I mean, if somebody includes the name of a gene in their text, the goal is to annotate (then use the annotation) the gene in the text of the paper. It's often nontrivial to extract the meaning from the text without having a full experiment human. A typical case would be a reference to a gene by name, where the paper authors really meant the transcript or the protein product.

The semantic parsing part is an annotation process. AI algorithms are required to make accurate annotations - a huge amount of context is required.

So if authors instead marked up their papers such that each mentioned entity's semantic meaning was obvious, it would make it much easier to AI that scans all papers and generates hypotheses.