ArticleBioinformatics (Oxford, England)2020
Pavian: interactive analysis of metagenomics data for microbiome studies and pathogen identification.
Article in Bioinformatics (Oxford, England), 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 292 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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
292 citing papers in PubMed, 484 citations in OpenAlex.
- Targeting the gut-lung axis by synbiotic feeding to infants in a randomized controlled trial.BMC biology · 2023Trial
- Phage tail protein methylation enabling the virus to bind to the surface of bacterial cells is vital for progeny infectivity.Cell insight · 2026Article
- Gastric Microbiota from Populations with High Risk of Gastric Cancer in Nariño, Colombia.International journal of molecular sciences · 2026Article
- Wastewater Metagenomic Surveillance Reveals Socioeconomic Patterns of Pathogen Diversity and Antimicrobial Resistance in Nairobi, Kenya.Antibiotics (Basel, Switzerland) · 2026Article
- Oral Microbiome Signatures in Indonesian Healthy, Gingivitis, and Periodontitis Subjects: A 16S rRNA Next-Generation Sequencing Analysis-Based Exploratory Study.Dentistry journal · 2026Article
- Wastewater Metagenomic Reanalysis of Antibiotic Resistance Genes in Public Datasets from Türkiye (Ankara and Hatay).Antibiotics (Basel, Switzerland) · 2026Article
- DNA metabarcoding reveals dietary niche partitioning among threatened Himalayan Ungulates based on chloroplast rbcL and nuclear ITS2 markers.BMC ecology and evolution · 2026Article
- Nordic Walking Combined with Time-Restricted Eating Is Associated with Changes in Gut Microbiota Composition in Adults with Obesity-Pilot Study.Nutrients · 2026Article
- Intracellular microbial shifts during COVID-19 infection and longitudinal recovery revealed by single-cell RNA sequencing.iScience · 2026Article
- Implementing portable, real-time 16S rRNA sequencing in the healthcare sector enhances antimicrobial stewardship.EBioMedicine · 2026Article
- Multidisciplinary Exploration of Computed-Tomographic and Ancient-DNA Data of an Iron Age Skull From Latvia With Multiple Lytic Bone Lesions: Differential Diagnosis Between Metastatic Carcinoma, Multiple Myeloma and Skeletal Tuberculosis.Ecology and evolution · 2026Article
- Dynamics of Bacterial Communities and Resistomes Across Swine Waste Stabilization Ponds and Fertilized Soils.Current microbiology · 2026Article
- Taxonomy bias in metagenome-assembled genome recovery.Microbial genomics · 2026Article
- Fecal virome of paraguayan hairy dwarf porcupine (Coendou spinosus, Cuvier, 1823) in Rio de Janeiro, Brazil.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2026Article
- Shotgun metagenomic dataset of leaf endophytic microbiome of the garden sage (Salvia officinalis L.).BMC genomic data · 2026Article
- Virome datasets and viral metagenome-assembled genomes from aquaculture-impacted freshwater environments.Scientific data · 2026Article
- Assessment of water quality and microbial contamination in Santa Marta's major rivers using conventional methods and next-generation sequencing.Environmental science and pollution research international · 2026Article
- Evolution and spillover dynamics of yellow fever at the forest-urban interface in Brazil.Nature microbiology · 2026Article
- Microbial communities in filth flies collected from dairy and poultry farms for supplemental animal feed.Journal of economic entomology · 2026Article
- Shotgun metagenome sequencing and informatics can accurately form a metagenome-assembled genome (MAG) of the bacterial tier 1 select agentMicrobiology spectrum · 2026Article
232 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
2 authors at 1 institution in 1 country.
Funding
Abstract
summaryPavian is a web application for exploring classification results from metagenomics experiments. With Pavian, researchers can analyze, visualize and transform results from various classifiers-such as Kraken, Centrifuge and MethaPhlAn-using interactive data tables, heatmaps and Sankey flow diagrams. An interactive alignment coverage viewer can help in the validation of matches to a particular genome, which can be crucial when using metagenomics experiments for pathogen detection. AVAILABILITY AND IMPLEMENTATION: Pavian is implemented in the R language as a modular Shiny web app and is freely available under GPL-3 from http://github.com/fbreitwieser/pavian.
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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.