ArticleGenes2020
The Influences of Bioinformatics Tools and Reference Databases in Analyzing the Human Oral Microbial Community.
Article in Genes, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers, 3 of them syntheses that pooled it.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
34 citing papers in PubMed, 3 syntheses or guidelines pooled it.
- Impact of Electronic Cigarette Use on the Oral Microbiota: A Systematic Review.Journal of clinical periodontology · 2026Pooled it
- Microbiota composition effect on immunotherapy outcomes in colorectal cancer patients: A systematic review.PloS one · 2024Pooled it
- Gut Microbiome Composition in Obese and Non-Obese Persons: A Systematic Review and Meta-Analysis.Nutrients · 2021Pooled it
- Reference Database Selection Influences Both Taxonomic Annotation and Ecological Inference in Arbuscular Mycorrhizal Fungal Communities.Journal of fungi (Basel, Switzerland) · 2026Article
- A comparative analysis of gut microbiome in dogs using short- and long-reads of 16S rRNA sequences reveals workflow-dependent biases.Veterinary research communications · 2026Article
- Dissecting the effect of single- and co-infection of TB and COVID-19 pathogens on the sputum microbiome.Microbiology spectrum · 2026Article
- Unraveling the diagnostic and prognostic signatures of oral microbiota in head and neck cancer.BMC biology · 2026Article
- Towards standardization in pig microbiome research based on a comprehensive twenty-year review.Animal microbiome · 2026Review
- 16S rRNA metabarcoding applied to the microbiome of insect products (novel food): a comparative analysis of three reference databases.Italian journal of food safety · 2025Article
- Exploring gut microbiota and its predicted functions in pulmonary tuberculosis: A multi-regional study using public 16S datasets.PloS one · 2025Article
- Glyphosate-microbial interactions: metagenomic insights and future directions.Frontiers in microbiology · 2025Review
- Advances in single-cell sequencing technology in microbiome research.Genes & diseases · 2024Review
- Full-length 16S rRNA gene sequencing by PacBio improves taxonomic resolution in human microbiome samples.BMC genomics · 2024Article
- Optimizing microbiome reference databases with PacBio full-length 16S rRNA sequencing for enhanced taxonomic classification and biomarker discovery.Frontiers in microbiology · 2024Article
- Article
- Comparative study of multiple approaches for identifying cultivable microalgae population diversity from freshwater samples.PloS one · 2023Article
- The microbial community associated with Parascaris spp. infecting juvenile horses.Parasites & vectors · 2022Article
- Bringing pharmacomicrobiomics to the clinic through well-designed studies.Clinical and translational science · 2022Article
- Differences in Supragingival Microbiome in Patients with and without Full-Crown Prostheses.Dentistry journal · 2022Article
- Child type 1 diabetes associated with mother vaginal bacteriome and mycobiome.Medical microbiology and immunology · 2022Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
12 authors.
Funding
Abstract
There is currently no criterion to select appropriate bioinformatics tools and reference databases for analysis of 16S rRNA amplicon data in the human oral microbiome. Our study aims to determine the influence of multiple tools and reference databases on α-diversity measurements and β-diversity comparisons analyzing the human oral microbiome. We compared the results of taxonomical classification by Greengenes, the Human Oral Microbiome Database (HOMD), National Center for Biotechnology Information (NCBI) 16S, SILVA, and the Ribosomal Database Project (RDP) using Quantitative Insights Into Microbial Ecology (QIIME) and the Divisive Amplicon Denoising Algorithm (DADA2). There were 15 phyla present in all of the analyses, four phyla exclusive to certain databases, and different numbers of genera were identified in each database. Common genera found in the oral microbiome, such as
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.