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Table 3 Overlapping entities between labelled benchmark ASD terms and CLAMP predictions

From: Natural language processing (NLP) tools in extracting biomedical concepts from research articles: a case study on autism spectrum disorder

True entity

Predicted entity

Sentence

Full-text PubMed article

Speech and language delay

Severe speech and language delay

Patient 290,951 had a clinical diagnosis of autism spectrum disorder, behavioral difficulties, and severe speech and language delay

PMC5798319

Trains

A preoccupation with trains

Mr Parsons has a narrow range of specialist interests, including a preoccupation with trains, and also experiences a high degree of sensory sensitivity

PMC6394789

Limited eye contact

Poor and limited eye

We observed poor and limited eye contact in reciprocal social interactions during the ADOS examination

PMC5282903

Body rocking

Repeated incidents of body rocking

A case study with six children on the spectrum was conducted to observe repeated incidents of body rocking, hand flapping, and/or simultaneous body rocking and hand flapping

PMC5298619

Body rocking

Simultaneous body rocking

A case study with six children on the spectrum was conducted to observe repeated incidents of body rocking, hand flapping, and/or simultaneous body rocking and hand flapping

PMC5298619

Limited speech

Very limited speech output

Because these children had very limited speech output prior to treatment, the acquisition of speech sounds through AMMT is an important gain that provides a foundation for subsequent speech therapy

PMC3183050

Initiating social interactions

Difficulty initiating social interactions

Has difficulty initiating social interactions and demonstrates clear examples of atypical or unsuccessful responses to social overtures of others

PMC6055683

Trains

Toy trains

Toy trains appeared to be one of the most familiar and interesting toy for both ASD and TD children in the age range considered and was chosen as the non-social reward image

PMC5468258

Head banging

Unexpected head banging

Pitching into others with the head (violent and unexpected head banging, head against other's chest)

PMC3006199

  1. The true entity represents the term from the benchmark set of ASD terms. These examples were chosen to illustrate how CLAMP’s predictions can take into account the context surrounding the benchmark terms, expanding the benchmark vocabulary. The entity predicted by CLAMP is italicized in the sentence