Pharmacokinetic Relation Extraction Database (PRED)

Annotated data to perform Relation Extraction and extract pharmacokinetic (PK) parameter estimates from scientific text. 

Training, development and test files are released in JSONL format and store the annoated data for training and evaluating end-to-end relation extraction models. 

Each line in the JSONL files corresponds to an annotated sentence with the following information: 

text: Raw sentence

relations: List or relations each containing: 

head_span : Head entity of the relation as a dictionary containing start character, end character and entity type label

child_span: Child entity of the relation 

label: relation type label (i.e. either C_VAL, D_VAL or RELATED)

spans: List of entities mentioned in the sentence, specifying: (1) the character-level boundaries and (2) the entity type label of each annotation (i.e. either PK, VALUE, UNITS, RANGE or COMPARE). This field is not strictly required to train the model since all spans are defined within the relations.

sentence_hash: Unique sentence ID

metadata: Metadata with unique article, paragraph and sentence identifiers and the article section from which the sentence was extracted