Figure 1

Dependency parser output example. Complete analysis of the sentence "HA-tagged Tim18p coimmunoprecipitated with Tim12p, with all of Tim22p and with a portion of Tim54p". The figure shows the linguistic processing performed by OntoGene: tokenization (each word is separated and assigned a unique identifier), part of speech tagging (assignment of grammatical category to each word, e.g. NN for noun), lemmatization (detection of grammatical root form, e.g. coimmunoprecipitate), and dependency-based syntactic analysis, represented in the figure by the tree-like orange arrows, which depict the syntactic structure of the sentences, with, for example, Tim18p as subject.