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Encyclopedia of Metagenomics : Genes, Genomes and Metagenomes: Basics, Methods, Databases and Tools

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Cover of 'Encyclopedia of Metagenomics : Genes, Genomes and Metagenomes: Basics, Methods, Databases and Tools'

Table of Contents

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    Book Overview
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    Chapter 1 Culturing
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    Chapter 4 MEtaGenome ANalyzer (MEGAN): Metagenomic Expert Resource
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    Chapter 13 Human Oral Microbiome Database (HOMD)
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    Chapter 17 Metagenomics, Metadata, and Meta-analysis
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    Chapter 25 Carbohydrate-Active Enzymes Database, Metagenomic Expert Resource
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    Chapter 26 Challenge of Metagenome Assembly and Possible Standards
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    Chapter 29 AbundanceBin, Metagenomic Sequencing
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    Chapter 54 Mock Community Analysis
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    Chapter 115 Fosmid System
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    Chapter 116 Arbuscular Mycorrhizal Fungi Assemblages in Chernozems
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    Chapter 118 Use of Bacterial Artificial Chromosomes in Metagenomics Studies, Overview
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    Chapter 119 Bacterial Diversity in Tree Canopies of the Atlantic Forest
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    Chapter 122 Biological Treasure Metagenome
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    Chapter 123 Metagenomics Potential for Bioremediation
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    Chapter 132 Extraction Methods, Variability Encountered in
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    Chapter 133 Microbial Ecosystems, Protection of
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    Chapter 146 Integrons as Repositories of Genetic Novelty
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    Chapter 147 IPRStats, Overview
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    Chapter 168 Metagenomes: 23S Sequences
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    Chapter 173 Metagenome of Acidic Hot Spring Microbial Planktonic Community: Structural and Functional Insights
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    Chapter 183 New Method for Comparative Functional Genomics and Metagenomics Using KEGG MODULE
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    Chapter 185 Functional Viral Metagenomics and the Development of New Enzymes for DNA and RNA Amplification and Sequencing
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    Chapter 194 Simultaneous Quantification of Multiple Bacteria
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    Chapter 196 Monitoring Lactic Acid Bacterial Diversity During Shochu Fermentation
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    Chapter 201 Use of Viral Metagenomes from Yellowstone Hot Springs to Study Phylogenetic Relationships and Evolution
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    Chapter 221 Fast Program for Clustering and Comparing Large Sets of Protein or Nucleotide Sequences
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    Chapter 222 FR-HIT Overview
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    Chapter 225 Horizontal Gene Transfer and Bacterial Diversity
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    Chapter 238 METAREP, Overview
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    Chapter 239 Metaxa, Overview
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    Chapter 240 MetaTISA: Metagenomic Gene Start Prediction with
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    Chapter 250 SILVA Databases
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    Chapter 344 Plasmid Capture from Metagenomes
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    Chapter 348 NGS QC Toolkit: A Platform for Quality Control of Next-Generation Sequencing Data
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    Chapter 364 Variable Selection to Improve Classification of Metagenomes
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    Chapter 413 Novel Alkalistable and Thermostable Xylanase-Encoding Gene (Mxyl) Retrieved from Compost-Soil Metagenome
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    Chapter 440 Ab Initio Gene Identification in Metagenomic Sequences
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    Chapter 525 The Vaginal Microbiome in Health and Disease
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    Chapter 562 Environmental Shaping of Codon Usage and Functional Adaptation Across Microbial Communities
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    Chapter 628 Subtractive Hybridization Magnetic Bead Capture: Molecular Technique for Recovery of Full-Length ORFs from Metagenomes
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    Chapter 686 Genome Atlases, Potential Applications in Study of Metagenomes
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    Chapter 689 Bacteriocin Mining in Metagenomes
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    Chapter 690 Proteomics and Metaproteomics
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    Chapter 692 Genome Portal, Joint Genome Institute
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    Chapter 693 Viral Metagenome Annotation Pipeline
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    Chapter 694 KEGG and GenomeNet, New Developments, Metagenomic Analysis
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    Chapter 695 Nucleotide Composition Analysis: Use in Metagenome Analysis
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    Chapter 696 Microbial Diversity, Bar-Coding Approaches
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    Chapter 702 MEMOSys: Platform for Genome-Scale Metabolic Models
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    Chapter 703 antiSMASH
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    Chapter 704 Metagenomic Potential for Understanding Horizontal Gene Transfer
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    Chapter 706 CLUSEAN, Overview
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    Chapter 708 Phylogenetics, Overview
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    Chapter 710 I-rDNA and C16S: Identification and Classification of Ribosomal RNA Gene Fragments
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    Chapter 711 SATe-Enabled Phylogenetic Placement
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    Chapter 713 MRL and SuperFine+MRL
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    Chapter 714 GHOSTM
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    Chapter 715 DACTAL
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    Chapter 716 Lessons Learned from Simulated Metagenomic Datasets
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    Chapter 722 Extended Local Similarity Analysis (eLSA) of Biological Data
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    Chapter 723 Accurate Genome Relative Abundance Estimation Based on Shotgun Metagenomic Reads
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    Chapter 726 A De Novo Metagenomic Assembly Program for Shotgun DNA Reads
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    Chapter 727 Metagenomic by RAPD Profiling
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    Chapter 728 A 123 of Metagenomics
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    Chapter 729 Mining Metagenomic Datasets for Antibiotic Resistance Genes
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    Chapter 732 Novel Approaches to Pathogen Discovery in Metagenomes
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    Chapter 733 Lateral Gene Transfer and Microbial Diversity
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    Chapter 734 Protein-Coding Genes as Alternative Markers in Microbial Diversity Studies
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    Chapter 735 MetaBin
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    Chapter 736 PhyloPythia(S)
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    Chapter 738 Mining Metagenomic Datasets for Cellulases
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    Chapter 739 Computational Approaches for Metagenomic Datasets
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    Chapter 740 All-Species Living Tree Project
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    Chapter 741 Culture Collections in the Study of Microbial Diversity, Importance
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    Chapter 742 MetaBioME
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    Chapter 747 Open Resource Metagenomics
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    Chapter 749 Functional Metagenomics of Human Intestinal Microbiome β-Glucuronidase Activity
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    Chapter 750 Binning Sequences Using Very Sparse Labels Within a Metagenome
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    Chapter 751 Taxonomic Classification of Metagenomic Shotgun Sequences with CARMA3
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    Chapter 752 Human Gut Microbial Genes by Metagenomic Sequencing
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    Chapter 753 Customizable Web Server for Fast Metagenomic Sequence Analysis
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    Chapter 758 Molecular Ecological Network of Microbial Communities
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    Chapter 759 Genome-Based Studies of Marine Microorganisms
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    Chapter 760 GeoChip-Based Metagenomic Technologies for Analyzing Microbial Community Functional Structure and Activities
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    Chapter 761 Integrated Database Resource for Marine Ecological Genomics
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    Chapter 762 New Computational Methodologies to Understand Microbial Diversity
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    Chapter 763 Microbial Ecology in the Age of Metagenomics: An Introduction
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    Chapter 764 tRNA Gene Database Curated Manually by Experts
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    Chapter 766 Metagenomic Research: Methods and Ecological Applications
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    Chapter 768 Diversity and Distribution of Marine Microbial Eukaryotes
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    Chapter 769 Viral Pathogens in Clinical Samples by Use of a Metagenomic Approach
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    Chapter 772 Conserved Regions in 16S Ribosome RNA Sequences and Primer Design for Studies of Environmental Microbes
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    Chapter 773 Functional Metagenomics of Bacterial-Cell Crosstalk
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    Chapter 775 Taxa Counting Using Specific Peptides of Aminoacyl tRNA Synthetases
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    Chapter 777 Metagenomic Analysis of Bile Salt Hydrolases in the Human Gut Microbiome
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    Chapter 779 Insights into Environmental Microbial Denitrification from Integrated Metagenomic, Cultivation, and Genomic Analyses
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    Chapter 780 STAMP: Statistical Analysis of Metagenomic Profiles
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    Chapter 784 RITA: Rapid Identification of High-Confidence Taxonomic Assignments for Metagenomic Data
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    Chapter 785 FragGeneScan: Predicting Genes in Short and Error-Prone Reads
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    Chapter 787 Next-Generation Sequencing for Metagenomic Data: Assembling and Binning
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    Chapter 790 Approaches in Metagenome Research: Progress and Challenges
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    Chapter 791 Evaluating Putative Chimeric Sequences from PCR-Amplified Products
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    Chapter 792 Host-Virus Interaction: From Metagenomics to Single-Cell Genomics
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    Chapter 794 Extradiol Dioxygenases Retrieved from the Metagenome
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    Chapter 799 DNA Methylation Analysis by Pyrosequencing
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    Chapter 802 Krona: Interactive Metagenomic Visualization in a Web Browser
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    Chapter 806 Serial Analysis of V1 Ribosomal Sequence Tags
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    Chapter 807 MetaRank: Ranking Microbial Taxonomic Units or Functional Groups for Comparative Analysis of Metagenomes
Overall attention for this book and its chapters
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Title
Encyclopedia of Metagenomics : Genes, Genomes and Metagenomes: Basics, Methods, Databases and Tools
Published by
Springer US, January 2015
DOI 10.1007/978-1-4899-7478-5
ISBNs
978-1-4899-7477-8, 978-1-4899-7478-5, 978-1-4899-7479-2
Editors

Karen E. Nelson

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Mendeley readers

The data shown below were compiled from readership statistics for 197 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United Kingdom 3 2%
United States 2 1%
India 1 <1%
Germany 1 <1%
Unknown 190 96%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 53 27%
Researcher 34 17%
Student > Master 26 13%
Student > Doctoral Student 20 10%
Student > Bachelor 15 8%
Other 18 9%
Unknown 31 16%
Readers by discipline Count As %
Agricultural and Biological Sciences 62 31%
Biochemistry, Genetics and Molecular Biology 31 16%
Immunology and Microbiology 14 7%
Environmental Science 14 7%
Unspecified 7 4%
Other 28 14%
Unknown 41 21%