PepRNA-DB is a curated database of peptide-based RNA delivery systems extracted from the scientific literature. The database is designed to support mechanistic analysis and comparison of peptide-mediated RNA delivery strategies.
Each record represents a peptide, peptide formulation, or peptide-model combination extracted from an individual publication. When the same peptide-RNA system was tested under different experimental settings, such as in vitro and in vivo, separate experiment records are created.
The database focuses on experimentally reported evidence, including peptide sequence, RNA cargo type, delivery system, biological model, uptake, in vitro functional activity, endosomal escape evidence, and in vivo delivery outcome.
Each experiment record is linked to one paper and one peptide. Multiple experiments can come from the same paper, and multiple experiments can reuse the same peptide.
PepRNA-DB was generated using a combined LLM-assisted and manual curation workflow.
Relevant articles were collected manually and processed one paper at a time. For each publication, the article content was provided to ChatGPT 5.2, which generated an initial structured extraction of peptide-based RNA delivery experiments. The extracted records were then manually reviewed, corrected, and standardized before inclusion in the database.
The curation workflow included manual selection and attachment of relevant articles; initial structured extraction using ChatGPT 5.2; manual checking and correction of extracted peptide, RNA, formulation, model, and outcome information; cleaning and standardization of peptide sequences; tokenization of peptide sequences for computational analysis; collection of noncanonical residues and residue names; collection of peptide modification descriptions and related formulation details; and assignment of evidence-based labels using conservative rules.
The labels in PepRNA-DB describe demonstrated experimental evidence. They should not be interpreted as predictions, assumptions, or general claims about a peptide's potential.
This database is intended to be freely accessible for browsing and literature-based exploration.