Papers › MEDOC: a Python wrapper to load MEDLINE into a local MySQL database
MEDOC: a Python wrapper to load MEDLINE into a local MySQL database
Emeric Dynomant, Mathilde Gorieu, Helene Perrin, Marion Denorme, Fabien Pichon, Arnaud Desfeux
The archive published only this paper's code-link row. Authors, date and abstract are from arXiv's metadata (CC0), read from the Kaggle arXiv metadata snapshot of 2026-09-12 where its title matched the archive's; the title is the archive's.
Since the MEDLINE database was released, the number of documents indexed by this entity has risen every year. Several tools have been developed by the National Institutes of Health (NIH) to query this corpus of scientific publications. However, in terms of advances in big data, text-mining and data science, an option to build a local relational database containing all metadata available on MEDLINE would be truly useful to optimally exploit these resources. MEDOC (MEdline DOwnloading Contrivance) is a Python program designed to download data on an FTP and to load all extracted information into a local MySQL database. It took MEDOC 4 days and 17 hours to load the 26 million documents available on this server onto a standard computer. This indexed relational database allows the user to build complex and rapid queries. All fields can thus be searched for desired information, a task that is difficult to accomplish through the PubMed graphical interface. MEDOC is free and publicly available at https://github.com/MrMimic/MEDOC.
Code
Repository list and official/mentioned flags are the archive's, frozen 2025-07-28. Reachability, where shown, is from one Syntology probe window (2026-09-16 to 2026-09-18); repositories not probed show nothing. GitHub stars are not tracked.
Code Syntology ran Syntology
Not run by Syntology. Nothing on this page verifies that the listed code works.
Results from the paper archive 2025-07-28
No leaderboard rows for this paper in the archive.
Report a problem or propose a change · a person checks every report against the paper or source before anything changes; decisions are listed on /corrections