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Bioinformatics and data analysis in microbiology /
This book provides invaluable, up-to-date and detailed information on various aspects of bioinformatics data analysis with applications to microbiology. It describes a number of different useful bioinformatics tools, makes links to some wet-lab techniques, explains different approaches to tackle a p...
| Clasificación: | Libro Electrónico |
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| Otros Autores: | |
| Formato: | Electrónico eBook |
| Idioma: | Inglés |
| Publicado: |
Norfolk, UK :
Caister Academic Press,
[2014]
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| Temas: | |
| Acceso en línea: | Texto completo |
Tabla de Contenidos:
- Contributors; Preface; 1: Understanding the Unseen Majority Around Us: An Overview of Microbiological Technologies; Introduction; What is a microorganism?; Microbes in the world around us
- the unseen majority; Microorganisms and climate change; The impact of microorganisms in industry; Assessing microbial populations; DNA sequence determination; Bioinformatics analysis of sequence data; Application of molecular approaches to the study of microorganisms; Challenges in the field; Concluding remarks; 2: Prokaryotic Genome Sequencing and Assembly; Introduction; Sequencing technologies
- Sequence assemblyChoosing a sequencing and assembly strategy; Conclusions; 3: Genome-wide Variant Discovery Using Sequence Assembly, Mapping and Population-wide Analysis; Background; Microbial genetic variation and genome sequencing; Horizontally inherited DNA and genome sequencing; Alternative genotyping approaches; Genome assembly: methods, tools and improvement; Mapping and filtering DNA reads; Variant discovery using mapped reads; Detecting population-wide variation from mapped DNA reads; Genome-wide data analysis and future trends; Conclusions; 4: Prokaryotic Genome Annotation
- IntroductionGenome annotation; Automated annotation pipelines; Future trends; Conclusions; 5: Comparative Analysis of Microbial Pathogen Genomes to Study Unique Gene Families; Introduction; In silico comparative genomics applications in microbiology; Applications of comparative genomics to the study of Mycobacterium tuberculosis; Conclusions; Future trends; 6: Microbial Community Profiling: Current Approaches and Future Trends; Introduction; Genetic fingerprinting techniques; Data analysis; Unresolved questions and future trends; 7: Metagenomics and Microbiomes; Introduction
- Experimental design considerationsMarker gene experiments; Whole genome shotgun sequencing experiments; Metagenomic analyses of samples, genomic features, and metadata; Computational resources; Outlook; 8: Human Microbiome Analysis via the 16s rRNA Gene; Introduction; Microbiome exploration via whole genome shotgun and 16S sequencing; Low-resolution community profiling methods; Next-generation sequencing platform considerations; Potential sources of error and preprocessing; Chimera detection; Taxonomy assignment; Statistical analysis; Conclusion; 9: Phylogenetic Microarrays; Introduction
- Current phylogenetic microarraysOptimization of phylogenetic microarrays; Phylogenetic microarray applications; Future trends and outlook; 10: Genetic Barcoding of Bacteria and its Microbiology and Biotechnology Applications; The history of barcoding of microorganisms; 16S ribosomal RNA sequence
- a universal barcode of bacterial species; Multilocus sequence typing; DNA barcoding and next generation sequencing; Genetic barcoding in biotechnology; Conclusion; Index