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ner_oncology_posology_pipeline (#1541)
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gokhanturer authored Oct 11, 2024
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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [re_test_result_date](https://nl

## Predicted Entities

`Injury_or_Poisoning`, `Direction`, `Test`, `Route`, `Admission_Discharge`, `Death_Entity`, `Triglycerides`, `Oxygen_Therapy`, `Relationship_Status`, `Duration`, `Alcohol`, `Date`, `Drug`, `Hyperlipidemia`, `Respiration`, `Birth_Entity`, `VS_Finding`, `Age`, `Social_History_Header`, `Family_History_Header`, `Medical_Device`, `Labour_Delivery`, `BMI`, `Fetus_NewBorn`, `Temperature`, `Section_Header`, `Communicable_Disease`, `ImagingFindings`, `Psychological_Condition`, `Obesity`, `Sexually_Active_or_Sexual_Orientation`, `Modifier`, `Vaccine`, `Symptom`, `Pulse`, `Kidney_Disease`, `Oncological`, `EKG_Findings`, `Medical_History_Header`, `Cerebrovascular_Disease`, `Blood_Pressure`, `Diabetes`, `O2_Saturation`, `Heart_Disease`, `Employment`, `Frequency`, `Disease_Syndrome_Disorder`, `Pregnancy`, `RelativeDate`, `Procedure`, `Overweight`, `Race_Ethnicity`, `Hypertension`, `External_body_part_or_region`, `Imaging_Technique`, `Test_Result`, `Treatment`, `Substance`, `Clinical_Dept`, `LDL`, `Diet`, `Substance_Quantity`, `Allergen`, `Gender`, `RelativeTime`, `Total_Cholesterol`, `Internal_organ_or_component`, `Smoking`, `Vital_Signs_Header`, `Height`, `Form`, `Strength`, `Weight`, `Time`, `Dosage`, `HDL`



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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [ner_bionlp_biobert](https://nlp

## Predicted Entities

`Gene_or_gene_product`, `Cancer`, `Cell`, `Cellular_component`, `Organism`, `Multi-tissue_structure`, `Developing_anatomical_structure`, `Amino_acid`, `Organ`, `Anatomical_system`, `Tissue`, `Organism_subdivision`, `Simple_chemical`, `Organism_substance`, `Immaterial_anatomical_entity`, `Pathological_formation`



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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [ner_chemprot_biobert](https://n

## Predicted Entities

`GENE-N`, `CHEMICAL`, `GENE-Y`



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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [ner_clinical_biobert](https://n

## Predicted Entities

`TREATMENT`, `PROBLEM`, `TEST`



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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [ner_events_biobert](https://nlp

## Predicted Entities

`SPECIES`, `HUMAN`



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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [re_test_result_date](https://nl

## Predicted Entities

`Injury_or_Poisoning`, `Direction`, `Test`, `Route`, `Admission_Discharge`, `Death_Entity`, `Triglycerides`, `Oxygen_Therapy`, `Relationship_Status`, `Duration`, `Alcohol`, `Date`, `Drug`, `Hyperlipidemia`, `Respiration`, `Birth_Entity`, `VS_Finding`, `Age`, `Social_History_Header`, `Family_History_Header`, `Medical_Device`, `Labour_Delivery`, `BMI`, `Fetus_NewBorn`, `Temperature`, `Section_Header`, `Communicable_Disease`, `ImagingFindings`, `Psychological_Condition`, `Obesity`, `Sexually_Active_or_Sexual_Orientation`, `Modifier`, `Vaccine`, `Symptom`, `Pulse`, `Kidney_Disease`, `Oncological`, `EKG_Findings`, `Medical_History_Header`, `Cerebrovascular_Disease`, `Blood_Pressure`, `Diabetes`, `O2_Saturation`, `Heart_Disease`, `Employment`, `Frequency`, `Disease_Syndrome_Disorder`, `Pregnancy`, `RelativeDate`, `Procedure`, `Overweight`, `Race_Ethnicity`, `Hypertension`, `External_body_part_or_region`, `Imaging_Technique`, `Test_Result`, `Treatment`, `Substance`, `Clinical_Dept`, `LDL`, `Diet`, `Substance_Quantity`, `Allergen`, `Gender`, `RelativeTime`, `Total_Cholesterol`, `Internal_organ_or_component`, `Smoking`, `Vital_Signs_Header`, `Height`, `Form`, `Strength`, `Weight`, `Time`, `Dosage`, `HDL`



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Expand Up @@ -26,6 +26,11 @@ This pretrained pipeline is built on the top of [ner_oncology_unspecific_posolog
[Download](https://s3.amazonaws.com/auxdata.johnsnowlabs.com/clinical/models/ner_oncology_unspecific_posology_pipeline_en_4.3.0_3.2_1678347063020.zip){:.button.button-orange.button-orange-trans.arr.button-icon.hidden}
[Copy S3 URI](s3://auxdata.johnsnowlabs.com/clinical/models/ner_oncology_unspecific_posology_pipeline_en_4.3.0_3.2_1678347063020.zip){:.button.button-orange.button-orange-trans.button-icon.button-copy-s3}

## Predicted Entities

`Posology_Information`, `Cancer_Therapy`


## How to use


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This pretrained pipeline is built on the top of [ner_bionlp_biobert](https://nlp.johnsnowlabs.com/2021/04/01/ner_bionlp_biobert_en.html) model.

## Predicted Entities

`Gene_or_gene_product`, `Cancer`, `Cell`, `Cellular_component`, `Organism`, `Multi-tissue_structure`, `Developing_anatomical_structure`, `Amino_acid`, `Organ`, `Anatomical_system`, `Tissue`, `Organism_subdivision`, `Simple_chemical`, `Organism_substance`, `Immaterial_anatomical_entity`, `Pathological_formation`


{:.btn-box}
<button class="button button-orange" disabled>Live Demo</button>
<button class="button button-orange" disabled>Open in Colab</button>
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Expand Up @@ -20,6 +20,10 @@ use_language_switcher: "Python-Scala-Java"

This pretrained pipeline is built on the top of [ner_chemprot_biobert](https://nlp.johnsnowlabs.com/2021/04/01/ner_chemprot_biobert_en.html) model.

## Predicted Entities

`GENE-N`, `CHEMICAL`, `GENE-Y`

{:.btn-box}
<button class="button button-orange" disabled>Live Demo</button>
<button class="button button-orange" disabled>Open in Colab</button>
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Expand Up @@ -20,6 +20,10 @@ use_language_switcher: "Python-Scala-Java"

This pretrained pipeline is built on the top of [ner_clinical_biobert](https://nlp.johnsnowlabs.com/2021/04/01/ner_clinical_biobert_en.html) model.

## Predicted Entities

`TREATMENT`, `PROBLEM`, `TEST`

{:.btn-box}
<button class="button button-orange" disabled>Live Demo</button>
<button class="button button-orange" disabled>Open in Colab</button>
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Expand Up @@ -20,6 +20,10 @@ use_language_switcher: "Python-Scala-Java"

This pretrained pipeline is built on the top of [ner_events_biobert](https://nlp.johnsnowlabs.com/2021/04/01/ner_events_biobert_en.html) model.

## Predicted Entities

`SPECIES`, `HUMAN`

{:.btn-box}
<button class="button button-orange" disabled>Live Demo</button>
<button class="button button-orange" disabled>Open in Colab</button>
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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [re_test_result_date](https://nl

## Predicted Entities

`Injury_or_Poisoning`, `Direction`, `Test`, `Route`, `Admission_Discharge`, `Death_Entity`, `Triglycerides`, `Oxygen_Therapy`, `Relationship_Status`, `Duration`, `Alcohol`, `Date`, `Drug`, `Hyperlipidemia`, `Respiration`, `Birth_Entity`, `VS_Finding`, `Age`, `Social_History_Header`, `Family_History_Header`, `Medical_Device`, `Labour_Delivery`, `BMI`, `Fetus_NewBorn`, `Temperature`, `Section_Header`, `Communicable_Disease`, `ImagingFindings`, `Psychological_Condition`, `Obesity`, `Sexually_Active_or_Sexual_Orientation`, `Modifier`, `Vaccine`, `Symptom`, `Pulse`, `Kidney_Disease`, `Oncological`, `EKG_Findings`, `Medical_History_Header`, `Cerebrovascular_Disease`, `Blood_Pressure`, `Diabetes`, `O2_Saturation`, `Heart_Disease`, `Employment`, `Frequency`, `Disease_Syndrome_Disorder`, `Pregnancy`, `RelativeDate`, `Procedure`, `Overweight`, `Race_Ethnicity`, `Hypertension`, `External_body_part_or_region`, `Imaging_Technique`, `Test_Result`, `Treatment`, `Substance`, `Clinical_Dept`, `LDL`, `Diet`, `Substance_Quantity`, `Allergen`, `Gender`, `RelativeTime`, `Total_Cholesterol`, `Internal_organ_or_component`, `Smoking`, `Vital_Signs_Header`, `Height`, `Form`, `Strength`, `Weight`, `Time`, `Dosage`, `HDL`



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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [ner_bionlp_biobert](https://nlp

## Predicted Entities

`Gene_or_gene_product`, `Cancer`, `Cell`, `Cellular_component`, `Organism`, `Multi-tissue_structure`, `Developing_anatomical_structure`, `Amino_acid`, `Organ`, `Anatomical_system`, `Tissue`, `Organism_subdivision`, `Simple_chemical`, `Organism_substance`, `Immaterial_anatomical_entity`, `Pathological_formation`



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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [ner_chemprot_biobert](https://n

## Predicted Entities

`GENE-N`, `CHEMICAL`, `GENE-Y`



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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [ner_clinical_biobert](https://n

## Predicted Entities

`TREATMENT`, `PROBLEM`, `TEST`



{:.btn-box}
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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [ner_events_biobert](https://nlp

## Predicted Entities

`SPECIES`, `HUMAN`



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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [re_test_result_date](https://nl

## Predicted Entities

`Injury_or_Poisoning`, `Direction`, `Test`, `Route`, `Admission_Discharge`, `Death_Entity`, `Triglycerides`, `Oxygen_Therapy`, `Relationship_Status`, `Duration`, `Alcohol`, `Date`, `Drug`, `Hyperlipidemia`, `Respiration`, `Birth_Entity`, `VS_Finding`, `Age`, `Social_History_Header`, `Family_History_Header`, `Medical_Device`, `Labour_Delivery`, `BMI`, `Fetus_NewBorn`, `Temperature`, `Section_Header`, `Communicable_Disease`, `ImagingFindings`, `Psychological_Condition`, `Obesity`, `Sexually_Active_or_Sexual_Orientation`, `Modifier`, `Vaccine`, `Symptom`, `Pulse`, `Kidney_Disease`, `Oncological`, `EKG_Findings`, `Medical_History_Header`, `Cerebrovascular_Disease`, `Blood_Pressure`, `Diabetes`, `O2_Saturation`, `Heart_Disease`, `Employment`, `Frequency`, `Disease_Syndrome_Disorder`, `Pregnancy`, `RelativeDate`, `Procedure`, `Overweight`, `Race_Ethnicity`, `Hypertension`, `External_body_part_or_region`, `Imaging_Technique`, `Test_Result`, `Treatment`, `Substance`, `Clinical_Dept`, `LDL`, `Diet`, `Substance_Quantity`, `Allergen`, `Gender`, `RelativeTime`, `Total_Cholesterol`, `Internal_organ_or_component`, `Smoking`, `Vital_Signs_Header`, `Height`, `Form`, `Strength`, `Weight`, `Time`, `Dosage`, `HDL`



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Expand Up @@ -22,6 +22,7 @@ This pretrained pipeline is built on the top of [ner_oncology_unspecific_posolog

## Predicted Entities

`Posology_Information`, `Cancer_Therapy`


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Expand Up @@ -22,6 +22,7 @@ This pretrained pipeline is built on the top of [ner_oncology_posology](https://

## Predicted Entities

`Posology_Information`, `Cancer_Therapy`


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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [re_test_result_date](https://nl

## Predicted Entities

`Injury_or_Poisoning`, `Direction`, `Test`, `Route`, `Admission_Discharge`, `Death_Entity`, `Triglycerides`, `Oxygen_Therapy`, `Relationship_Status`, `Duration`, `Alcohol`, `Date`, `Drug`, `Hyperlipidemia`, `Respiration`, `Birth_Entity`, `VS_Finding`, `Age`, `Social_History_Header`, `Family_History_Header`, `Medical_Device`, `Labour_Delivery`, `BMI`, `Fetus_NewBorn`, `Temperature`, `Section_Header`, `Communicable_Disease`, `ImagingFindings`, `Psychological_Condition`, `Obesity`, `Sexually_Active_or_Sexual_Orientation`, `Modifier`, `Vaccine`, `Symptom`, `Pulse`, `Kidney_Disease`, `Oncological`, `EKG_Findings`, `Medical_History_Header`, `Cerebrovascular_Disease`, `Blood_Pressure`, `Diabetes`, `O2_Saturation`, `Heart_Disease`, `Employment`, `Frequency`, `Disease_Syndrome_Disorder`, `Pregnancy`, `RelativeDate`, `Procedure`, `Overweight`, `Race_Ethnicity`, `Hypertension`, `External_body_part_or_region`, `Imaging_Technique`, `Test_Result`, `Treatment`, `Substance`, `Clinical_Dept`, `LDL`, `Diet`, `Substance_Quantity`, `Allergen`, `Gender`, `RelativeTime`, `Total_Cholesterol`, `Internal_organ_or_component`, `Smoking`, `Vital_Signs_Header`, `Height`, `Form`, `Strength`, `Weight`, `Time`, `Dosage`, `HDL`



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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [ner_bionlp_biobert](https://nlp

## Predicted Entities

`Gene_or_gene_product`, `Cancer`, `Cell`, `Cellular_component`, `Organism`, `Multi-tissue_structure`, `Developing_anatomical_structure`, `Amino_acid`, `Organ`, `Anatomical_system`, `Tissue`, `Organism_subdivision`, `Simple_chemical`, `Organism_substance`, `Immaterial_anatomical_entity`, `Pathological_formation`



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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [ner_chemprot_biobert](https://n

## Predicted Entities

`GENE-N`, `CHEMICAL`, `GENE-Y`



{:.btn-box}
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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [ner_clinical_biobert](https://n

## Predicted Entities

`TREATMENT`, `PROBLEM`, `TEST`



{:.btn-box}
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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [ner_events_biobert](https://nlp

## Predicted Entities

`SPECIES`, `HUMAN`



{:.btn-box}
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Expand Up @@ -22,6 +22,8 @@ This pretrained pipeline is built on the top of [re_test_result_date](https://nl

## Predicted Entities

`Injury_or_Poisoning`, `Direction`, `Test`, `Route`, `Admission_Discharge`, `Death_Entity`, `Triglycerides`, `Oxygen_Therapy`, `Relationship_Status`, `Duration`, `Alcohol`, `Date`, `Drug`, `Hyperlipidemia`, `Respiration`, `Birth_Entity`, `VS_Finding`, `Age`, `Social_History_Header`, `Family_History_Header`, `Medical_Device`, `Labour_Delivery`, `BMI`, `Fetus_NewBorn`, `Temperature`, `Section_Header`, `Communicable_Disease`, `ImagingFindings`, `Psychological_Condition`, `Obesity`, `Sexually_Active_or_Sexual_Orientation`, `Modifier`, `Vaccine`, `Symptom`, `Pulse`, `Kidney_Disease`, `Oncological`, `EKG_Findings`, `Medical_History_Header`, `Cerebrovascular_Disease`, `Blood_Pressure`, `Diabetes`, `O2_Saturation`, `Heart_Disease`, `Employment`, `Frequency`, `Disease_Syndrome_Disorder`, `Pregnancy`, `RelativeDate`, `Procedure`, `Overweight`, `Race_Ethnicity`, `Hypertension`, `External_body_part_or_region`, `Imaging_Technique`, `Test_Result`, `Treatment`, `Substance`, `Clinical_Dept`, `LDL`, `Diet`, `Substance_Quantity`, `Allergen`, `Gender`, `RelativeTime`, `Total_Cholesterol`, `Internal_organ_or_component`, `Smoking`, `Vital_Signs_Header`, `Height`, `Form`, `Strength`, `Weight`, `Time`, `Dosage`, `HDL`



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This pipeline extracts `Procedure` entities from clinical texts and map them to their corresponding ICD-10-PCS codes using `sbiobert_base_cased_mli` Sentence Bert Embeddings.

## Predicted Entities

`Procedure`

{:.btn-box}
<button class="button button-orange" disabled>Live Demo</button>
<button class="button button-orange" disabled>Open in Colab</button>
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This pipeline extracts `Procedure` entities from clinical texts and map them to their corresponding ICD-10-PCS codes using `sbiobert_base_cased_mli` Sentence Bert Embeddings.

## Predicted Entities

`Procedure`

{:.btn-box}
<button class="button button-orange" disabled>Live Demo</button>
<button class="button button-orange" disabled>Open in Colab</button>
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This pipeline extracts `Procedure` entities from clinical texts and map them to their corresponding ICD-10-PCS codes using `sbiobert_base_cased_mli` Sentence Bert Embeddings.

## Predicted Entities

`Procedure`

{:.btn-box}
<button class="button button-orange" disabled>Live Demo</button>
<button class="button button-orange" disabled>Open in Colab</button>
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This pretrained pipeline is built on the top of [ner_bionlp_biobert](https://nlp.johnsnowlabs.com/2021/04/01/ner_bionlp_biobert_en.html) model.

## Predicted Entities

`Gene_or_gene_product`, `Cancer`, `Cell`, `Cellular_component`, `Organism`, `Multi-tissue_structure`, `Developing_anatomical_structure`, `Amino_acid`, `Organ`, `Anatomical_system`, `Tissue`, `Organism_subdivision`, `Simple_chemical`, `Organism_substance`, `Immaterial_anatomical_entity`, `Pathological_formation`

{:.btn-box}
<button class="button button-orange" disabled>Live Demo</button>
<button class="button button-orange" disabled>Open in Colab</button>
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Expand Up @@ -21,6 +21,10 @@ use_language_switcher: "Python-Scala-Java"

This pretrained pipeline is built on the top of [ner_chemprot_biobert](https://nlp.johnsnowlabs.com/2021/04/01/ner_chemprot_biobert_en.html) model.

## Predicted Entities

`GENE-N`, `CHEMICAL`, `GENE-Y`

{:.btn-box}
<button class="button button-orange" disabled>Live Demo</button>
<button class="button button-orange" disabled>Open in Colab</button>
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Expand Up @@ -21,6 +21,10 @@ use_language_switcher: "Python-Scala-Java"

This pretrained pipeline is built on the top of [ner_clinical_biobert](https://nlp.johnsnowlabs.com/2021/04/01/ner_clinical_biobert_en.html) model.

## Predicted Entities

`TREATMENT`, `PROBLEM`, `TEST`

{:.btn-box}
<button class="button button-orange" disabled>Live Demo</button>
<button class="button button-orange" disabled>Open in Colab</button>
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Expand Up @@ -21,6 +21,10 @@ use_language_switcher: "Python-Scala-Java"

This pretrained pipeline is built on the top of [ner_events_biobert](https://nlp.johnsnowlabs.com/2021/04/01/ner_events_biobert_en.html) model.

## Predicted Entities

`SPECIES`, `HUMAN`

{:.btn-box}
<button class="button button-orange" disabled>Live Demo</button>
<button class="button button-orange" disabled>Open in Colab</button>
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This pretrained pipeline is built on the top of [re_test_result_date](https://nlp.johnsnowlabs.com/2021/02/24/re_test_result_date_en.html) model.

## Predicted Entities

`Injury_or_Poisoning`, `Direction`, `Test`, `Route`, `Admission_Discharge`, `Death_Entity`, `Triglycerides`, `Oxygen_Therapy`, `Relationship_Status`, `Duration`, `Alcohol`, `Date`, `Drug`, `Hyperlipidemia`, `Respiration`, `Birth_Entity`, `VS_Finding`, `Age`, `Social_History_Header`, `Family_History_Header`, `Medical_Device`, `Labour_Delivery`, `BMI`, `Fetus_NewBorn`, `Temperature`, `Section_Header`, `Communicable_Disease`, `ImagingFindings`, `Psychological_Condition`, `Obesity`, `Sexually_Active_or_Sexual_Orientation`, `Modifier`, `Vaccine`, `Symptom`, `Pulse`, `Kidney_Disease`, `Oncological`, `EKG_Findings`, `Medical_History_Header`, `Cerebrovascular_Disease`, `Blood_Pressure`, `Diabetes`, `O2_Saturation`, `Heart_Disease`, `Employment`, `Frequency`, `Disease_Syndrome_Disorder`, `Pregnancy`, `RelativeDate`, `Procedure`, `Overweight`, `Race_Ethnicity`, `Hypertension`, `External_body_part_or_region`, `Imaging_Technique`, `Test_Result`, `Treatment`, `Substance`, `Clinical_Dept`, `LDL`, `Diet`, `Substance_Quantity`, `Allergen`, `Gender`, `RelativeTime`, `Total_Cholesterol`, `Internal_organ_or_component`, `Smoking`, `Vital_Signs_Header`, `Height`, `Form`, `Strength`, `Weight`, `Time`, `Dosage`, `HDL`


{:.btn-box}
[Live Demo](https://demo.johnsnowlabs.com/healthcare/RE_CLINICAL_DATE/){:.button.button-orange}{:target="_blank"}
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