This directory contains data from the monthly release of PomBase for 2025-02-01.

PomBase is a comprehensive knowledgebase for the fission yeast
Schizosaccharomyces pombe, providing literature curation, analysis tools, genome
annotation and access to large-scale datasets.

Website: https://www.pombase.org

For help with any of these datasets please contact the PomBase helpdesk:
helpdesk@pombase.org

Please cite any use of this data:
  Kim Rutherford, Manuel Lera-Ramírez, Valerie Wood
  PomBase: a Global Core Biodata Resource - growth, collaboration, and sustainability
  Genetics, February 2024
  https://doi.org/10.1093/genetics/iyae007


Contents of this release:

  chado_database:
    - PostgreSQL database dumps in Chado (http://gmod.org/wiki/Chado) format

  curated_orthologs:
    - curated ortholog sets of S. pombe genes in human, S. cerevisiae and
      S. japonicus

  exports_for_external_resources:
    - files generated for the import into other databases and resources

  gene_expression:
    - high-throughput quantitative gene expression datasets

  gene_names_and_identifiers:
    - PomBase gene identifiers, gene names, gene products descriptions, feature types,
      and UniProtKB ID mapping

  gene_ontology:
    - Gene Ontology annotations
    - GO slim terms

  genome_sequence_and_features:
    - genome, gene and protein sequence data (FASTA format)
    - gene, exon, intron and coding sequences (CDS) coordinates
    - GFF and EMBL format files

  human_disease_annotation:
    - pombe disease associations using the Mondo ontology

  imported_curated_datasets:
    - datasets that have been curated and formatted by PomBase for
      loading into the main curation database

  macromolecular_complexes:
    - S. pombe annotation for macromolecular complexes

  phenotypes_and_genotypes:
    - alleles, viability data, phenotype annotation

  protein_features:
    - protein modifications
    - protein families and domains, disordered regions and
      transmembrane domains
    - protein statistics: weight, pI, charge
    - amino acid composition

  training_data_for_ML_and_AI:
    - datasets destined to train Language Models and Artificial Intelligence
      models for curation purposes.