One key technology applied in HIT 2.0 was the auto text-mining tools. Currently, there are several annotating tools to recognize the biomedical entities, such as PubTator Central (13), HunFlair (23), and ScispaCy (24). Among them, PubTator Central was developed by NCBI to annotate PubMed abstracts automatically and allows users to download annotations in bulk via PubMed ID lists. In addition, the annotated genes have direct links to the Gene database, which allows HIT 2.0 to access more details of the targets without being installed. Considering the overall convenience, simplicity and complexity, PubTator central was chosen for HIT 2.0.
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The Duke Medical Center Library & Archives provides access to many mobile apps that may be used to find drug information, guidelines, step-by-step medical procedures, and more in a snap. See the Mobile Apps LibGuide for download instructions and more detailed information.
Used event hierarchy allowed us to maintain data consistency and completeness. Nevertheless, our method has some bottlenecks. Firstly, it is not common practice to combine events of different levels in one dataset. At the same time, each event level should be described in the dataset. This information requires a particular Darwin Core term, but it is currently absent. We used the general term dwc: dynamicProperties as a temporary solution in this work. Secondly, the event hierarchy includes 338 events (the soil sample level), which are not assigned to any occurrences. These events are empty not because no species were registered. We used this event level for the relationship between survey and sample layer event types. However, empty events are not shown on the GBIF dataset page. Moreover, complete data (with empty events) are available for download via the IPT installation page, not the GBIF interface. This fact restricts the reuse of our data.
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