Spark NLP for Healthcare Release Notes 2.7.5

 

2.7.5

We are glad to announce that Spark NLP for Healthcare 2.7.5 has been released!

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

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