You can set up your EndNote library to identify retracted articles.
Retracted articles will be flagged at Library level and in the individual references for retracted articles.
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To activate retraction alerts:
Once you are logged into your online account, EndNote desktop will automatically check for retractions:
The retraction data is drawn from the Retraction Watch database. To find out why EndNote has added a retraction you can look the article up in this database by any number of fields (DOI or PMID are certainly the quickest and most precise if you have them).