Shotgun metagenomics, from sampling to analysis

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17. Microbial community analysis using high-throughput sequencing technology: a beginner’s guide for microbiologists
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22. Genome-Scale Metabolic Modeling of the Human Microbiome in the Era of Personalized Medicine
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23. Variability and bias in microbiome metagenomic sequencing: an interlaboratory study comparing experimental protocols
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25. Identification of new microbial functional standards for soil quality assessment
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29. A gene catalogue of the Sprague-Dawley rat gut metagenome
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30. The first glimpse of the endometrial microbiota in early pregnancy
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31. Metalign: efficient alignment-based metagenomic profiling via containment min hash
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32. Statistical approaches for differential expression analysis in metatranscriptomics
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33. Next-Generation Food Research: Use of Meta-Omic Approaches for Characterizing Microbial Communities Along the Food Chain
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34. Development of the SeqCode: A proposed nomenclatural code for uncultivated prokaryotes with DNA sequences as type
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36. Detecting viral sequences in NGS data
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37. Investigating Effects of Tulathromycin Metaphylaxis on the Fecal Resistome and Microbiome of Commercial Feedlot Cattle Early in the Feeding Period
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38. Metagenomics in ophthalmology: current findings and future prospectives
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39. Tutorial: assessing metagenomics software with the CAMI benchmarking toolkit
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42. Correlation between the gut microbiome and neurodegenerative diseases: a review of metagenomics evidence
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44. Trophic Status Is Associated With Community Structure and Metabolic Potential of Planktonic Microbiota in Plateau Lakes
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45. The gut virome in inflammatory bowel disease pathogenesis: From metagenomics to novel therapeutic approaches
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47. The Alterations of Vaginal Microbiome in HPV16 Infection as Identified by Shotgun Metagenomic Sequencing
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48. Application of Microbiome in Forensics
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49. Indoor microbiome and allergic diseases: From theoretical advances to prevention strategies
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50. Bioinformatics tools to assess metagenomic data for applied microbiology
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51. Performance of Gut Microbiome as an Independent Diagnostic Tool for 20 Diseases: Cross-Cohort Validation of Machine-Learning Classifiers
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52. Erratum: Corrigendum: Shotgun metagenomics, from sampling to analysis
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56. MicFunPred: A conserved approach to predict functional profiles from 16S rRNA gene sequence data
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57. A cryptic plasmid is among the most numerous genetic elements in the human gut
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59. Microbial single-cell omics: the crux of the matter
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62. Multi-omic profiling reveals associations between the gut mucosal microbiome, the metabolome, and host DNA methylation associated gene expression in patients with colorectal cancer
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63. Host‐derived population genomics data provides insights into bacterial and diatom composition of the killer whale skin
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78. Metagenomic insights into virus removal performance of an algal-based wastewater treatment system utilizing Galdieria sulphuraria
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