diff --git a/StandardizedClinicalDataTables/NOTE_NLP.md b/StandardizedClinicalDataTables/NOTE_NLP.md index be71359..7722b51 100644 --- a/StandardizedClinicalDataTables/NOTE_NLP.md +++ b/StandardizedClinicalDataTables/NOTE_NLP.md @@ -2,20 +2,20 @@ The NOTE_NLP table will encode all output of NLP on clinical notes. Each row rep Field | Required | Type | Description :------------------------------- | :-------- | :------------ | :--------------------------------------------------- -note_nlp_id | Yes | integer | A unique identifier for each term extracted from a note. -note_id | Yes | integer | A foreign key to the Note table note the term was extracted from. -section_concept_id | No | integer | A foreign key to the predefined Concept in the Standardized Vocabularies representing the section of the extracted term. -snippet | No | varchar(250) | A small window of text surrounding the term. -offset | No | varchar(50) | Character offset of the extracted term in the input note. -lexical_variant | Yes | varchar(250) | Raw text extracted from the NLP tool. -note_nlp_concept_id | No | integer | A foreign key to the predefined Concept in the Standardized Vocabularies reflecting the normalized concept for the extracted term. Domain of the term is represented as part of the Concept table. -note_nlp_source_concept_id | No | integer | A foreign key to a Concept that refers to the code in the source vocabulary used by the NLP system -nlp_system | No | varchar(250) | Name and version of the NLP system that extracted the term.Useful for data provenance. -nlp_date | Yes | date | The date of the note processing.Useful for data provenance. -nlp_datetime | No | datetime | The date and time of the note processing. Useful for data provenance. -term_exists | No | varchar(1) | A summary modifier that signifies presence or absence of the term for a given patient. Useful for quick querying. -term_temporal | No | varchar(50) | An optional time modifier associated with the extracted term. (for now “past” or “present” only). Standardize it later. -term_modifiers | No | varchar(2000) | A compact description of all the modifiers of the specific term extracted by the NLP system. (e.g. “son has rash” ? “negated=no,subject=family, certainty=undef,conditional=false,general=false”). +|note_nlp_id | Yes | integer | A unique identifier for each term extracted from a note.| +|note_id | Yes | integer | A foreign key to the Note table note the term was |extracted from.| +|section_concept_id | No | integer | A foreign key to the predefined Concept in the Standardized |Vocabularies representing the section of the extracted term.| +|snippet | No | varchar(250) | A small window of text surrounding the term.| +|offset | No | varchar(50) | Character offset of the extracted term in the |input note.| +|lexical_variant | Yes | varchar(250) | Raw text extracted from the NLP tool.| +|note_nlp_concept_id | No | integer | A foreign key to the predefined Concept in the Standardized Vocabularies reflecting the normalized concept for the extracted term. Domain of the term is represented as part of the Concept table.| +|note_nlp_source_concept_id | No | integer | A foreign key to a Concept that refers to the code in the source vocabulary used by the NLP system| +|nlp_system | No | varchar(250) | Name and version of the NLP system that extracted the term.Useful for data provenance.| +|nlp_date | Yes | date | The date of the note processing.Useful for data provenance.| +|nlp_datetime | No | datetime | The date and time of the note processing. Useful for data provenance.| +|term_exists | No | varchar(1) | A summary modifier that signifies presence or absence of the term for a given patient. Useful for quick querying.| +|term_temporal | No | varchar(50) | An optional time modifier associated with the extracted term. (for now “past” or “present” only). Standardize it later.| +|term_modifiers | No | varchar(2000) | A compact description of all the modifiers of the specific term extracted by the NLP system. (e.g. “son has rash” ? “negated=no,subject=family, certainty=undef,conditional=false,general=false”).| ### Conventions @@ -39,7 +39,7 @@ For the modifiers that are there, they would have to have these values: * Uncertain = true or high or moderate or even low (could argue about low) **Term_temporal** -Term_temporal is to indicate if a condition is “present” or just in the “past”. +Term_temporal is to indicate if a condition is “present” or just in the “past”. The following would be past: