Protein Families for 2,032 Saccharomyces cerevisiae Genomes with Multiple Cluster Cutoffs

Protein families and marker genes for 2,032 Saccharomyces cerevisiae genome assemblies, clustered at five different similarity cutoffs. The data is presented in text files where rows represent protein families and columns represent genome assemblies. It was contributed by Bin-Bin Xie and is available under an Open Access license.

Use Cases

• Comparative genomics analysis based on protein family presence/absence across different genome assemblies.
• Benchmarking clustering algorithms based on the multiple similarity cutoffs (50% to 90%) provided.
• Identifying core and accessory gene sets based on the non-redundant and quality-filtered genome subsets.
• Studying gene family evolution in Saccharomyces cerevisiae based on the marker gene data.

Strengths

• Covers 2,032 Saccharomyces cerevisiae genome assemblies, providing a broad sample.
• Includes five cluster similarity cutoffs (50%, 60%, 70%, 80%, 90%) for comparative analysis.
• Provides multiple filtered genome sets (all, non-redundant, medium-high-quality, high-quality) for focused studies.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment.
• Last update date is unknown; freshness unverified.

Provenance

Source

Bin-Bin Xie via paperswithcode

Collection Method

Likely derived from computational clustering of protein sequences from genome assemblies.