| 1 | A conserved interdomain microbial network underpins cadaver decomposition despite environmental variables | 16.5 | 56 | Citations (PDF) |
| 2 | An evolutionary optimum amid moderate heritability in prokaryotic cell size | 6.4 | 7 | Citations (PDF) |
| 3 | DEPP: Deep Learning Enables Extending Species Trees using Single Genes | 5.1 | 27 | Citations (PDF) |
| 4 | Greengenes2 unifies microbial data in a single reference tree | 32.2 | 421 | Citations (PDF) |
| 5 | Generation of accurate, expandable phylogenomic trees with uDance | 32.2 | 17 | Citations (PDF) |
| 6 | Fast and accurate distance‐based phylogenetic placement using divide and conquer | 4.8 | 37 | Citations (PDF) |
| 7 | Multi-omics analyses of the ulcerative colitis gut microbiome link Bacteroides vulgatus proteases with disease severity | 16.5 | 307 | Citations (PDF) |
| 8 | Combined effects of host genetics and diet on human gut microbiota and incident disease in a single population cohort | 26.1 | 461 | Citations (PDF) |
| 9 | A gut-derived metabolite alters brain activity and anxiety behaviour in mice | 38.7 | 393 | Citations (PDF) |
| 10 | Microbiome and metabolome profiles of high screen time in a cohort of healthy college students | 3.5 | 19 | Citations (PDF) |
| 11 | Early prediction of incident liver disease using conventional risk factors and gut-microbiome-augmented gradient boosting | 26.2 | 73 | Citations (PDF) |
| 12 | Phylogeny-Aware Analysis of Metagenome Community Ecology Based on Matched Reference Genomes while Bypassing Taxonomy | 4.5 | 103 | Citations (PDF) |
| 13 | The Host-Microbiome Response to Hyperbaric Oxygen Therapy in Ulcerative Colitis Patients | 5.7 | 20 | Citations (PDF) |
| 14 | Abstract 3054: Pan-cancer characterization of the tumor mycobiome and its clinical effects | 0.6 | 1 | Citations (PDF) |
| 15 | Enhancing untargeted metabolomics using metadata-based source annotation | 32.2 | 65 | Citations (PDF) |
| 16 | Standardized multi-omics of Earth’s microbiomes reveals microbial and metabolite diversity | 16.5 | 153 | Citations (PDF) |
| 17 | High-accuracy long-read amplicon sequences using unique molecular identifiers with Nanopore or PacBio sequencing | 25.9 | 361 | Citations (PDF) |
| 18 | A Multi-Omics Characterization of the Natural Product Potential of Tropical Filamentous Marine Cyanobacteria | 5.3 | 31 | Citations (PDF) |
| 19 | Exploring the Composition and Functions of Plastic Microbiome Using Whole-Genome Sequencing | 11.1 | 114 | Citations (PDF) |
| 20 | EMPress Enables Tree-Guided, Interactive, and Exploratory Analyses of Multi-omic Data Sets | 4.5 | 52 | Citations (PDF) |
| 21 | Challenges in benchmarking metagenomic profilers | 25.9 | 116 | Citations (PDF) |
| 22 | Insight into the function and evolution of the Wood–Ljungdahl pathway in <i>Actinobacteria</i> | 9.1 | 118 | Citations (PDF) |
| 23 | Candidate probiotic Lactiplantibacillus plantarum HNU082 rapidly and convergently evolves within human, mice, and zebrafish gut but differentially influences the resident microbiome | 11.5 | 59 | Citations (PDF) |
| 24 | Compositional and genetic alterations in Graves’ disease gut microbiome reveal specific diagnostic biomarkers | 9.1 | 57 | Citations (PDF) |
| 25 | Efficient computation of Faith's phylogenetic diversity with applications in characterizing microbiomes | 4.6 | 40 | Citations (PDF) |
| 26 | Expanding magnetic organelle biogenesis in the domain Bacteria | 11.5 | 69 | Citations (PDF) |
| 27 | SHOGUN: a modular, accurate and scalable framework for microbiome quantification | 4.8 | 65 | Citations (PDF) |
| 28 | Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0 | 13.9 | 704 | Citations (PDF) |
| 29 | Chemically informed analyses of metabolomics mass spectrometry data with Qemistree | 12.0 | 103 | Citations (PDF) |
| 30 | Optimizing sequencing protocols for leaderboard metagenomics by combining long and short reads | 8.2 | 72 | Citations (PDF) |
| 31 | Calour: an Interactive, Microbe-Centric Analysis Tool | 4.5 | 33 | Citations (PDF) |
| 32 | Evaluating Metagenomic Prediction of the Metaproteome in a 4.5-Year Study of a Patient with Crohn's Disease | 4.5 | 53 | Citations (PDF) |
| 33 | FXR Regulates Intestinal Cancer Stem Cell ProliferationCell, 2019, 176, 1098-1112.e18 | 34.1 | 401 | Citations (PDF) |
| 34 | Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea | 13.9 | 329 | Citations (PDF) |
| 35 | Creating a 3D microbial and chemical snapshot of a human habitat | 3.5 | 43 | Citations (PDF) |
| 36 | KatharoSeq Enables High-Throughput Microbiome Analysis from Low-Biomass Samples | 4.5 | 142 | Citations (PDF) |
| 37 | Visualization-assisted binning of metagenome assemblies reveals potential new pathogenic profiles in idiopathic travelers’ diarrhea | 11.5 | 24 | Citations (PDF) |
| 38 | Evaluating the Information Content of Shallow Shotgun Metagenomics | 4.5 | 415 | Citations (PDF) |
| 39 | Metagenomics-Based, Strain-Level Analysis of Escherichia coli From a Time-Series of Microbiome Samples From a Crohn's Disease Patient | 3.9 | 44 | Citations (PDF) |
| 40 | Microbial effects of livestock manure fertilization on freshwater aquaculture ponds rearing tilapia (<i>Oreochromis shiranus</i>) and North African catfish (<i>Clarias gariepinus</i>) | 4.2 | 33 | Citations (PDF) |
| 41 | American Gut: an Open Platform for Citizen Science Microbiome Research | 4.5 | 789 | Citations (PDF) |
| 42 | Best practices for analysing microbiomes | 85.9 | 1,555 | Citations (PDF) |
| 43 | Methods for phylogenetic analysis of microbiome data | 16.5 | 91 | Citations (PDF) |
| 44 | Are microbiome studies ready for hypothesis-driven research? | 7.0 | 30 | Citations (PDF) |
| 45 | Genomic inference of the metabolism and evolution of the archaeal phylum Aigarchaeota | 13.9 | 144 | Citations (PDF) |
| 46 | Gut microbiome and magnetic resonance spectroscopy study of subjects at ultra-high risk for psychosis may support the membrane hypothesis | 0.3 | 113 | Citations (PDF) |
| 47 | The origin of Chinese domestic horses revealed with novel mtDNA variants | 1.1 | 19 | Citations (PDF) |
| 48 | Origin of microbial biomineralization and magnetotaxis during the Archean | 7.6 | 125 | Citations (PDF) |
| 49 | A communal catalogue reveals Earth’s multiscale microbial diversity | 38.7 | 2,576 | Citations (PDF) |
| 50 | Fleas (Siphonaptera) are Cretaceous, and evolved with Theria | 2.9 | 113 | Citations (PDF) |
| 51 | Bartonella spp. in Fruit Bats and Blood-Feeding Ectoparasites in Madagascar | 3.1 | 83 | Citations (PDF) |
| 52 | Horizontal Transfers and Gene Losses in the Phospholipid Pathway of Bartonella Reveal Clues about Early Ecological Niches | 2.4 | 26 | Citations (PDF) |
| 53 | HGTector: an automated method facilitating genome-wide discovery of putative horizontal gene transfers | 3.3 | 165 | Citations (PDF) |
| 54 | Improved accuracy of supervised CRM discovery with interpolated Markov models and cross-species comparison | 15.7 | 46 | Citations (PDF) |
| 55 | Motif-Blind, Genome-Wide Discovery of cis-Regulatory Modules in Drosophila and Mouse | 7.8 | 67 | Citations (PDF) |
