ArticleThe ISME journal2010
Fast UniFrac: facilitating high-throughput phylogenetic analyses of microbial communities including analysis of pyrosequencing and PhyloChip data.
Article in The ISME journal, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 534 papers, 1 of them a synthesis 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
534 citing papers in PubMed, 1 synthesis or guideline pooled it, 1,118 citations in OpenAlex.
- Pooled it
- An Extensively Hydrolyzed Formula Supplemented with Two Human Milk Oligosaccharides Modifies the Fecal Microbiome and Metabolome in Infants with Cow's Milk Protein Allergy.International journal of molecular sciences · 2023Trial
- Trial
- Megascale microbiome analysis with DartUniFrac.Nature biotechnology · 2026Article
- Effect of Protein Supplementation on the Gut Microbiome of Omnivorous and Herbivorous Goliath Beetles.Insects · 2026Article
- Diverse Microbial Communities Assemble on Both Recalcitrant and Labile Carbon Sources.Environmental microbiology · 2026Article
- Diet-vaccine interactions: SQM Iron andApplied and environmental microbiology · 2026Article
- Fine-Gradient Low-Molecular-Weight Hyaluronic Acid Supplementation Modulates Gut Microbial Profiles and SCFA Output in a Starch-Containing In Vitro Fecal Fermentation Model.Microorganisms · 2026Article
- Association between red biofluorescence and microbial dysbiosis in cariogenic biofilms: an in vitro study.Scientific reports · 2026Article
- Surfactin from Bacillus subtilis 1-4 disrupts the cell membrane of zoonotic Staphylococcus intermedius in vitro and maintains gut microbiota community in urban pigeons.Gut pathogens · 2026Article
- Reactive oxygen species in the rhizosphere orchestrate the recruitment of beneficial bacteria.The EMBO journal · 2026Article
- Effects of cigarette smoking on the oral microbiome in adolescents.Scientific reports · 2026Article
- Microbiota and mycobiota in chronic inflammatory demyelinating polyneuropathy: clinical and pathophysiological correlations.Frontiers in molecular neuroscience · 2026Article
- Characterization of the gut microbiome of wildFrontiers in microbiomes · 2026Article
- Alterations in the Gut Microbiome in Ankylosing Spondylitis and Their Correlation with Disease Activity.Journal of microbiology and biotechnology · 2025Article
- Vaccine Platform-Dependent Differential Impact on Microbiome Diversity: Potential Advantages of Protein Subunit Vaccines.Vaccines · 2025Article
- Characterization of Gut Microbiota of Honey Bees in Korea.Polish journal of microbiology · 2025Article
- A synthetic microbial community derived from healthy apple rhizosphere alleviates apple replant disease.Horticulture research · 2025Article
- The Gut Microbiota of Peruvian Children Under the Age of Two During the Complementary Feeding Period.International journal of environmental research and public health · 2025Article
- Organic farming significantly improves microbial community structure, network complexity, and functional diversity in the Gannan navel orange orchard.BMC microbiology · 2025Article
474 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 2 institutions in 1 country.
Funding
Abstract
Next-generation sequencing techniques, and PhyloChip, have made simultaneous phylogenetic analyses of hundreds of microbial communities possible. Insight into community structure has been limited by the inability to integrate and visualize such vast datasets. Fast UniFrac overcomes these issues, allowing integration of larger numbers of sequences and samples into a single analysis. Its new array-based implementation offers orders of magnitude improvements over the original version. New 3D visualization of principal coordinates analysis results, with the option to view multiple coordinate axes simultaneously, provides a powerful way to quickly identify patterns that relate vast numbers of microbial communities. We show the potential of Fast UniFrac using examples from three data types: Sanger-sequencing studies of diverse free-living and animal-associated bacterial assemblages and from the gut of obese humans as they diet, pyrosequencing data integrated from studies of the human hand and gut, and PhyloChip data from a study of citrus pathogens. We show that a Fast UniFrac analysis using a reference tree recaptures patterns that could not be detected without considering phylogenetic relationships and that Fast UniFrac, coupled with BLAST-based sequence assignment, can be used to quickly analyze pyrosequencing runs containing hundreds of thousands of sequences, showing patterns relating human and gut samples. Finally, we show that the application of Fast UniFrac to PhyloChip data could identify well-defined subcategories associated with infection. Together, these case studies point the way toward a broad range of applications and show some of the new features of Fast UniFrac.
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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.