Comparing Apples and Oranges?: Next Generation Sequencing and Its Impact on Microbiome Analysis

Cited by (272)

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  40. Peer Review #1 of "Evaluating whole-genome sequencing quality metrics for enteric pathogen outbreaks (v0.2)"
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  43. Comparison of Microbiota in the Upper Versus Lower Respiratory Tract in Children During Health and Respiratory Disease: a Protocol for a Systematic Review
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  49. Additional file 3 of Absence of changes in the milk microbiota during Escherichia coli endotoxin induced experimental bovine mastitis
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  52. A mathematical framework to correct for compositionality in microbiome datasets
    Samuel P. Forry, Stephanie L. Servetas, Jason G. Kralj, Monique E. Hunter, Jennifer N. Dootz, Scott A. Jackson · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
  53. Investigating the interplay of indoor microbial diversity with pollutant variables and human health profile in Indian slums: a metagenomic approach
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  54. Additional file 7 of BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons
    Christophe Djemiel, Samuel S. Dequiedt, Battle Karimi, Aurélien Cottin, Thibault Girier, El Djoudi, Yassin, Wincker, Patrick, Mélanie Lelièvre, Samuel Mondy, Nicolas Chemidlin Prévost‐Bouré et al. · 2020 · Figshare
  55. Additional file 4 of BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons
    Christophe Djemiel, Samuel S. Dequiedt, Battle Karimi, Aurélien Cottin, Thibault Girier, El Djoudi, Yassin, Wincker, Patrick, Mélanie Lelièvre, Samuel Mondy, Nicolas Chemidlin Prévost‐Bouré et al. · 2020 · Figshare
  56. Additional file 5 of BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons
    Christophe Djemiel, Samuel S. Dequiedt, Battle Karimi, Aurélien Cottin, Thibault Girier, El Djoudi, Yassin, Wincker, Patrick, Mélanie Lelièvre, Samuel Mondy, Nicolas Chemidlin Prévost‐Bouré et al. · 2020 · Figshare
  57. Additional file of Validation and standardization of DNA extraction and library construction methods for metagenomics-based human fecal microbiome measurements
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  58. Additional file 1 of BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons
    Christophe Djemiel, Samuel S. Dequiedt, Battle Karimi, Aurélien Cottin, Thibault Girier, El Djoudi, Yassin, Patrick Wincker, Mélanie Lelièvre, Samuel Mondy, Nicolas Chemidlin Prévost‐Bouré et al. · 2020 · Figshare
  59. Additional file 1 of Validation and standardization of DNA extraction and library construction methods for metagenomics-based human fecal microbiome measurements
    Dieter M. Tourlousse, Koji Narita, Takamasa Miura, Mitsuo Sakamoto, Akiko Ohashi, Keita Shiina, Matsuda, Masami, Daisuke Miura, Mamiko Shimamura, Yoshifumi Ohyama et al. · 2021 · Figshare
  60. Additional file 8 of BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons
    Christophe Djemiel, Samuel S. Dequiedt, Battle Karimi, Aurélien Cottin, Thibault Girier, El Djoudi, Yassin, Wincker, Patrick, Mélanie Lelièvre, Samuel Mondy, Nicolas Chemidlin Prévost‐Bouré et al. · 2020 · Figshare
  61. Additional file 2 of Absence of changes in the milk microbiota during Escherichia coli endotoxin induced experimental bovine mastitis
    Josef Dahlberg, Johnzon, Carl-Fredrik, Sun, Li, Gunnar Pejler, Karin Östensson, Johan Dicksved · 2023 · Figshare
  62. Additional file 2 of BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons
    Christophe Djemiel, Samuel S. Dequiedt, Battle Karimi, Aurélien Cottin, Thibault Girier, El Djoudi, Yassin, Patrick Wincker, Mélanie Lelièvre, Samuel Mondy, Nicolas Chemidlin Prévost‐Bouré et al. · 2020 · Figshare
  63. Additional file 1 of Absence of changes in the milk microbiota during Escherichia coli endotoxin induced experimental bovine mastitis
    Josef Dahlberg, Johnzon, Carl-Fredrik, Sun, Li, Gunnar Pejler, Karin Östensson, Johan Dicksved · 2023 · Figshare
  64. Additional file 6 of BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons
    Christophe Djemiel, Samuel S. Dequiedt, Battle Karimi, Aurélien Cottin, Thibault Girier, El Djoudi, Yassin, Wincker, Patrick, Mélanie Lelièvre, Samuel Mondy, Nicolas Chemidlin Prévost‐Bouré et al. · 2020 · Figshare
  65. Additional file 3 of BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons
    Christophe Djemiel, Samuel S. Dequiedt, Battle Karimi, Aurélien Cottin, Thibault Girier, El Djoudi, Yassin, Wincker, Patrick, Mélanie Lelièvre, Samuel Mondy, Nicolas Chemidlin Prévost‐Bouré et al. · 2020 · Figshare
  66. Additional file 1 of Succession and determinants of the early life nasopharyngeal microbiota in a South African birth cohort
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