Pneumococcal Capsule Genotype Data for 21,260 Genomes

21,260 globally representative Streptococcus pneumoniae genomes analyzed with the Pneumo-Typer pipeline for capsule genotype (CapGT) nomenclature and serotype prediction. The dataset, created by xiangyang Li, provides a framework for investigating cps locus evolution and variation. It was last updated in April 2026.

Use Cases

• Predict serotype from CapGT and sequence type (ST) data using classification models on 21,260 genome records.
• Analyze associations between CapGT diversity and multi-serotype serogroups to study evolutionary trajectories.
• Validate serotype assignments by integrating CapGT and ST association analysis.
• Detect recurrent cps locus variations within vaccine-covered serotypes to identify potential vaccine-relevant variants.
• Visualize cps locus architecture evolution across distinct clonal complexes and population lineages.

Strengths

• 21,260 pneumococcal genomes provide a globally representative sample size.
• High accuracy of 98.44% for serotype prediction across varying assembly qualities.
• Integrates multiple prediction outputs: Capsule GenoType (CapGT), serotype, and ST/cgST.

Limitations

• Specific row count for the provided XLSX/ZIP files is unknown.
• Dataset scale is 48.0 MB, limiting the inclusion of raw genomic sequence data.
• Geographic distribution details of the sample collection are not specified.

Provenance

Source

figshare, authored by xiangyang Li.

Collection Method

Analysis of genome collections using the Pneumo-Typer bioinformatics pipeline.

Time Range

null

Freshness

Last updated April 2026.

Geography

Globally representative collection, but specific countries/regions are not listed.