| 37500913 | Greengenes2 unifies microbial data in a single reference tree. | Nat Biotechnol | 2024 |
| 37853258 | Author Correction: Greengenes2 unifies microbial data in a single reference tree. | Nat Biotechnol | 2024 |
| 37853257 | Author Correction: Generation of accurate, expandable phylogenomic trees with uDance. | Nat Biotechnol | 2024 |
| 37500914 | Generation of accurate, expandable phylogenomic trees with uDance. | Nat Biotechnol | 2024 |
| 36828255 | Diet Quality and the Fecal Microbiota in Adults in the American Gut Project. | J Nutr | 2023 |
| 37853256 | Author Correction: Enhancing untargeted metabolomics using metadata-based source annotation. | Nat Biotechnol | 2023 |
| 37577622 | A Taxonomically-informed Mass Spectrometry Search Tool for Microbial Metabolomics Data. | Res Sq | 2023 |
| 37350611 | Maximizing the potential of high-throughput next-generation sequencing through precise normalization based on read count distribution. | mSystems | 2023 |
| 37339957 | Global branches and local states of the human gut microbiome define associations with environmental and intrinsic factors. | Nat Commun | 2023 |
| 37372419 | Determination of Effect Sizes for Power Analysis for Microbiome Studies Using Large Microbiome Databases. | Genes (Basel) | 2023 |
| 37365313 | Multi-level analysis of the gut-brain axis shows autism spectrum disorder-associated molecular and microbial profiles. | Nat Neurosci | 2023 |
| 37231087 | You are what you excrete. | Nat Microbiol | 2023 |
| 36814836 | Comprehensive evaluation of shotgun metagenomics, amplicon sequencing, and harmonization of these platforms for epidemiological studies. | Cell Rep Methods | 2023 |
| 36475896 | Effects of Variation in Urine Sample Storage Conditions on 16S Urogenital Microbiome Analyses. | mSystems | 2023 |
| 33978602 | Impact of Vaginal Estrogen on the Urobiome in Postmenopausal Women With Recurrent Urinary Tract Infection. | Female Pelvic Med Reconstr Surg | 2022 |
| 35477286 | Compositionally Aware Phylogenetic Beta-Diversity Measures Better Resolve Microbiomes Associated with Phenotype. | mSystems | 2022 |
| 35411350 | Wastewater sequencing uncovers early, cryptic SARS-CoV-2 variant transmission. | medRxiv | 2022 |
| 35798960 | Enhancing untargeted metabolomics using metadata-based source annotation. | Nat Biotechnol | 2022 |
| 35798029 | Wastewater sequencing reveals early cryptic SARS-CoV-2 variant transmission. | Nature | 2022 |
| 35369727 | Phylogeny-Aware Analysis of Metagenome Community Ecology Based on Matched Reference Genomes while Bypassing Taxonomy. | mSystems | 2022 |
| 35638356 | Optimizing UniFrac with OpenACC Yields Greater Than One Thousand Times Speed Increase. | mSystems | 2022 |
| 36396943 | Host biology, ecology and the environment influence microbial biomass and diversity in 101 marine fish species. | Nat Commun | 2022 |
| 36073806 | Zebra: Static and Dynamic Genome Cover Thresholds with Overlapping References. | mSystems | 2022 |
| 36245486 | The gastrointestinal and microbiome impact of a resistant starch blend from potato, banana, and apple fibers: A randomized clinical trial using smart caps. | Front Nutr | 2022 |
| 36304280 | Applications and Comparison of Dimensionality Reduction Methods for Microbiome Data. | Front Bioinform | 2022 |
| 35293792 | Swapping Metagenomics Preprocessing Pipeline Components Offers Speed and Sensitivity Increases. | mSystems | 2022 |
| 34617562 | A posteriori dietary patterns better explain variations of the gut microbiome than individual markers in the American Gut Project. | Am J Clin Nutr | 2022 |
| 33011173 | Fecal Microbiota Transplantation Is Highly Effective in Real-World Practice: Initial Results From the FMT National Registry. | Gastroenterology | 2021 |
| 35590169 | Naturalization of the microbiota developmental trajectory of Cesarean-born neonates after vaginal seeding. | Med | 2021 |
| 33853672 | Assessment of the microbiome during bacteriophage therapy in combination with systemic antibiotics to treat a case of staphylococcal device infection. | Microbiome | 2021 |
| 33906915 | Evaluation of the Effect of Storage Methods on Fecal, Saliva, and Skin Microbiome Composition. | mSystems | 2021 |
| 33482920 | Feasibility of using alternative swabs and storage solutions for paired SARS-CoV-2 detection and microbiome analysis in the hospital environment. | Microbiome | 2021 |
| 33727399 | EMPress Enables Tree-Guided, Interactive, and Exploratory Analyses of Multi-omic Data Sets. | mSystems | 2021 |
| 34893089 | Microbial co-occurrence complicates associations of gut microbiome with US immigration, dietary intake and obesity. | Genome Biol | 2021 |
| 34374562 | Rapid, Large-Scale Wastewater Surveillance and Automated Reporting System Enable Early Detection of Nearly 85% of COVID-19 Cases on a University Campus. | mSystems | 2021 |
| 34846164 | The Fecal Microbiome and Metabolome of Pitt Hopkins Syndrome, a Severe Autism Spectrum Disorder. | mSystems | 2021 |
| 34479875 | Efficient computation of Faith's phylogenetic diversity with applications in characterizing microbiomes. | Genome Res | 2021 |
| 34103074 | SARS-CoV-2 detection status associates with bacterial community composition in patients and the hospital environment. | Microbiome | 2021 |
| 34283919 | Nutritional Interventions and the Gut Microbiome in Children. | Annu Rev Nutr | 2021 |
| 33199911 | Chemically informed analyses of metabolomics mass spectrometry data with Qemistree. | Nat Chem Biol | 2021 |
| 33432244 | High-accuracy long-read amplicon sequences using unique molecular identifiers with Nanopore or PacBio sequencing. | Nat Methods | 2021 |
| 33398188 | Reply to: Examining microbe-metabolite correlations by linear methods. | Nat Methods | 2021 |
| 32868914 | Context-aware dimensionality reduction deconvolutes gut microbial community dynamics. | Nat Biotechnol | 2021 |
| 32343490 | QIIME 2 Enables Comprehensive End-to-End Analysis of Diverse Microbiome Data and Comparative Studies with Publicly Available Data. | Curr Protoc Bioinformatics | 2020 |
| 31857734 | The emergence of microbiome centres. | Nat Microbiol | 2020 |
| 33051377 | Reduced Independence in Daily Living Is Associated with the Gut Microbiome in People with HIV and HCV. | mSystems | 2020 |
| 33236030 | Microbial context predicts SARS-CoV-2 prevalence in patients and the hospital built environment. | medRxiv | 2020 |
| 32994287 | Depression in Individuals Coinfected with HIV and HCV Is Associated with Systematic Differences in the Gut Microbiome and Metabolome. | mSystems | 2020 |
| 32839779 | Bacterial modification of the host glycosaminoglycan heparan sulfate modulates SARS-CoV-2 infectivity. | bioRxiv | 2020 |
| 32839765 | Feasibility of using alternative swabs and storage solutions for paired SARS-CoV-2 detection and microbiome analysis in the hospital environment. | Res Sq | 2020 |