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Author : Filippo Geraci,Indrajit Saha,Monica Bianchini
Publisher : Frontiers Media SA
Page : 169 pages
File Size : 40,8 Mb
Release : 2020-06-08
Category : Electronic
ISBN : 9782889637058
Author : Irina Vlasova-St. Louis
Publisher : BoD – Books on Demand
Page : 144 pages
File Size : 49,5 Mb
Release : 2021-10-13
Category : Science
ISBN : 9781839626869
This book evaluates and comprehensively summarizes the scientific findings that have been achieved through RNA-sequencing (RNA-Seq) technology. RNA-Seq transcriptome profiling of healthy and diseased tissues allows FOR understanding the alterations in cellular phenotypes through the expression of differentially spliced RNA isoforms. Assessment of gene expression by RNA-Seq provides new insight into host response to pathogens, drugs, allergens, and other environmental triggers. RNA-Seq allows us to accurately capture all subtypes of RNA molecules, in any sequenced organism or single-cell type, under different experimental conditions. Merging genomics and transcriptomic profiling provides novel information underlying causative DNA mutations. Combining RNA-Seq with immunoprecipitation and cross-linking techniques is a clever multi-omics strategy assessing transcriptional, post-transcriptional and post-translational levels of gene expression regulation.
Author : Jerzy Kulski
Publisher : BoD – Books on Demand
Page : 466 pages
File Size : 55,9 Mb
Release : 2016-01-14
Category : Medical
ISBN : 9789535122401
Next generation sequencing (NGS) has surpassed the traditional Sanger sequencing method to become the main choice for large-scale, genome-wide sequencing studies with ultra-high-throughput production and a huge reduction in costs. The NGS technologies have had enormous impact on the studies of structural and functional genomics in all the life sciences. In this book, Next Generation Sequencing Advances, Applications and Challenges, the sixteen chapters written by experts cover various aspects of NGS including genomics, transcriptomics and methylomics, the sequencing platforms, and the bioinformatics challenges in processing and analysing huge amounts of sequencing data. Following an overview of the evolution of NGS in the brave new world of omics, the book examines the advances and challenges of NGS applications in basic and applied research on microorganisms, agricultural plants and humans. This book is of value to all who are interested in DNA sequencing and bioinformatics across all fields of the life sciences.
Author : Semih Esin,Giovanna Batoni,Luisa Martinez-Pomares
Publisher : Frontiers Media SA
Page : 134 pages
File Size : 55,5 Mb
Release : 2021-08-02
Category : Medical
ISBN : 9782889711338
Author : Geraldo A. Passos
Publisher : Springer Nature
Page : 473 pages
File Size : 44,5 Mb
Release : 2022-03-07
Category : Science
ISBN : 9783030878214
The study of transcriptomics is key to understanding complex diseases. This new edition will build on the foundation of the first edition while incorporating the progress that has been made in the field of transcriptomics in the past six years, including bioinformatics for data analysis. Written by leading experts, chapters address new subjects such as methodological advances in large-scale sequencing, the sequencing of single-cells, and spatial transcriptomics. The new edition will address how transcriptomics may be used in combination with genetic strategies to identify causative genes in monogenic and complex genetic diseases. Coverage will also explore transcriptomics in challenging groups of diseases, such as cancer, inflammation, bacterial infection, and autoimmune diseases. The updated volume will be useful for geneticists, genome biologists, biomedical researchers, molecular biologists, bioinformaticians, and students, among others.
Author : Fabio Marchi,Priscila Cirillo,Elvis Cueva Mateo
Publisher : BoD – Books on Demand
Page : 330 pages
File Size : 55,7 Mb
Release : 2017-09-13
Category : Medical
ISBN : 9789535135036
The large potential of RNA sequencing and other "omics" techniques has contributed to the production of a huge amount of data pursuing to answer many different questions that surround the science's great unknowns. This book presents an overview about powerful and cost-efficient methods for a comprehensive analysis of RNA-Seq data, introducing and revising advanced concepts in data analysis using the most current algorithms. A holistic view about the entire context where transcriptome is inserted is also discussed here encompassing biological areas with remarkable technological advances in the study of systems biology, from microorganisms to precision medicine.
Author : Lafayette Lafayette Press
Publisher : Unknown
Page : 48 pages
File Size : 46,6 Mb
Release : 2016-01-28
Category : Electronic
ISBN : 1523742747
RNA-sequencing (RNA-seq) has a wide variety of applications, but no single analysis pipeline can be used in all cases. We review all of the major steps in RNA-seq data analysis, including experimental design, quality control, read alignment, quantification of gene and transcript levels, visualization, differential gene expression, alternative splicing, functional analysis, gene fusion detection and eQTL mapping. We highlight the challenges associated with each step. We discuss the analysis of small RNAs and the integration of RNA-seq with other functional genomics techniques. Finally, we discuss the outlook for novel technologies that are changing the state of the art in transcriptomics.
Author : Ion Mandoiu,Alexander Zelikovsky
Publisher : John Wiley & Sons
Page : 464 pages
File Size : 44,9 Mb
Release : 2016-09-12
Category : Computers
ISBN : 9781119272168
Introduces readers to core algorithmic techniques for next-generation sequencing (NGS) data analysis and discusses a wide range of computational techniques and applications This book provides an in-depth survey of some of the recent developments in NGS and discusses mathematical and computational challenges in various application areas of NGS technologies. The 18 chapters featured in this book have been authored by bioinformatics experts and represent the latest work in leading labs actively contributing to the fast-growing field of NGS. The book is divided into four parts: Part I focuses on computing and experimental infrastructure for NGS analysis, including chapters on cloud computing, modular pipelines for metabolic pathway reconstruction, pooling strategies for massive viral sequencing, and high-fidelity sequencing protocols. Part II concentrates on analysis of DNA sequencing data, covering the classic scaffolding problem, detection of genomic variants, including insertions and deletions, and analysis of DNA methylation sequencing data. Part III is devoted to analysis of RNA-seq data. This part discusses algorithms and compares software tools for transcriptome assembly along with methods for detection of alternative splicing and tools for transcriptome quantification and differential expression analysis. Part IV explores computational tools for NGS applications in microbiomics, including a discussion on error correction of NGS reads from viral populations, methods for viral quasispecies reconstruction, and a survey of state-of-the-art methods and future trends in microbiome analysis. Computational Methods for Next Generation Sequencing Data Analysis: Reviews computational techniques such as new combinatorial optimization methods, data structures, high performance computing, machine learning, and inference algorithms Discusses the mathematical and computational challenges in NGS technologies Covers NGS error correction, de novo genome transcriptome assembly, variant detection from NGS reads, and more This text is a reference for biomedical professionals interested in expanding their knowledge of computational techniques for NGS data analysis. The book is also useful for graduate and post-graduate students in bioinformatics.
Author : Susan Carpenter
Publisher : Springer Nature
Page : 189 pages
File Size : 44,9 Mb
Release : 2022-02-27
Category : Science
ISBN : 9783030920340
This book brings together what is currently known in terms of basic research in the field of long noncoding RNAs (lncRNAs) and builds on this to delve more deeply in the specific roles that lncRNAs are playing during inflammation. The book provides readers with basic knowledge on lncRNAs: from understanding the complexity of the transcriptome, conservation, structure and the tools used to investigate these aspects, to how we use this information to study lncRNAs in a specific biological context. The volume covers the emerging roles of lncRNAs in the initial stages of inflammation as well as their roles in specific inflammatory diseases including arthritis, lupus, diabetes and cardiovascular disease. The book also shows the emerging interest in using lncRNAs as a therapeutic target and how this could impact our ability to diagnose and treat inflammatory diseases in the future.
Author : Reena Singh Chopra,Chirag Chopra,Neeta Raj Sharma
Publisher : Springer Nature
Page : 225 pages
File Size : 44,8 Mb
Release : 2020-09-08
Category : Science
ISBN : 9789811565298
This book summarizes the various areas of research in metagenomics and their potential applications in medicine, the environment and biotechnology. The book presents the recent advances in theoretical, methodological and applied aspects of metagenomics and highlights their applications in the fields of environmental microbial forensics, bioremediation, drug-discovery and agriculture. In addition, the book discusses various metagenomics approaches used for understanding the microbial physiology and biochemistry. Lastly the book describes a range of bioinformatics tools and computational methods for metagenomics analysis as well as the functional diversity and dynamics of microbial communities colonizing the human skin.
Author : Jialiang Yang,Liao Bo,Tuo Zhang,Yifei Xu
Publisher : Frontiers Media SA
Page : 136 pages
File Size : 47,5 Mb
Release : 2020-02-27
Category : Electronic
ISBN : 9782889635283
Author : Shashikant Kulkarni,Somak Roy
Publisher : Academic Press
Page : 489 pages
File Size : 55,9 Mb
Release : 2014-11-10
Category : Science
ISBN : 9780124051737
Clinical Genomics provides an overview of the various next-generation sequencing (NGS) technologies that are currently used in clinical diagnostic laboratories. It presents key bioinformatic challenges and the solutions that must be addressed by clinical genomicists and genomic pathologists, such as specific pipelines for identification of the full range of variants that are clinically important. This book is also focused on the challenges of diagnostic interpretation of NGS results in a clinical setting. Its final sections are devoted to the emerging regulatory issues that will govern clinical use of NGS, and reimbursement paradigms that will affect the way in which laboratory professionals get paid for the testing. Simplifies complexities of NGS technologies for rapid education of clinical genomicists and genomic pathologists towards genomic medicine paradigm Tried and tested practice-based analysis for precision diagnosis and treatment plans Specific pipelines and meta-analysis for full range of clinically important variants
Author : Santosh Kumar
Publisher : CRC Press
Page : 483 pages
File Size : 41,6 Mb
Release : 2014-02-14
Category : Science
ISBN : 9781482239072
This title includes a number of Open Access chapters. Advances in information technology and next generation sequencing have propelled the use of bioinformatics in agriculture, especially in the area of crop improvement. An extremely large amount of genomics data is available from plants and animals due to tremendous improvements in the field. This book acquaints readers with state-of-the-art sequencing technologies, recent developments in computing algorithms, and certain biological perspectives that influence development of bioinformatics tools by giving specific examples from model plant species. The challenge is now to make sense and use of this wealth of data.
Author : Eija Korpelainen,Jarno Tuimala,Panu Somervuo,Mikael Huss,Garry Wong
Publisher : CRC Press
Page : 322 pages
File Size : 44,7 Mb
Release : 2014-09-19
Category : Mathematics
ISBN : 9781466595019
The State of the Art in Transcriptome AnalysisRNA sequencing (RNA-seq) data offers unprecedented information about the transcriptome, but harnessing this information with bioinformatics tools is typically a bottleneck. RNA-seq Data Analysis: A Practical Approach enables researchers to examine differential expression at gene, exon, and transcript le
Author : Anonim
Publisher : Elsevier
Page : 730 pages
File Size : 50,8 Mb
Release : 2018-09-22
Category : Science
ISBN : 9780444640451
Data Analysis for Omic Sciences: Methods and Applications, Volume 82, shows how these types of challenging datasets can be analyzed. Examples of applications in real environmental, clinical and food analysis cases help readers disseminate these approaches. Chapters of note include an Introduction to Data Analysis Relevance in the Omics Era, Omics Experimental Design and Data Acquisition, Microarrays Data, Analysis of High-Throughput RNA Sequencing Data, Analysis of High-Throughput DNA Bisulfite Sequencing Data, Data Quality Assessment in Untargeted LC-MS Metabolomic, Data Normalization and Scaling, Metabolomics Data Preprocessing, and more. Presents the best reference book for omics data analysis Provides a review of the latest trends in transcriptomics and metabolomics data analysis tools Includes examples of applications in research fields, such as environmental, biomedical and food analysis