dcsuka / journal_abbreviations

📕A Comprehensive Medical Journal Abbreviation Database for Citation Purposes

Comprehensive Journal Abbreviations Database

Project Overview

This project combines journal abbreviation information from the PubMed NLM Journal Repository as well as from Endnote. It makes citing articles easier by increasing the likelihood that journals you cite will already have abbreviations available with no manual effort.

Almost 60,000 entries are included, including some punctuation-based journal name variants to increase match likelihood. The EndNote match system is case-insensitive, so no variants are necessary in that regard.

R Markdown code for the project is available in JournalAbbreviations.pdf.

Installation Procedures

If a certain journal is not included, it is always possible to manually add it. The .txt files are tab-delimited as a requirement for EndNote.

• For the combined terms file, download and import Combined_Terms.txt.
• If you already have the basic EndNote terms installed, you can download and import Just_PubMed.txt for the PubMed abbreviations alone. These will not contain the aforementioned punctuation-based variants, however.
• The raw PubMed data pivoted into .csv format is available in Just_PubMed_Raw.csv.

Once you have downloaded the file of your choice, you can install into EndNote via clicking Library → Open Term List → Journals Term List → Lists → Import List.

Contributions

I would be happy to accomodate further data if available, or potentially expand this infrastructure to other citation mangement systems such as LaTeX, Zotero, and Mendeley. Feel free to get in touch!