Naming Conventions of Biodata Resources

A preprint of this study as been posted to bioRxiv "Analyzing the Naming Conventions of Life Science Data Resources to Inform Human and Computational Findability" https://doi.org/10.1101/2025.10.02.680112

Purpose: Analysis of full and common names predicted in the Global Biodata Coalition Inventory (2022)

• Started with inventory:
  • Imker, H., Schackart, K., Istrate, A.-M., & Cook, C. E. (2023). Biodata Resource Inventory Dataset [Data set]. Zenodo. https://doi.org/10.5281/zenodo.10105948
• Filtered to resources with both a common and a full name predicted
• Each name pair checked and corrected as needed (validated)
• Validated common names were coded for optics (opaque, translucent, or transparent)
• Input file: names_input.csv
  • Variables
    • ID: PMCID for resource's most recent article as of 2021
    • pubYear: year the associated article was published
    • best_common: validated common name
    • best_full: validated full name
    • stat: clarity classification for best_common as determined by a statistician
    • bio: clarity classification for best_common as determined by a biologist
• STEP 1 Script
  • Analyzed character count and prefixes for validated common names
  • Output: names_output_common.csv and Figure 1
• STEP 2 Script
  • Analyzed word count and first/last word for validated full names
  • Output: names_output_common_full.csv and Figure 3
• STEP 3 Script
  • Compared clearity classifications in an agreement matrix
  • Output: names_output_common_full_optics.csv and Figure 2