ArticleScientific data2021
Community-curated and standardised metadata of published ancient metagenomic samples with AncientMetagenomeDir.
Article in Scientific data, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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.
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Who cites it
35 citing papers in PubMed.
- Comparing the Performance of Double-Stranded and Single-Stranded DNA Libraries for Ancient Oral Microbiome Reconstruction.Molecular ecology resources · 2026Article
- A minimal hybridization capture approach for the parallel enrichment and cost-effective detection of ancient human pathogens.iScience · 2026Article
- The Oral Microbiome of King Richard III of England.American journal of biological anthropology · 2026Article
- De novo assembly and authentication of ancient DNA metagenomes with nf-core/mag.PLoS computational biology · 2026Article
- Insights into infectious diseases through ancient pathogen genomics.Nature reviews. Microbiology · 2026Review
- An ancient genome of Streptococcus pyogenes from a pre-Columbian Bolivian mummy.Nature communications · 2026Article
- Article
- Metalog: curated and harmonised contextual data for global metagenomics samples.Nucleic acids research · 2026Article
- Ancient DNA insights into diverse pathogens and their hosts.Nature reviews. Genetics · 2026Review
- Metagenomics Approach for Identification of Arbuscular Mycorrhizal Fungal Sequences in Historical Herbarium Specimens.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Lessons learned: Recommendations for reproducible paleogenomic data analyses.American journal of human genetics · 2025Review
- Making genomic data FAIR through effective Data Portals.Scientific data · 2025Article
- Wet Lab Protocols Matter: Choice of DNA Extraction and Library Preparation Protocols Bias Ancient Oral Microbiome Recovery.Molecular ecology resources · 2025Article
- ParaRef: a decontaminated reference database for parasite detection in ancient and modern metagenomic datasets.Genome biology · 2025Article
- Article
- Streptococcus abundance and oral site tropism in humans and non-human primates reflects host and lifestyle differences.NPJ biofilms and microbiomes · 2025Article
- Article
- Ancient DNA data hold insights into past organisms and ecosystems - handle them with more care.Nature · 2024Article
- Oral microbial diversity in 18th century African individuals from South Carolina.Communications biology · 2024Article
- Towards predicting the geographical origin of ancient samples with metagenomic data.Scientific reports · 2024Article
Corrections and comments
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Authors and funding
18 authors.
Funding
Abstract
Ancient DNA and RNA are valuable data sources for a wide range of disciplines. Within the field of ancient metagenomics, the number of published genetic datasets has risen dramatically in recent years, and tracking this data for reuse is particularly important for large-scale ecological and evolutionary studies of individual taxa and communities of both microbes and eukaryotes. AncientMetagenomeDir (archived at https://doi.org/10.5281/zenodo.3980833 ) is a collection of annotated metagenomic sample lists derived from published studies that provide basic, standardised metadata and accession numbers to allow rapid data retrieval from online repositories. These tables are community-curated and span multiple sub-disciplines to ensure adequate breadth and consensus in metadata definitions, as well as longevity of the database. Internal guidelines and automated checks facilitate compatibility with established sequence-read archives and term-ontologies, and ensure consistency and interoperability for future meta-analyses. This collection will also assist in standardising metadata reporting for future ancient metagenomic studies.
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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.