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| { | |
| "instruction": "Based on the provided clinical JSON, predict if the patient will have a 5-year recurrence. Respond with 'Yes' or 'No' and provide a brief clinical rationale based on the patient profile.", | |
| "input": "{\"demographics\": {\"SUBTYPE\": \"BRCA_LumA\", \"CANCER_TYPE_ACRONYM\": \"BRCA\", \"OTHER_PATIENT_ID\": \"6E7D5EC6-A469-467C-B748-237353C23416\", \"AGE\": 55, \"SEX\": \"Female\", \"AJCC_PATHOLOGIC_TUMOR_STAGE\": \"STAGE X\", \"AJCC_STAGING_EDITION\": \"6TH\", \"DAYS_LAST_FOLLOWUP\": 4047.0, \"DAYS_TO_BIRTH\": -20211.0, \"DAYS_TO_INITIAL_PATHOLOGIC_DIAGNOSIS\": 0, \"ETHNICITY\": \"Not Hispanic Or Latino\", \"FORM_COMPLETION_DATE\": \"1/13/2014\", \"HISTORY_NEOADJUVANT_TRTYN\": \"No\", \"ICD_10\": \"C50.9\", \"ICD_O_3_HISTOLOGY\": \"8520/3\", \"ICD_O_3_SITE\": \"C50.9\", \"INFORMED_CONSENT_VERIFIED\": \"Yes\", \"NEW_TUMOR_EVENT_AFTER_INITIAL_TREATMENT\": \"No\", \"PATH_M_STAGE\": \"MX\", \"PATH_N_STAGE\": \"NX\", \"PATH_T_STAGE\": \"TX\", \"PERSON_NEOPLASM_CANCER_STATUS\": \"With Tumor\", \"PRIMARY_LYMPH_NODE_PRESENTATION_ASSESSMENT\": \"Yes\", \"PRIOR_DX\": \"No\", \"RACE\": \"White\", \"RADIATION_THERAPY\": \"No\", \"WEIGHT\": null, \"IN_PANCANPATHWAYS_FREEZE\": \"Yes\", \"OS_STATUS\": \"0:LIVING\", \"OS_MONTHS\": 133.0505967, \"DSS_STATUS\": \"0:ALIVE OR DEAD TUMOR FREE\", \"DSS_MONTHS\": 133.0505967, \"DFS_STATUS\": \"1:Recurred/Progressed\", \"DFS_MONTHS\": 59.44044449, \"PFS_STATUS\": \"1:PROGRESSION\", \"PFS_MONTHS\": 59.44044449, \"GENETIC_ANCESTRY_LABEL\": \"EUR\"}, \"sample\": {\"SAMPLE_ID\": \"TCGA-3C-AAAU-01\", \"ONCOTREE_CODE\": \"ILC\", \"CANCER_TYPE\": \"Breast Cancer\", \"CANCER_TYPE_DETAILED\": \"Breast Invasive Lobular Carcinoma\", \"TUMOR_TYPE\": \"Infiltrating Lobular Carcinoma\", \"GRADE\": null, \"TISSUE_PROSPECTIVE_COLLECTION_INDICATOR\": \"No\", \"TISSUE_RETROSPECTIVE_COLLECTION_INDICATOR\": \"Yes\", \"TISSUE_SOURCE_SITE_CODE\": \"3C\", \"TUMOR_TISSUE_SITE\": \"Breast\", \"ANEUPLOIDY_SCORE\": 19.0, \"SAMPLE_TYPE\": \"Primary\", \"MSI_SCORE_MANTIS\": 0.3319, \"MSI_SENSOR_SCORE\": 0.55, \"SOMATIC_STATUS\": \"Matched\", \"TMB_NONSYNONYMOUS\": 0.8, \"TISSUE_SOURCE_SITE\": \"Columbia University\", \"TBL_SCORE\": 205.0}, \"treatments\": [{\"START_DATE\": 1828, \"STOP_DATE\": null, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Chemotherapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Goserelin\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": null, \"MEASURE_OF_RESPONSE\": null, \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"THERAPY_ONGOING\": \"Yes\", \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": \"Yes\", \"ANATOMIC_TREATMENT_SITE\": null, \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": null, \"RADIATION_DOSAGE\": null, \"RADIATION_TREATMENT_ONGOING\": null, \"RADIATION_TYPE\": null, \"RADIATION_TYPE_NOTES\": null, \"RADIATION_UNITS\": null}]}", | |
| "output": "Yes. [Rationale: This prediction is based on the patient's specific BRCA demographics, tumor characteristics, and treatment history.]" | |
| }, | |
| { | |
| "instruction": "Based on the provided clinical JSON, predict if the patient will have a 5-year recurrence. Respond with 'Yes' or 'No' and provide a brief clinical rationale based on the patient profile.", | |
| "input": "{\"demographics\": {\"SUBTYPE\": \"BRCA_Her2\", \"CANCER_TYPE_ACRONYM\": \"BRCA\", \"OTHER_PATIENT_ID\": \"55262FCB-1B01-4480-B322-36570430C917\", \"AGE\": 50, \"SEX\": \"Female\", \"AJCC_PATHOLOGIC_TUMOR_STAGE\": \"STAGE IIB\", \"AJCC_STAGING_EDITION\": \"6TH\", \"DAYS_LAST_FOLLOWUP\": 4005.0, \"DAYS_TO_BIRTH\": -18538.0, \"DAYS_TO_INITIAL_PATHOLOGIC_DIAGNOSIS\": 0, \"ETHNICITY\": \"Not Hispanic Or Latino\", \"FORM_COMPLETION_DATE\": \"7/28/2014\", \"HISTORY_NEOADJUVANT_TRTYN\": \"No\", \"ICD_10\": \"C50.9\", \"ICD_O_3_HISTOLOGY\": \"8500/3\", \"ICD_O_3_SITE\": \"C50.9\", \"INFORMED_CONSENT_VERIFIED\": \"Yes\", \"NEW_TUMOR_EVENT_AFTER_INITIAL_TREATMENT\": \"No\", \"PATH_M_STAGE\": \"M0\", \"PATH_N_STAGE\": \"N1A\", \"PATH_T_STAGE\": \"T2\", \"PERSON_NEOPLASM_CANCER_STATUS\": \"Tumor Free\", \"PRIMARY_LYMPH_NODE_PRESENTATION_ASSESSMENT\": \"Yes\", \"PRIOR_DX\": \"No\", \"RACE\": \"Black or African American\", \"RADIATION_THERAPY\": \"Yes\", \"WEIGHT\": null, \"IN_PANCANPATHWAYS_FREEZE\": \"Yes\", \"OS_STATUS\": \"0:LIVING\", \"OS_MONTHS\": 131.6697899, \"DSS_STATUS\": \"0:ALIVE OR DEAD TUMOR FREE\", \"DSS_MONTHS\": 131.6697899, \"DFS_STATUS\": \"0:DiseaseFree\", \"DFS_MONTHS\": 131.6697899, \"PFS_STATUS\": \"0:CENSORED\", \"PFS_MONTHS\": 131.6697899, \"GENETIC_ANCESTRY_LABEL\": \"AFR\"}, \"sample\": {\"SAMPLE_ID\": \"TCGA-3C-AALI-01\", \"ONCOTREE_CODE\": \"IDC\", \"CANCER_TYPE\": \"Breast Cancer\", \"CANCER_TYPE_DETAILED\": \"Breast Invasive Ductal Carcinoma\", \"TUMOR_TYPE\": \"Infiltrating Ductal Carcinoma\", \"GRADE\": null, \"TISSUE_PROSPECTIVE_COLLECTION_INDICATOR\": \"No\", \"TISSUE_RETROSPECTIVE_COLLECTION_INDICATOR\": \"Yes\", \"TISSUE_SOURCE_SITE_CODE\": \"3C\", \"TUMOR_TISSUE_SITE\": \"Breast\", \"ANEUPLOIDY_SCORE\": 22.0, \"SAMPLE_TYPE\": \"Primary\", \"MSI_SCORE_MANTIS\": 0.3449, \"MSI_SENSOR_SCORE\": 0.74, \"SOMATIC_STATUS\": \"Matched\", \"TMB_NONSYNONYMOUS\": 15.26666667, \"TISSUE_SOURCE_SITE\": \"Columbia University\", \"TBL_SCORE\": 190.0}, \"treatments\": [{\"START_DATE\": 43, \"STOP_DATE\": 117.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Other\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Poly E\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": null, \"MEASURE_OF_RESPONSE\": \"Complete Response\", \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"THERAPY_ONGOING\": \"No\", \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": \"Yes\", \"ANATOMIC_TREATMENT_SITE\": null, \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": null, \"RADIATION_DOSAGE\": null, \"RADIATION_TREATMENT_ONGOING\": null, \"RADIATION_TYPE\": null, \"RADIATION_TYPE_NOTES\": null, \"RADIATION_UNITS\": null}, {\"START_DATE\": 320, \"STOP_DATE\": 352.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Radiation Therapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Radiation 1\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": null, \"MEASURE_OF_RESPONSE\": null, \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"THERAPY_ONGOING\": null, \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": null, \"ANATOMIC_TREATMENT_SITE\": \"Primary Tumor Field\", \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": \"25\", \"RADIATION_DOSAGE\": \"5000\", \"RADIATION_TREATMENT_ONGOING\": \"No\", \"RADIATION_TYPE\": null, \"RADIATION_TYPE_NOTES\": null, \"RADIATION_UNITS\": \"cgy\"}]}", | |
| "output": "No. [Rationale: This prediction is based on the patient's specific BRCA demographics, tumor characteristics, and treatment history.]" | |
| }, | |
| { | |
| "instruction": "Based on the provided clinical JSON, predict if the patient will have a 5-year recurrence. Respond with 'Yes' or 'No' and provide a brief clinical rationale based on the patient profile.", | |
| "input": "{\"demographics\": {\"SUBTYPE\": \"BLCA\", \"CANCER_TYPE_ACRONYM\": \"BLCA\", \"OTHER_PATIENT_ID\": \"DD3A6357-9087-44B2-9956-F981E0DE6F1C\", \"AGE\": 63, \"SEX\": \"Male\", \"AJCC_PATHOLOGIC_TUMOR_STAGE\": \"STAGE IV\", \"AJCC_STAGING_EDITION\": \"6TH\", \"DAYS_LAST_FOLLOWUP\": 678.0, \"DAYS_TO_BIRTH\": -23323.0, \"DAYS_TO_INITIAL_PATHOLOGIC_DIAGNOSIS\": 0, \"ETHNICITY\": \"Not Hispanic Or Latino\", \"FORM_COMPLETION_DATE\": \"3/19/2014\", \"HISTORY_NEOADJUVANT_TRTYN\": \"No\", \"ICD_10\": \"C67.4\", \"ICD_O_3_HISTOLOGY\": \"8120/3\", \"ICD_O_3_SITE\": \"C67.4\", \"INFORMED_CONSENT_VERIFIED\": \"Yes\", \"NEW_TUMOR_EVENT_AFTER_INITIAL_TREATMENT\": \"Yes\", \"PATH_M_STAGE\": \"M0\", \"PATH_N_STAGE\": \"N1\", \"PATH_T_STAGE\": \"T3\", \"PERSON_NEOPLASM_CANCER_STATUS\": \"With Tumor\", \"PRIMARY_LYMPH_NODE_PRESENTATION_ASSESSMENT\": \"Yes\", \"PRIOR_DX\": \"No\", \"RACE\": \"White\", \"RADIATION_THERAPY\": \"No\", \"WEIGHT\": 65.0, \"IN_PANCANPATHWAYS_FREEZE\": \"Yes\", \"OS_STATUS\": \"1:DECEASED\", \"OS_MONTHS\": 24.1312424, \"DSS_STATUS\": \"1:DEAD WITH TUMOR\", \"DSS_MONTHS\": 24.1312424, \"DFS_STATUS\": null, \"DFS_MONTHS\": null, \"PFS_STATUS\": \"1:PROGRESSION\", \"PFS_MONTHS\": 21.40250518, \"GENETIC_ANCESTRY_LABEL\": \"EUR\"}, \"sample\": {\"SAMPLE_ID\": \"TCGA-2F-A9KO-01\", \"ONCOTREE_CODE\": \"BLCA\", \"CANCER_TYPE\": \"Bladder Cancer\", \"CANCER_TYPE_DETAILED\": \"Bladder Urothelial Carcinoma\", \"TUMOR_TYPE\": \"Muscle Invasive Urothelial Carcinoma (PT2 or Above)\", \"GRADE\": \"High Grade\", \"TISSUE_PROSPECTIVE_COLLECTION_INDICATOR\": \"No\", \"TISSUE_RETROSPECTIVE_COLLECTION_INDICATOR\": \"Yes\", \"TISSUE_SOURCE_SITE_CODE\": \"2F\", \"TUMOR_TISSUE_SITE\": \"Bladder\", \"ANEUPLOIDY_SCORE\": 19.0, \"SAMPLE_TYPE\": \"Primary\", \"MSI_SCORE_MANTIS\": 0.3271, \"MSI_SENSOR_SCORE\": 0.0, \"SOMATIC_STATUS\": \"Matched\", \"TMB_NONSYNONYMOUS\": 16.66666667, \"TISSUE_SOURCE_SITE\": \"Erasmus MC\", \"TBL_SCORE\": 214.0}, \"treatments\": []}", | |
| "output": "Yes. [Rationale: This prediction is based on the patient's specific BLCA demographics, tumor characteristics, and treatment history.]" | |
| }, | |
| { | |
| "instruction": "Based on the provided clinical JSON, predict if the patient will have a 5-year recurrence. Respond with 'Yes' or 'No' and provide a brief clinical rationale based on the patient profile.", | |
| "input": "{\"demographics\": {\"SUBTYPE\": \"BLCA\", \"CANCER_TYPE_ACRONYM\": \"BLCA\", \"OTHER_PATIENT_ID\": \"65D1EAEC-28DB-4A41-A4DB-1A710FCB24AD\", \"AGE\": 66, \"SEX\": \"Male\", \"AJCC_PATHOLOGIC_TUMOR_STAGE\": \"STAGE IV\", \"AJCC_STAGING_EDITION\": \"7TH\", \"DAYS_LAST_FOLLOWUP\": null, \"DAYS_TO_BIRTH\": -24428.0, \"DAYS_TO_INITIAL_PATHOLOGIC_DIAGNOSIS\": 0, \"ETHNICITY\": \"Not Hispanic Or Latino\", \"FORM_COMPLETION_DATE\": \"3/19/2014\", \"HISTORY_NEOADJUVANT_TRTYN\": \"No\", \"ICD_10\": \"C67.2\", \"ICD_O_3_HISTOLOGY\": \"8120/3\", \"ICD_O_3_SITE\": \"C67.2\", \"INFORMED_CONSENT_VERIFIED\": \"Yes\", \"NEW_TUMOR_EVENT_AFTER_INITIAL_TREATMENT\": \"Yes\", \"PATH_M_STAGE\": \"MX\", \"PATH_N_STAGE\": \"N2\", \"PATH_T_STAGE\": \"T3A\", \"PERSON_NEOPLASM_CANCER_STATUS\": \"With Tumor\", \"PRIMARY_LYMPH_NODE_PRESENTATION_ASSESSMENT\": \"Yes\", \"PRIOR_DX\": \"No\", \"RACE\": \"White\", \"RADIATION_THERAPY\": \"No\", \"WEIGHT\": 130.0, \"IN_PANCANPATHWAYS_FREEZE\": \"Yes\", \"OS_STATUS\": \"1:DECEASED\", \"OS_MONTHS\": 11.96699214, \"DSS_STATUS\": \"1:DEAD WITH TUMOR\", \"DSS_MONTHS\": 11.96699214, \"DFS_STATUS\": null, \"DFS_MONTHS\": null, \"PFS_STATUS\": \"1:PROGRESSION\", \"PFS_MONTHS\": 11.27658875, \"GENETIC_ANCESTRY_LABEL\": \"EUR\"}, \"sample\": {\"SAMPLE_ID\": \"TCGA-2F-A9KP-01\", \"ONCOTREE_CODE\": \"BLCA\", \"CANCER_TYPE\": \"Bladder Cancer\", \"CANCER_TYPE_DETAILED\": \"Bladder Urothelial Carcinoma\", \"TUMOR_TYPE\": \"Muscle Invasive Urothelial Carcinoma (PT2 or Above)\", \"GRADE\": \"High Grade\", \"TISSUE_PROSPECTIVE_COLLECTION_INDICATOR\": \"No\", \"TISSUE_RETROSPECTIVE_COLLECTION_INDICATOR\": \"Yes\", \"TISSUE_SOURCE_SITE_CODE\": \"2F\", \"TUMOR_TISSUE_SITE\": \"Bladder\", \"ANEUPLOIDY_SCORE\": 10.0, \"SAMPLE_TYPE\": \"Primary\", \"MSI_SCORE_MANTIS\": 0.3234, \"MSI_SENSOR_SCORE\": 0.17, \"SOMATIC_STATUS\": \"Matched\", \"TMB_NONSYNONYMOUS\": 4.4, \"TISSUE_SOURCE_SITE\": \"Erasmus MC\", \"TBL_SCORE\": 270.0}, \"treatments\": []}", | |
| "output": "Yes. [Rationale: This prediction is based on the patient's specific BLCA demographics, tumor characteristics, and treatment history.]" | |
| }, | |
| { | |
| "instruction": "Based on the provided clinical JSON, predict if the patient will have a 5-year recurrence. Respond with 'Yes' or 'No' and provide a brief clinical rationale based on the patient profile.", | |
| "input": "{\"demographics\": {\"SUBTYPE\": \"HNSC_HPV-\", \"CANCER_TYPE_ACRONYM\": \"HNSC\", \"OTHER_PATIENT_ID\": \"a63ca97d-ef31-4118-9547-a6730967290f\", \"AGE\": 69.0, \"SEX\": \"Male\", \"AJCC_PATHOLOGIC_TUMOR_STAGE\": \"STAGE IVA\", \"AJCC_STAGING_EDITION\": \"6TH\", \"DAYS_LAST_FOLLOWUP\": null, \"DAYS_TO_BIRTH\": -25282.0, \"DAYS_TO_INITIAL_PATHOLOGIC_DIAGNOSIS\": 0.0, \"ETHNICITY\": \"Not Hispanic Or Latino\", \"FORM_COMPLETION_DATE\": \"1/14/2011\", \"HISTORY_NEOADJUVANT_TRTYN\": \"No\", \"ICD_10\": \"C02.9\", \"ICD_O_3_HISTOLOGY\": \"8070/3\", \"ICD_O_3_SITE\": \"C02.9\", \"INFORMED_CONSENT_VERIFIED\": \"Yes\", \"NEW_TUMOR_EVENT_AFTER_INITIAL_TREATMENT\": \"Yes\", \"PATH_M_STAGE\": \"M0\", \"PATH_N_STAGE\": \"N2C\", \"PATH_T_STAGE\": \"T2\", \"PERSON_NEOPLASM_CANCER_STATUS\": \"With Tumor\", \"PRIMARY_LYMPH_NODE_PRESENTATION_ASSESSMENT\": \"Yes\", \"PRIOR_DX\": \"No\", \"RACE\": \"White\", \"RADIATION_THERAPY\": \"Yes\", \"WEIGHT\": null, \"IN_PANCANPATHWAYS_FREEZE\": \"Yes\", \"OS_STATUS\": \"1:DECEASED\", \"OS_MONTHS\": 15.18887464, \"DSS_STATUS\": \"1:DEAD WITH TUMOR\", \"DSS_MONTHS\": 15.18887464, \"DFS_STATUS\": null, \"DFS_MONTHS\": null, \"PFS_STATUS\": \"1:PROGRESSION\", \"PFS_MONTHS\": 13.01903541, \"GENETIC_ANCESTRY_LABEL\": \"EUR\"}, \"sample\": {\"SAMPLE_ID\": \"TCGA-BA-4074-01\", \"ONCOTREE_CODE\": \"HNSC\", \"CANCER_TYPE\": \"Head and Neck Cancer\", \"CANCER_TYPE_DETAILED\": \"Head and Neck Squamous Cell Carcinoma\", \"TUMOR_TYPE\": \"Head and Neck Squamous Cell Carcinoma\", \"GRADE\": \"G3\", \"TISSUE_PROSPECTIVE_COLLECTION_INDICATOR\": \"No\", \"TISSUE_RETROSPECTIVE_COLLECTION_INDICATOR\": \"Yes\", \"TISSUE_SOURCE_SITE_CODE\": \"BA\", \"TUMOR_TISSUE_SITE\": \"Head and Neck\", \"ANEUPLOIDY_SCORE\": 14.0, \"SAMPLE_TYPE\": \"Primary\", \"MSI_SCORE_MANTIS\": 0.2807, \"MSI_SENSOR_SCORE\": 0.28, \"SOMATIC_STATUS\": \"Matched\", \"TMB_NONSYNONYMOUS\": 4.233333333, \"TISSUE_SOURCE_SITE\": \"UNC\", \"TBL_SCORE\": 79.0}, \"treatments\": [{\"START_DATE\": 45, \"STOP_DATE\": 97.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Chemotherapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Carboplatin\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": 1.0, \"REGIMEN_INDICATION\": \"Adjuvant\", \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": null, \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": \"No\", \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": null, \"ANATOMIC_TREATMENT_SITE\": null, \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": null, \"RADIATION_DOSAGE\": null, \"RADIATION_TREATMENT_ONGOING\": null, \"RADIATION_TYPE\": null, \"RADIATION_UNITS\": null, \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}, {\"START_DATE\": 425, \"STOP_DATE\": 431.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Radiation Therapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Radiation 1\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": \"Palliative\", \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": null, \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": null, \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": null, \"ANATOMIC_TREATMENT_SITE\": null, \"COURSE_NUMBER\": 2.0, \"NUMBER_OF_FRACTIONS\": 5.0, \"RADIATION_DOSAGE\": 2000.0, \"RADIATION_TREATMENT_ONGOING\": \"No\", \"RADIATION_TYPE\": null, \"RADIATION_UNITS\": \"cgy\", \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}, {\"START_DATE\": 45, \"STOP_DATE\": 97.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Radiation Therapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Radiation 2\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": \"Adjuvant\", \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": null, \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": null, \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": null, \"ANATOMIC_TREATMENT_SITE\": \"Primary Tumor Field\", \"COURSE_NUMBER\": 1.0, \"NUMBER_OF_FRACTIONS\": 33.0, \"RADIATION_DOSAGE\": 6600.0, \"RADIATION_TREATMENT_ONGOING\": \"No\", \"RADIATION_TYPE\": \"External Beam\", \"RADIATION_UNITS\": \"cgy\", \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}]}", | |
| "output": "Yes. [Rationale: This prediction is based on the patient's specific HNSC demographics, tumor characteristics, and treatment history.]" | |
| }, | |
| { | |
| "instruction": "Based on the provided clinical JSON, predict if the patient will have a 5-year recurrence. Respond with 'Yes' or 'No' and provide a brief clinical rationale based on the patient profile.", | |
| "input": "{\"demographics\": {\"SUBTYPE\": \"HNSC_HPV-\", \"CANCER_TYPE_ACRONYM\": \"HNSC\", \"OTHER_PATIENT_ID\": \"7de19081-d5fd-468c-ad0d-f6e3e8b2ad70\", \"AGE\": 39.0, \"SEX\": \"Male\", \"AJCC_PATHOLOGIC_TUMOR_STAGE\": null, \"AJCC_STAGING_EDITION\": \"6TH\", \"DAYS_LAST_FOLLOWUP\": null, \"DAYS_TO_BIRTH\": -14405.0, \"DAYS_TO_INITIAL_PATHOLOGIC_DIAGNOSIS\": 0.0, \"ETHNICITY\": \"Not Hispanic Or Latino\", \"FORM_COMPLETION_DATE\": \"12/10/2010\", \"HISTORY_NEOADJUVANT_TRTYN\": \"No\", \"ICD_10\": \"C32.9\", \"ICD_O_3_HISTOLOGY\": \"8070/3\", \"ICD_O_3_SITE\": \"C32.9\", \"INFORMED_CONSENT_VERIFIED\": \"Yes\", \"NEW_TUMOR_EVENT_AFTER_INITIAL_TREATMENT\": \"Yes\", \"PATH_M_STAGE\": null, \"PATH_N_STAGE\": \"NX\", \"PATH_T_STAGE\": \"TX\", \"PERSON_NEOPLASM_CANCER_STATUS\": \"With Tumor\", \"PRIMARY_LYMPH_NODE_PRESENTATION_ASSESSMENT\": \"No\", \"PRIOR_DX\": \"No\", \"RACE\": \"White\", \"RADIATION_THERAPY\": \"Yes\", \"WEIGHT\": null, \"IN_PANCANPATHWAYS_FREEZE\": \"Yes\", \"OS_STATUS\": \"1:DECEASED\", \"OS_MONTHS\": 13.6436861, \"DSS_STATUS\": \"1:DEAD WITH TUMOR\", \"DSS_MONTHS\": 13.6436861, \"DFS_STATUS\": null, \"DFS_MONTHS\": null, \"PFS_STATUS\": \"1:PROGRESSION\", \"PFS_MONTHS\": 9.402636683, \"GENETIC_ANCESTRY_LABEL\": \"EUR\"}, \"sample\": {\"SAMPLE_ID\": \"TCGA-BA-4076-01\", \"ONCOTREE_CODE\": \"HNSC\", \"CANCER_TYPE\": \"Head and Neck Cancer\", \"CANCER_TYPE_DETAILED\": \"Head and Neck Squamous Cell Carcinoma\", \"TUMOR_TYPE\": \"Head and Neck Squamous Cell Carcinoma\", \"GRADE\": \"G2\", \"TISSUE_PROSPECTIVE_COLLECTION_INDICATOR\": \"No\", \"TISSUE_RETROSPECTIVE_COLLECTION_INDICATOR\": \"Yes\", \"TISSUE_SOURCE_SITE_CODE\": \"BA\", \"TUMOR_TISSUE_SITE\": \"Head and Neck\", \"ANEUPLOIDY_SCORE\": 9.0, \"SAMPLE_TYPE\": \"Primary\", \"MSI_SCORE_MANTIS\": 0.3007, \"MSI_SENSOR_SCORE\": 1.17, \"SOMATIC_STATUS\": \"Matched\", \"TMB_NONSYNONYMOUS\": 9.833333333, \"TISSUE_SOURCE_SITE\": \"UNC\", \"TBL_SCORE\": 138.0}, \"treatments\": [{\"START_DATE\": 18, \"STOP_DATE\": 64.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Chemotherapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Fluorouracil\", \"NUMBER_OF_CYCLES\": 2.0, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": 1.0, \"REGIMEN_INDICATION\": \"Adjuvant\", \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": null, \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": \"No\", \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": null, \"ANATOMIC_TREATMENT_SITE\": null, \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": null, \"RADIATION_DOSAGE\": null, \"RADIATION_TREATMENT_ONGOING\": null, \"RADIATION_TYPE\": null, \"RADIATION_UNITS\": null, \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}, {\"START_DATE\": 18, \"STOP_DATE\": 64.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Chemotherapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Cisplatin\", \"NUMBER_OF_CYCLES\": 2.0, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": 1.0, \"REGIMEN_INDICATION\": \"Adjuvant\", \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": null, \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": \"No\", \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": null, \"ANATOMIC_TREATMENT_SITE\": null, \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": null, \"RADIATION_DOSAGE\": null, \"RADIATION_TREATMENT_ONGOING\": null, \"RADIATION_TYPE\": null, \"RADIATION_UNITS\": null, \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}, {\"START_DATE\": 18, \"STOP_DATE\": 64.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Radiation Therapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Radiation 1\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": \"Adjuvant\", \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": null, \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": null, \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": null, \"ANATOMIC_TREATMENT_SITE\": \"Primary Tumor Field\", \"COURSE_NUMBER\": 1.0, \"NUMBER_OF_FRACTIONS\": null, \"RADIATION_DOSAGE\": 6800.0, \"RADIATION_TREATMENT_ONGOING\": \"No\", \"RADIATION_TYPE\": null, \"RADIATION_UNITS\": \"cgy\", \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}]}", | |
| "output": "Yes. [Rationale: This prediction is based on the patient's specific HNSC demographics, tumor characteristics, and treatment history.]" | |
| }, | |
| { | |
| "instruction": "Based on the provided clinical JSON, predict if the patient will have a 5-year recurrence. Respond with 'Yes' or 'No' and provide a brief clinical rationale based on the patient profile.", | |
| "input": "{\"demographics\": {\"SUBTYPE\": \"LUAD\", \"CANCER_TYPE_ACRONYM\": \"LUAD\", \"OTHER_PATIENT_ID\": \"3434b91a-c05f-460f-a078-7b1bb6e7085d\", \"AGE\": 68.0, \"SEX\": \"Male\", \"AJCC_PATHOLOGIC_TUMOR_STAGE\": \"STAGE IB\", \"AJCC_STAGING_EDITION\": \"6TH\", \"DAYS_LAST_FOLLOWUP\": 607.0, \"DAYS_TO_BIRTH\": -24868.0, \"DAYS_TO_INITIAL_PATHOLOGIC_DIAGNOSIS\": 0.0, \"ETHNICITY\": null, \"FORM_COMPLETION_DATE\": \"7/22/2010\", \"HISTORY_NEOADJUVANT_TRTYN\": \"No\", \"ICD_10\": \"C34.1\", \"ICD_O_3_HISTOLOGY\": \"8255/3\", \"ICD_O_3_SITE\": \"C34.1\", \"INFORMED_CONSENT_VERIFIED\": \"Yes\", \"NEW_TUMOR_EVENT_AFTER_INITIAL_TREATMENT\": \"Yes\", \"PATH_M_STAGE\": \"M0\", \"PATH_N_STAGE\": \"N0\", \"PATH_T_STAGE\": \"T2\", \"PERSON_NEOPLASM_CANCER_STATUS\": \"Tumor Free\", \"PRIMARY_LYMPH_NODE_PRESENTATION_ASSESSMENT\": null, \"PRIOR_DX\": \"Yes\", \"RACE\": null, \"RADIATION_THERAPY\": \"Yes\", \"WEIGHT\": null, \"IN_PANCANPATHWAYS_FREEZE\": \"Yes\", \"OS_STATUS\": \"0:LIVING\", \"OS_MONTHS\": 19.95594569, \"DSS_STATUS\": \"0:ALIVE OR DEAD TUMOR FREE\", \"DSS_MONTHS\": 19.95594569, \"DFS_STATUS\": \"1:Recurred/Progressed\", \"DFS_MONTHS\": 10.98070158, \"PFS_STATUS\": \"1:PROGRESSION\", \"PFS_MONTHS\": 10.98070158, \"GENETIC_ANCESTRY_LABEL\": \"EUR\"}, \"sample\": {\"SAMPLE_ID\": \"TCGA-05-4382-01\", \"ONCOTREE_CODE\": \"LUAD\", \"CANCER_TYPE\": \"Non-Small Cell Lung Cancer\", \"CANCER_TYPE_DETAILED\": \"Lung Adenocarcinoma\", \"TUMOR_TYPE\": \"Lung Adenocarcinoma, Mixed Subtype\", \"GRADE\": null, \"TISSUE_PROSPECTIVE_COLLECTION_INDICATOR\": \"No\", \"TISSUE_RETROSPECTIVE_COLLECTION_INDICATOR\": \"Yes\", \"TISSUE_SOURCE_SITE_CODE\": \"5\", \"TUMOR_TISSUE_SITE\": \"Lung\", \"ANEUPLOIDY_SCORE\": 22.0, \"SAMPLE_TYPE\": \"Primary\", \"MSI_SCORE_MANTIS\": 0.3193, \"MSI_SENSOR_SCORE\": 0.05, \"SOMATIC_STATUS\": \"Matched\", \"TMB_NONSYNONYMOUS\": 51.73333333, \"TISSUE_SOURCE_SITE\": \"Indivumed\", \"TBL_SCORE\": 226.0}, \"treatments\": [{\"START_DATE\": 365, \"STOP_DATE\": 393.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Radiation Therapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Radiation 1\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": null, \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": \"complete response\", \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": null, \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": null, \"ANATOMIC_TREATMENT_SITE\": \"Distant Recurrence\", \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": null, \"RADIATION_DOSAGE\": null, \"RADIATION_TREATMENT_ONGOING\": \"No\", \"RADIATION_TYPE\": \"External\", \"RADIATION_UNITS\": \"gy\", \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}]}", | |
| "output": "Yes. [Rationale: This prediction is based on the patient's specific LUAD demographics, tumor characteristics, and treatment history.]" | |
| }, | |
| { | |
| "instruction": "Based on the provided clinical JSON, predict if the patient will have a 5-year recurrence. Respond with 'Yes' or 'No' and provide a brief clinical rationale based on the patient profile.", | |
| "input": "{\"demographics\": {\"SUBTYPE\": \"LUAD\", \"CANCER_TYPE_ACRONYM\": \"LUAD\", \"OTHER_PATIENT_ID\": \"9a50e7e4-831d-489f-87d2-979e987561cc\", \"AGE\": 66.0, \"SEX\": \"Male\", \"AJCC_PATHOLOGIC_TUMOR_STAGE\": \"STAGE IIIA\", \"AJCC_STAGING_EDITION\": \"6TH\", \"DAYS_LAST_FOLLOWUP\": 426.0, \"DAYS_TO_BIRTH\": -24411.0, \"DAYS_TO_INITIAL_PATHOLOGIC_DIAGNOSIS\": 0.0, \"ETHNICITY\": null, \"FORM_COMPLETION_DATE\": \"7/22/2010\", \"HISTORY_NEOADJUVANT_TRTYN\": \"No\", \"ICD_10\": \"C34.3\", \"ICD_O_3_HISTOLOGY\": \"8255/3\", \"ICD_O_3_SITE\": \"C34.3\", \"INFORMED_CONSENT_VERIFIED\": \"Yes\", \"NEW_TUMOR_EVENT_AFTER_INITIAL_TREATMENT\": \"Yes\", \"PATH_M_STAGE\": \"M0\", \"PATH_N_STAGE\": \"N2\", \"PATH_T_STAGE\": \"T2\", \"PERSON_NEOPLASM_CANCER_STATUS\": null, \"PRIMARY_LYMPH_NODE_PRESENTATION_ASSESSMENT\": null, \"PRIOR_DX\": \"Yes\", \"RACE\": null, \"RADIATION_THERAPY\": \"Yes\", \"WEIGHT\": null, \"IN_PANCANPATHWAYS_FREEZE\": \"Yes\", \"OS_STATUS\": \"0:LIVING\", \"OS_MONTHS\": 14.00532597, \"DSS_STATUS\": \"0:ALIVE OR DEAD TUMOR FREE\", \"DSS_MONTHS\": 14.00532597, \"DFS_STATUS\": null, \"DFS_MONTHS\": null, \"PFS_STATUS\": \"1:PROGRESSION\", \"PFS_MONTHS\": 6.016372423, \"GENETIC_ANCESTRY_LABEL\": \"EUR\"}, \"sample\": {\"SAMPLE_ID\": \"TCGA-05-4384-01\", \"ONCOTREE_CODE\": \"LUAD\", \"CANCER_TYPE\": \"Non-Small Cell Lung Cancer\", \"CANCER_TYPE_DETAILED\": \"Lung Adenocarcinoma\", \"TUMOR_TYPE\": \"Lung Adenocarcinoma, Mixed Subtype\", \"GRADE\": null, \"TISSUE_PROSPECTIVE_COLLECTION_INDICATOR\": \"No\", \"TISSUE_RETROSPECTIVE_COLLECTION_INDICATOR\": \"Yes\", \"TISSUE_SOURCE_SITE_CODE\": \"5\", \"TUMOR_TISSUE_SITE\": \"Lung\", \"ANEUPLOIDY_SCORE\": 1.0, \"SAMPLE_TYPE\": \"Primary\", \"MSI_SCORE_MANTIS\": 0.285, \"MSI_SENSOR_SCORE\": 0.0, \"SOMATIC_STATUS\": \"Matched\", \"TMB_NONSYNONYMOUS\": 3.966666667, \"TISSUE_SOURCE_SITE\": \"Indivumed\", \"TBL_SCORE\": 6.0}, \"treatments\": [{\"START_DATE\": 61, \"STOP_DATE\": 153.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Chemotherapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Cisplatin\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": null, \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": \"clinical progressive disease\", \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": \"No\", \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": \"No\", \"ANATOMIC_TREATMENT_SITE\": null, \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": null, \"RADIATION_DOSAGE\": null, \"RADIATION_TREATMENT_ONGOING\": null, \"RADIATION_TYPE\": null, \"RADIATION_UNITS\": null, \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}, {\"START_DATE\": 61, \"STOP_DATE\": 153.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Chemotherapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Vincristine\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": null, \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": \"clinical progressive disease\", \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": \"No\", \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": \"No\", \"ANATOMIC_TREATMENT_SITE\": null, \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": null, \"RADIATION_DOSAGE\": null, \"RADIATION_TREATMENT_ONGOING\": null, \"RADIATION_TYPE\": null, \"RADIATION_UNITS\": null, \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}, {\"START_DATE\": 395, \"STOP_DATE\": 426.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Chemotherapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Cisplatin\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": null, \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": \"clinical progressive disease\", \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": \"No\", \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": \"No\", \"ANATOMIC_TREATMENT_SITE\": null, \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": null, \"RADIATION_DOSAGE\": null, \"RADIATION_TREATMENT_ONGOING\": null, \"RADIATION_TYPE\": null, \"RADIATION_UNITS\": null, \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}, {\"START_DATE\": 245, \"STOP_DATE\": 426.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Ancillary\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Zoledronic Acid\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": null, \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": \"clinical progressive disease\", \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": \"No\", \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": \"No\", \"ANATOMIC_TREATMENT_SITE\": null, \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": null, \"RADIATION_DOSAGE\": null, \"RADIATION_TREATMENT_ONGOING\": null, \"RADIATION_TYPE\": null, \"RADIATION_UNITS\": null, \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}, {\"START_DATE\": 183, \"STOP_DATE\": 214.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Radiation Therapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Radiation 1\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": null, \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": \"radiographic progressive disease\", \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": null, \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": null, \"ANATOMIC_TREATMENT_SITE\": \"Distant Recurrence\", \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": null, \"RADIATION_DOSAGE\": null, \"RADIATION_TREATMENT_ONGOING\": \"No\", \"RADIATION_TYPE\": \"External\", \"RADIATION_UNITS\": \"gy\", \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}]}", | |
| "output": "Yes. [Rationale: This prediction is based on the patient's specific LUAD demographics, tumor characteristics, and treatment history.]" | |
| }, | |
| { | |
| "instruction": "Based on the provided clinical JSON, predict if the patient will have a 5-year recurrence. Respond with 'Yes' or 'No' and provide a brief clinical rationale based on the patient profile.", | |
| "input": "{\"demographics\": {\"SUBTYPE\": \"UCEC_CN_HIGH\", \"CANCER_TYPE_ACRONYM\": \"UCEC\", \"OTHER_PATIENT_ID\": \"9583C10B-B21A-4863-98FA-61E735E64EA5\", \"AGE\": 59.0, \"SEX\": \"Female\", \"AJCC_PATHOLOGIC_TUMOR_STAGE\": null, \"AJCC_STAGING_EDITION\": 2009.0, \"DAYS_LAST_FOLLOWUP\": \"1249\", \"DAYS_TO_BIRTH\": null, \"DAYS_TO_INITIAL_PATHOLOGIC_DIAGNOSIS\": 0.0, \"ETHNICITY\": \"Not Hispanic Or Latino\", \"FORM_COMPLETION_DATE\": \"5/21/2014\", \"HISTORY_NEOADJUVANT_TRTYN\": \"No\", \"ICD_10\": \"C54.3\", \"ICD_O_3_HISTOLOGY\": \"8380/3\", \"ICD_O_3_SITE\": \"C54.3\", \"INFORMED_CONSENT_VERIFIED\": \"Yes\", \"NEW_TUMOR_EVENT_AFTER_INITIAL_TREATMENT\": \"Yes\", \"PATH_M_STAGE\": null, \"PATH_N_STAGE\": null, \"PATH_T_STAGE\": null, \"PERSON_NEOPLASM_CANCER_STATUS\": \"Tumor Free\", \"PRIMARY_LYMPH_NODE_PRESENTATION_ASSESSMENT\": null, \"PRIOR_DX\": \"Yes\", \"RACE\": \"Black or African American\", \"RADIATION_THERAPY\": \"Yes\", \"WEIGHT\": 71.0, \"IN_PANCANPATHWAYS_FREEZE\": \"Yes\", \"OS_STATUS\": \"0:LIVING\", \"OS_MONTHS\": 41.0625637, \"DSS_STATUS\": \"0:ALIVE OR DEAD TUMOR FREE\", \"DSS_MONTHS\": 41.0625637, \"DFS_STATUS\": null, \"DFS_MONTHS\": null, \"PFS_STATUS\": \"1:PROGRESSION\", \"PFS_MONTHS\": 11.01357793, \"GENETIC_ANCESTRY_LABEL\": \"AFR\"}, \"sample\": {\"SAMPLE_ID\": \"TCGA-2E-A9G8-01\", \"ONCOTREE_CODE\": \"UEC\", \"CANCER_TYPE\": \"Endometrial Cancer\", \"CANCER_TYPE_DETAILED\": \"Uterine Endometrioid Carcinoma\", \"TUMOR_TYPE\": \"Endometrioid Endometrial Adenocarcinoma\", \"GRADE\": \"G2\", \"TISSUE_PROSPECTIVE_COLLECTION_INDICATOR\": \"No\", \"TISSUE_RETROSPECTIVE_COLLECTION_INDICATOR\": \"Yes\", \"TISSUE_SOURCE_SITE_CODE\": \"2E\", \"TUMOR_TISSUE_SITE\": \"Uterus\", \"ANEUPLOIDY_SCORE\": 9.0, \"SAMPLE_TYPE\": \"Primary\", \"MSI_SCORE_MANTIS\": 0.3234, \"MSI_SENSOR_SCORE\": 0.85, \"SOMATIC_STATUS\": \"Matched\", \"TMB_NONSYNONYMOUS\": 2.166666667, \"TISSUE_SOURCE_SITE\": \"University of Kansas Medical Center\", \"TBL_SCORE\": 236.0}, \"treatments\": [{\"START_DATE\": 488, \"STOP_DATE\": 580.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Chemotherapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Paclitaxel\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": null, \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": \"complete response\", \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": \"No\", \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": \"No\", \"ANATOMIC_TREATMENT_SITE\": null, \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": null, \"RADIATION_DOSAGE\": null, \"RADIATION_TREATMENT_ONGOING\": null, \"RADIATION_TYPE\": null, \"RADIATION_UNITS\": null, \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}, {\"START_DATE\": 488, \"STOP_DATE\": 610.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Chemotherapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Carboplatin\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": null, \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": \"complete response\", \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": \"No\", \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": \"No\", \"ANATOMIC_TREATMENT_SITE\": null, \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": null, \"RADIATION_DOSAGE\": null, \"RADIATION_TREATMENT_ONGOING\": null, \"RADIATION_TYPE\": null, \"RADIATION_UNITS\": null, \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}, {\"START_DATE\": 122, \"STOP_DATE\": 122.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Radiation Therapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Radiation 1\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": null, \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": \"stable disease\", \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": null, \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": null, \"ANATOMIC_TREATMENT_SITE\": \"Primary Tumor Field\", \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": 4.0, \"RADIATION_DOSAGE\": 2200.0, \"RADIATION_TREATMENT_ONGOING\": \"No\", \"RADIATION_TYPE\": \"Internal\", \"RADIATION_UNITS\": \"cgy\", \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}, {\"START_DATE\": 427, \"STOP_DATE\": 457.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Radiation Therapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Radiation 2\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": null, \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": \"complete response\", \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": null, \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": null, \"ANATOMIC_TREATMENT_SITE\": \"Regional Site\", \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": 25.0, \"RADIATION_DOSAGE\": 5000.0, \"RADIATION_TREATMENT_ONGOING\": \"No\", \"RADIATION_TYPE\": \"External\", \"RADIATION_UNITS\": \"cgy\", \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}]}", | |
| "output": "Yes. [Rationale: This prediction is based on the patient's specific UCEC demographics, tumor characteristics, and treatment history.]" | |
| }, | |
| { | |
| "instruction": "Based on the provided clinical JSON, predict if the patient will have a 5-year recurrence. Respond with 'Yes' or 'No' and provide a brief clinical rationale based on the patient profile.", | |
| "input": "{\"demographics\": {\"SUBTYPE\": \"UCEC_CN_HIGH\", \"CANCER_TYPE_ACRONYM\": \"UCEC\", \"OTHER_PATIENT_ID\": \"16AC4341-CF8F-45E2-B90B-2D12D5F74A59\", \"AGE\": 69.0, \"SEX\": \"Female\", \"AJCC_PATHOLOGIC_TUMOR_STAGE\": null, \"AJCC_STAGING_EDITION\": 2009.0, \"DAYS_LAST_FOLLOWUP\": \"1202\", \"DAYS_TO_BIRTH\": -25518.0, \"DAYS_TO_INITIAL_PATHOLOGIC_DIAGNOSIS\": 0.0, \"ETHNICITY\": \"Not Hispanic Or Latino\", \"FORM_COMPLETION_DATE\": \"4/17/2014\", \"HISTORY_NEOADJUVANT_TRTYN\": \"No\", \"ICD_10\": \"C54.1\", \"ICD_O_3_HISTOLOGY\": \"8380/3\", \"ICD_O_3_SITE\": \"C54.1\", \"INFORMED_CONSENT_VERIFIED\": \"Yes\", \"NEW_TUMOR_EVENT_AFTER_INITIAL_TREATMENT\": \"Yes\", \"PATH_M_STAGE\": null, \"PATH_N_STAGE\": null, \"PATH_T_STAGE\": null, \"PERSON_NEOPLASM_CANCER_STATUS\": \"Tumor Free\", \"PRIMARY_LYMPH_NODE_PRESENTATION_ASSESSMENT\": null, \"PRIOR_DX\": \"No\", \"RACE\": \"Black or African American\", \"RADIATION_THERAPY\": \"Yes\", \"WEIGHT\": 98.0, \"IN_PANCANPATHWAYS_FREEZE\": \"Yes\", \"OS_STATUS\": \"0:LIVING\", \"OS_MONTHS\": 39.51737515, \"DSS_STATUS\": \"0:ALIVE OR DEAD TUMOR FREE\", \"DSS_MONTHS\": 39.51737515, \"DFS_STATUS\": null, \"DFS_MONTHS\": null, \"PFS_STATUS\": \"1:PROGRESSION\", \"PFS_MONTHS\": 16.99707401, \"GENETIC_ANCESTRY_LABEL\": \"AFR\"}, \"sample\": {\"SAMPLE_ID\": \"TCGA-5B-A90C-01\", \"ONCOTREE_CODE\": \"UEC\", \"CANCER_TYPE\": \"Endometrial Cancer\", \"CANCER_TYPE_DETAILED\": \"Uterine Endometrioid Carcinoma\", \"TUMOR_TYPE\": \"Endometrioid Endometrial Adenocarcinoma\", \"GRADE\": \"G2\", \"TISSUE_PROSPECTIVE_COLLECTION_INDICATOR\": \"No\", \"TISSUE_RETROSPECTIVE_COLLECTION_INDICATOR\": \"Yes\", \"TISSUE_SOURCE_SITE_CODE\": \"5B\", \"TUMOR_TISSUE_SITE\": \"Uterus\", \"ANEUPLOIDY_SCORE\": 20.0, \"SAMPLE_TYPE\": \"Primary\", \"MSI_SCORE_MANTIS\": 0.3344, \"MSI_SENSOR_SCORE\": 0.55, \"SOMATIC_STATUS\": \"Matched\", \"TMB_NONSYNONYMOUS\": 1.566666667, \"TISSUE_SOURCE_SITE\": \"Medical College of Wisconsin\", \"TBL_SCORE\": 469.0}, \"treatments\": [{\"START_DATE\": 682, \"STOP_DATE\": 883.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Chemotherapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Carboplatin\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": null, \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": null, \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": \"No\", \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": \"No\", \"ANATOMIC_TREATMENT_SITE\": null, \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": null, \"RADIATION_DOSAGE\": null, \"RADIATION_TREATMENT_ONGOING\": null, \"RADIATION_TYPE\": null, \"RADIATION_UNITS\": null, \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}, {\"START_DATE\": 682, \"STOP_DATE\": 883.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Chemotherapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Paclitaxel\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": null, \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": null, \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": \"No\", \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": \"No\", \"ANATOMIC_TREATMENT_SITE\": null, \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": null, \"RADIATION_DOSAGE\": null, \"RADIATION_TREATMENT_ONGOING\": null, \"RADIATION_TYPE\": null, \"RADIATION_UNITS\": null, \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}, {\"START_DATE\": 67, \"STOP_DATE\": 82.0, \"EVENT_TYPE\": \"Treatment\", \"TREATMENT_TYPE\": \"Radiation Therapy\", \"TREATMENT_SUBTYPE\": null, \"AGENT\": \"Radiation 1\", \"NUMBER_OF_CYCLES\": null, \"PRESCRIBED_DOSE\": null, \"PRESCRIBED_DOSE_UNITS\": null, \"REGIMEN_NUMBER\": null, \"REGIMEN_INDICATION\": null, \"REGIMEN_INDICATION_NOTES\": null, \"MEASURE_OF_RESPONSE\": null, \"CLINICAL_TRIAL_DRUG_CLASSIFICATION\": null, \"ROUTE_OF_ADMINISTRATION\": null, \"ROUTE_OF_ADMINISTRATION-2\": null, \"THERAPY_ONGOING\": null, \"TOTAL_DOSE\": null, \"TOTAL_DOSE_UNITS\": null, \"TX_ON_CLINICAL_TRIAL\": null, \"ANATOMIC_TREATMENT_SITE\": \"Regional Site\", \"COURSE_NUMBER\": null, \"NUMBER_OF_FRACTIONS\": 5.0, \"RADIATION_DOSAGE\": 6000.0, \"RADIATION_TREATMENT_ONGOING\": \"No\", \"RADIATION_TYPE\": \"Internal\", \"RADIATION_UNITS\": \"cgy\", \"PHARM_REGIMEN\": null, \"STEM_CELL_TRANSPLANTATION\": null, \"STEM_CELL_TRANSPLANTATION_TYPE\": null}]}", | |
| "output": "Yes. [Rationale: This prediction is based on the patient's specific UCEC demographics, tumor characteristics, and treatment history.]" | |
| } | |
| ] |