susceptibility Diseases written by and published by . This book was released on 2023 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Hereditary cancers, characterized by genetic anomalies like gene mutations that elevate cancer susceptibility, pose unique challenges. This thesis focuses on two such conditions: Fanconi anemia and retinoblastoma, each with distinct genetic causes and medical complexities. Fanconi anemia follows a Mendelian recessive pattern due to mutations in 23 identified genes in the Fanconi anemia DNA repair pathway. In contrast, retinoblastoma, the most common childhood eye cancer, primarily stems from RB1 tumor suppressor gene mutations. Fanconi anemia patients face an elevated risk of head and neck cancer due to DNA repair defects, necessitating alternative treatments. In retinoblastoma, germline RB1 mutations can lead to second primary malignancies. The unique nature of each disease presents specific medical and research challenges. Current Fanconi anemia research priorities include safer head and neck cancer therapies and understanding molecular mechanisms compensating for DNA repair deficiency. In retinoblastoma, research explores tumor subtype classification, biopsy-based assessments, and early second primary malignancy detection. Bioinformatics, bridging biology, computer science, and statistics, plays a crucial role in generating, processing, and analyzing OMICs data. This thesis employs various genomic bioinformatic approaches to study hereditary cancer susceptibility diseases, specifically Fanconi anemia and retinoblastoma. Chapter 2 identifies potential cancer vulnerability targets in FA-HNSCC cells with 11q22 amplifications through integrated genomics analysis. BIRC2-BIRC3 genes appear as promising therapeutic targets, as they regulate cell survival and death. Chapter 3 uses multi-OMICs analysis to identify gene signatures related to hypermethylation, differentiating MYCN-high RB1-proficient retinoblastomas. These signatures are functionally associated with various biological processes. Chapter 4 confirms radiogenomics findings by correlating MRI features with gene expression data in retinoblastoma cohorts. Significant associations between MRI features and photoreceptorness-expression signature are verified, indicating the applicability of radiogenomics in diagnostics. Chapter 5 conducts a whole-genome siRNA screen in FA-HNSCC cells, identifying RBBP9 as an essential gene with potential targetable vulnerability. Targeted therapies hold promise for the treatment of FA-HNSCCs. Chapter 6 characterizes structural variations and transcriptomic components related to ICL resistance in FA-deficient lymphocytic cell lines. The research highlights the complex dynamics of adaptation to DNA cross-linkers in FA-deficient cells. In summary, chapters 2-6 showcase translational bioinformatics approaches to address research challenges in hereditary cancer susceptibility diseases. Artificial intelligence methodologies and publicly available data play key roles in shaping the future of translational bioinformatics, offering hope for improved care for patients affected by rare cancers when combined with both wet-lab and dry-lab techniques and data sharing efforts.
