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Furthermore, LOOM failed to recognize a number of exact lexical matches between the ontologies; the reason for the software overlooking these valid matches is unknown to us.
Five thousand one hundred sixty-two logical definitions for HPO and 6772 logical definitions for MP were used, alongside 2048 pre-calculated lexical matches between HPO and MP.
At this stage, key equivalence is determined by lexical matches on the key value.
This was an important rule, as there were many exact lexical matches to ICD-10 categories that were limited concepts.
Many of the OMIM terms that do not have a good lexical match in MeSH are for complex syndromes.
Although they did not significantly hinder the current analysis, the presence of homonyms could easily cause issues for automated matching algorithms (especially those based largely on lexical matches) and manual methods performed quickly without knowledge of the underlying differences between classes with the same labels (i.e. matching performed by non-domain experts).
For example, the m concepts at the bottom represent the initial lexical matches, and the p concepts are the set of super-concepts that cover them.
The de-identification procedure performs lexical matching with lookup tables, regular expressions, and simple heuristics for context checks.
Punctuation, stop words and exclude words are excluded as they can decrease the success of finding lexical matches.
The first step is to locate a lexical match through a batch mode.
In addition to performing lexical matching with the dictionary (when one is provided), the algorithm uses the titles and keywords as well as a list of generic names for de-identification.
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com