Healthcare NLP v2.7.5 Release Notes

Highlights:

• New pretrained Relation Extraction model to link clinical tests to test results and dates to clinical entities: re_test_result_date
• Adding two new Admission and Discharge entities to ner_events_clinical and renaming it to ner_events_admission_clinical
• Improving ner_deid_enriched NER model to cover Doctor and Patient name entities in various context and notations.
• Bug fixes & general improvements.

1. re_test_result_date :

text = “Hospitalized with pneumonia in June, confirmed by a positive PCR of any specimen, evidenced by SPO2 </= 93% or PaO2/FiO2 < 300 mmHg”

	Chunk-1	Entity-1	Chunk-2	Entity-2	Relation
0	pneumonia	Problem	june	Date	is_date_of
1	PCR	Test	positive	Test_Result	is_result_of
2	SPO2	Test	93%	Test_Result	is_result_of
3	PaO2/FiO2	Test	300 mmHg	Test_Result	is_result_of

2. ner_events_admission_clinical :

ner_events_clinical NER model is updated & improved to include Admission and Discharge entities.

text =”She is diagnosed as cancer in 1991. Then she was admitted to Mayo Clinic in May 2000 and discharged in October 2001”

	chunk	entity
0	diagnosed	OCCURRENCE
1	cancer	PROBLEM
2	1991	DATE
3	admitted	ADMISSION
4	Mayo Clinic	CLINICAL_DEPT
5	May 2000	DATE
6	discharged	DISCHARGE
7	October 2001	DATE

3. Improved ner_deid_enriched :

PHI NER model is retrained to cover Doctor and Patient name entities even there is a punctuation between tokens as well as all upper case or lowercased.

text =”A . Record date : 2093-01-13 , DAVID HALE , M.D . , Name : Hendrickson , Ora MR . # 7194334 Date : 01/13/93 PCP : Oliveira , 25 month years-old , Record date : 2079-11-09 . Cocke County Baptist Hospital . 0295 Keats Street”

	chunk	entity
0	2093-01-13	MEDICALRECORD
1	DAVID HALE	DOCTOR
2	Hendrickson , Ora	PATIENT
3	7194334	MEDICALRECORD
4	01/13/93	DATE
5	Oliveira	DOCTOR
6	25	AGE
7	2079-11-09	MEDICALRECORD
8	Cocke County Baptist Hospital	HOSPITAL
9	0295 Keats Street	STREET