ArticleStandards in genomic sciences2014
Toward richer metadata for microbial sequences: replacing strain-level NCBI taxonomy taxids with BioProject, BioSample and Assembly records.
Article in Standards in genomic sciences, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 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
31 citing papers in PubMed.
- DDBJ update in 2025: system integration for global data-sharing including pathogen surveillance.Nucleic acids research · 2026Article
- Computational Metagenomics: State of the Art.International journal of molecular sciences · 2025Review
- DDBJ update in 2023: the MetaboBank for metabolomics data and associated metadata.Nucleic acids research · 2024Article
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- DNA Data Bank of Japan (DDBJ) update report 2022.Nucleic acids research · 2023Article
- ARGem: a new metagenomics pipeline for antibiotic resistance genes: metadata, analysis, and visualization.Frontiers in genetics · 2023Article
- BugSplit enables genome-resolved metagenomics through highly accurate taxonomic binning of metagenomic assemblies.Communications biology · 2022Article
- DNA Data Bank of Japan (DDBJ) update report 2021.Nucleic acids research · 2022Article
- DDBJ update: streamlining submission and access of human data.Nucleic acids research · 2021Article
- proGenomes2: an improved database for accurate and consistent habitat, taxonomic and functional annotations of prokaryotic genomes.Nucleic acids research · 2020Article
- DDBJ Database updates and computational infrastructure enhancement.Nucleic acids research · 2020Article
- NCBI Taxonomy: a comprehensive update on curation, resources and tools.Database : the journal of biological databases and curation · 2020Review
- Text mining tools for extracting information about microbial biodiversity in food.Food microbiology · 2019Article
- A review of methods and databases for metagenomic classification and assembly.Briefings in bioinformatics · 2019Review
- DDBJ update: the Genomic Expression Archive (GEA) for functional genomics data.Nucleic acids research · 2019Article
- DNA Data Bank of Japan: 30th anniversary.Nucleic acids research · 2018Article
- Private collection: high correlation of sample collection and patient admission date in clinical microbiological testing complicates sharing of phylodynamic metadata.Virus evolution · 2018Article
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Corrections and comments
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Authors and funding
10 authors.
Funding
Abstract
Microbial genome sequence submissions to the International Nucleotide Sequence Database Collaboration (INSDC) have been annotated with organism names that include the strain identifier. Each of these strain-level names has been assigned a unique 'taxid' in the NCBI Taxonomy Database. With the significant growth in genome sequencing, it is not possible to continue with the curation of strain-level taxids. In January 2014, NCBI will cease assigning strain-level taxids. Instead, submitters are encouraged provide strain information and rich metadata with their submission to the sequence database, BioProject and BioSample.
Identifiers
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.