NLP pipelines

This comprehensive pipeline recognizes four primary clinical entities from clinical notes: “medical problems,” “medications,” “treatments,” and “lab tests,” as well as their modifiers, including (1) “negation,” “severity,” “uncertainty,” “condition,” “subject,” and “body location” for “medical problems;” (2) “form,” “dosage,” “strength,” “route,” “duration,” and “frequency” for “medications;” (3) “negation” for “treatments;” and (4) “negation” and “value” for “lab tests.” All “temporal information” associated with primary entities will be extracted as well. Moreover, all extracted primary entities will be mapped to standard codes in corresponding medical terminologies: SNOMED-CT for “medical problems,” RxNorm for “medications,” ICD-10 PCS for “treatments,” and LOINC for “lab tests.”