ArticleNucleic acids research2025
ScRAPdb: an integrated pan-omics database for the Saccharomyces cerevisiae reference assembly panel.
Article in Nucleic acids research, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Genomic signatures of dairy adaptation inProceedings of the National Academy of Sciences of the United States of America · 2026Article
- Multi-Locus Integration of Antimicrobial Peptide Api137 inMicroorganisms · 2026Article
- Genetic background shapes the transcriptional activity and phenotypic contribution of a horizontally acquired region in yeast.Molecular biology and evolution · 2026Article
- From Oak to Wine: Evolution, Admixture, and Adaptation of California and British Columbia Saccharomyces Cerevisiae Wine Strains.Genome biology and evolution · 2026Article
- Towards the construction of a virtual yeast.Nature · 2026Review
- Insights into cephalochordate genome and gene evolution from the early-diverging amphioxusProceedings of the National Academy of Sciences of the United States of America · 2026Article
- Intergeneric chromosomal transfer in yeast results in improved phenotypes and widespread transcriptional responses.Nature communications · 2026Article
- First Evidence of Metabolically Active Intracellular Bacteria inJournal of agricultural and food chemistry · 2025Article
- Can the molecular and transgenic breeding of crops be an alternative and sustainable technology to meet food demand?Functional & integrative genomics · 2025Review
- Interactive visualization and interpretation of pangenome graphs by linear reference-based coordinate projection and annotation integration.Genome research · 2025Article
- Genome-based exploration of volatile flavor diversity from food yeast species.FEMS yeast research · 2025Review
Corrections and comments
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Authors and funding
10 authors.
Funding
Abstract
As a unicellular eukaryote, the budding yeast Saccharomyces cerevisiae strikes a unique balance between biological complexity and experimental tractability, serving as a long-standing classic model for both basic and applied studies. Recently, S. cerevisiae further emerged as a leading system for studying natural diversity of genome evolution and its associated functional implication at population scales. Having high-quality comparative and functional genomics data are critical for such efforts. Here, we exhaustively expanded the telomere-to-telomere (T2T) S. cerevisiae reference assembly panel (ScRAP) that we previously constructed for 142 strains to cover high-quality genome assemblies and annotations of 264 S. cerevisiae strains from diverse geographical and ecological niches and also 33 outgroup strains from all the other Saccharomyces species complex. We created a dedicated online database, ScRAPdb (https://www.evomicslab.org/db/ScRAPdb/), to host this expanded pangenome collection. Furthermore, ScRAPdb also integrates an array of population-scale pan-omics atlases (pantranscriptome, panproteome and panphenome) and extensive data exploration toolkits for intuitive genomics analyses. All curated data and downstream analysis results can be easily downloaded from ScRAPdb. We expect ScRAPdb to become a highly valuable platform for the yeast community and beyond, leading to a pan-omics understanding of the global genetic and phenotypic diversity.
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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.