# Matching clinical data
nationwidechildrens.org_clinical_drug_ov <- read.delim("C:/Users/Samaresh/Desktop/Siddik/R results/TCGA/GDC_OV/nationwidechildrens.org_clinical_drug_ov.txt")
nationwidechildrens.org_clinical_patient_ov <- read.delim("C:/Users/Samaresh/Desktop/Siddik/R results/TCGA/GDC_OV/nationwidechildrens.org_clinical_patient_ov.txt")
nationwidechildrens.org_clinical_follow_up_v1.0_ov <- read.delim("C:/Users/Samaresh/Desktop/Siddik/R results/TCGA/GDC_OV/nationwidechildrens.org_clinical_follow_up_v1.0_ov.txt")
y_CP <- nationwidechildrens.org_clinical_patient_ov
y_DF <- nationwidechildrens.org_clinical_follow_up_v1.0_ov
y_D <- nationwidechildrens.org_clinical_drug_ov
M1<- merge.data.frame(y_CP, y_DF, by= "bcr_patient_barcode", no.dups = T)
colnames(M1)
## [1] "bcr_patient_barcode"
## [2] "bcr_patient_uuid.x"
## [3] "form_completion_date.x"
## [4] "prospective_collection"
## [5] "retrospective_collection"
## [6] "gender"
## [7] "birth_days_to"
## [8] "race"
## [9] "ethnicity"
## [10] "jewish_religion_heritage_indicator"
## [11] "history_other_malignancy"
## [12] "history_neoadjuvant_treatment"
## [13] "initial_pathologic_dx_year"
## [14] "method_initial_path_dx"
## [15] "method_initial_path_dx_other"
## [16] "vital_status.x"
## [17] "last_contact_days_to.x"
## [18] "death_days_to.x"
## [19] "tumor_status.x"
## [20] "tumor_grade"
## [21] "residual_tumor"
## [22] "residual_disease_largest_nodule"
## [23] "vascular_invasion_indicator"
## [24] "lymphovascular_invasion_indicator"
## [25] "karnofsky_score.x"
## [26] "ecog_score.x"
## [27] "performance_status_timing.x"
## [28] "radiation_treatment_adjuvant.x"
## [29] "pharmaceutical_tx_adjuvant.x"
## [30] "treatment_outcome_first_course.x"
## [31] "days_to_tumor_progression"
## [32] "new_tumor_event_dx_indicator.x"
## [33] "age_at_initial_pathologic_diagnosis"
## [34] "anatomic_neoplasm_subdivision"
## [35] "clinical_M"
## [36] "clinical_N"
## [37] "clinical_T"
## [38] "clinical_stage"
## [39] "days_to_initial_pathologic_diagnosis"
## [40] "days_to_patient_progression_free"
## [41] "disease_code"
## [42] "extranodal_involvement"
## [43] "histological_type"
## [44] "icd_10"
## [45] "icd_o_3_histology"
## [46] "icd_o_3_site"
## [47] "informed_consent_verified"
## [48] "pathologic_M"
## [49] "pathologic_N"
## [50] "pathologic_T"
## [51] "pathologic_stage"
## [52] "patient_id"
## [53] "project_code"
## [54] "stage_other"
## [55] "system_version"
## [56] "tissue_source_site"
## [57] "tumor_tissue_site"
## [58] "bcr_patient_uuid.y"
## [59] "bcr_followup_barcode"
## [60] "bcr_followup_uuid"
## [61] "form_completion_date.y"
## [62] "followup_reason"
## [63] "followup_lost_to"
## [64] "radiation_treatment_adjuvant.y"
## [65] "pharmaceutical_tx_adjuvant.y"
## [66] "treatment_outcome_first_course.y"
## [67] "vital_status.y"
## [68] "last_contact_days_to.y"
## [69] "death_days_to.y"
## [70] "tumor_status.y"
## [71] "new_tumor_event_dx_indicator.y"
## [72] "treatment_outcome_at_tcga_followup"
## [73] "ecog_score.y"
## [74] "karnofsky_score.y"
## [75] "performance_status_timing.y"
dim(M1)
## [1] 672 75
M1 <- M1[,-grep("*.x$", colnames(M1))]
dim(M1)
## [1] 672 61
colnames(M1)
## [1] "bcr_patient_barcode"
## [2] "prospective_collection"
## [3] "retrospective_collection"
## [4] "gender"
## [5] "birth_days_to"
## [6] "race"
## [7] "ethnicity"
## [8] "jewish_religion_heritage_indicator"
## [9] "history_other_malignancy"
## [10] "history_neoadjuvant_treatment"
## [11] "initial_pathologic_dx_year"
## [12] "method_initial_path_dx_other"
## [13] "tumor_grade"
## [14] "residual_tumor"
## [15] "residual_disease_largest_nodule"
## [16] "vascular_invasion_indicator"
## [17] "lymphovascular_invasion_indicator"
## [18] "days_to_tumor_progression"
## [19] "age_at_initial_pathologic_diagnosis"
## [20] "anatomic_neoplasm_subdivision"
## [21] "clinical_M"
## [22] "clinical_N"
## [23] "clinical_T"
## [24] "clinical_stage"
## [25] "days_to_initial_pathologic_diagnosis"
## [26] "days_to_patient_progression_free"
## [27] "disease_code"
## [28] "extranodal_involvement"
## [29] "histological_type"
## [30] "icd_10"
## [31] "icd_o_3_histology"
## [32] "icd_o_3_site"
## [33] "informed_consent_verified"
## [34] "pathologic_M"
## [35] "pathologic_N"
## [36] "pathologic_T"
## [37] "pathologic_stage"
## [38] "patient_id"
## [39] "project_code"
## [40] "stage_other"
## [41] "system_version"
## [42] "tissue_source_site"
## [43] "tumor_tissue_site"
## [44] "bcr_patient_uuid.y"
## [45] "bcr_followup_barcode"
## [46] "bcr_followup_uuid"
## [47] "form_completion_date.y"
## [48] "followup_reason"
## [49] "followup_lost_to"
## [50] "radiation_treatment_adjuvant.y"
## [51] "pharmaceutical_tx_adjuvant.y"
## [52] "treatment_outcome_first_course.y"
## [53] "vital_status.y"
## [54] "last_contact_days_to.y"
## [55] "death_days_to.y"
## [56] "tumor_status.y"
## [57] "new_tumor_event_dx_indicator.y"
## [58] "treatment_outcome_at_tcga_followup"
## [59] "ecog_score.y"
## [60] "karnofsky_score.y"
## [61] "performance_status_timing.y"
(colnames(M1)<- gsub("*.y$", "",colnames(M1)))
## [1] "bcr_patient_barcode"
## [2] "prospective_collection"
## [3] "retrospective_collection"
## [4] "gender"
## [5] "birth_days_to"
## [6] "race"
## [7] "ethnici"
## [8] "jewish_religion_heritage_indicator"
## [9] "history_other_malignan"
## [10] "history_neoadjuvant_treatment"
## [11] "initial_pathologic_dx_year"
## [12] "method_initial_path_dx_other"
## [13] "tumor_grade"
## [14] "residual_tumor"
## [15] "residual_disease_largest_nodule"
## [16] "vascular_invasion_indicator"
## [17] "lymphovascular_invasion_indicator"
## [18] "days_to_tumor_progression"
## [19] "age_at_initial_pathologic_diagnosis"
## [20] "anatomic_neoplasm_subdivision"
## [21] "clinical_M"
## [22] "clinical_N"
## [23] "clinical_T"
## [24] "clinical_stage"
## [25] "days_to_initial_pathologic_diagnosis"
## [26] "days_to_patient_progression_free"
## [27] "disease_code"
## [28] "extranodal_involvement"
## [29] "histological_type"
## [30] "icd_10"
## [31] "icd_o_3_histolo"
## [32] "icd_o_3_site"
## [33] "informed_consent_verified"
## [34] "pathologic_M"
## [35] "pathologic_N"
## [36] "pathologic_T"
## [37] "pathologic_stage"
## [38] "patient_id"
## [39] "project_code"
## [40] "stage_other"
## [41] "system_version"
## [42] "tissue_source_site"
## [43] "tumor_tissue_site"
## [44] "bcr_patient_uuid"
## [45] "bcr_followup_barcode"
## [46] "bcr_followup_uuid"
## [47] "form_completion_date"
## [48] "followup_reason"
## [49] "followup_lost_to"
## [50] "radiation_treatment_adjuvant"
## [51] "pharmaceutical_tx_adjuvant"
## [52] "treatment_outcome_first_course"
## [53] "vital_status"
## [54] "last_contact_days_to"
## [55] "death_days_to"
## [56] "tumor_status"
## [57] "new_tumor_event_dx_indicator"
## [58] "treatment_outcome_at_tcga_followup"
## [59] "ecog_score"
## [60] "karnofsky_score"
## [61] "performance_status_timing"
M2<- merge.data.frame(M1, y_D, by= "bcr_patient_barcode", no.dups = T)
M2 <- M2[,-grep("*.x$", colnames(M2))]
colnames(M2)<- gsub("*.y$", "",colnames(M2))
colnames(M2)
## [1] "bcr_patient_barcode"
## [2] "prospective_collection"
## [3] "retrospective_collection"
## [4] "gender"
## [5] "birth_days_to"
## [6] "race"
## [7] "ethnici"
## [8] "jewish_religion_heritage_indicator"
## [9] "history_other_malignan"
## [10] "history_neoadjuvant_treatment"
## [11] "initial_pathologic_dx_year"
## [12] "method_initial_path_dx_other"
## [13] "tumor_grade"
## [14] "residual_tumor"
## [15] "residual_disease_largest_nodule"
## [16] "vascular_invasion_indicator"
## [17] "lymphovascular_invasion_indicator"
## [18] "days_to_tumor_progression"
## [19] "age_at_initial_pathologic_diagnosis"
## [20] "anatomic_neoplasm_subdivision"
## [21] "clinical_M"
## [22] "clinical_N"
## [23] "clinical_T"
## [24] "clinical_stage"
## [25] "days_to_initial_pathologic_diagnosis"
## [26] "days_to_patient_progression_free"
## [27] "disease_code"
## [28] "extranodal_involvement"
## [29] "histological_type"
## [30] "icd_10"
## [31] "icd_o_3_histolo"
## [32] "icd_o_3_site"
## [33] "informed_consent_verified"
## [34] "pathologic_M"
## [35] "pathologic_N"
## [36] "pathologic_T"
## [37] "pathologic_stage"
## [38] "patient_id"
## [39] "project_code"
## [40] "stage_other"
## [41] "system_version"
## [42] "tissue_source_site"
## [43] "tumor_tissue_site"
## [44] "bcr_followup_barcode"
## [45] "bcr_followup_uuid"
## [46] "followup_reason"
## [47] "followup_lost_to"
## [48] "radiation_treatment_adjuvant"
## [49] "pharmaceutical_tx_adjuvant"
## [50] "treatment_outcome_first_course"
## [51] "vital_status"
## [52] "last_contact_days_to"
## [53] "death_days_to"
## [54] "tumor_status"
## [55] "new_tumor_event_dx_indicator"
## [56] "treatment_outcome_at_tcga_followup"
## [57] "ecog_score"
## [58] "karnofsky_score"
## [59] "performance_status_timing"
## [60] "bcr_patient_uuid"
## [61] "bcr_drug_barcode"
## [62] "bcr_drug_uuid"
## [63] "form_completion_date"
## [64] "pharmaceutical_therapy_drug_name"
## [65] "clinical_trial_drug_classification"
## [66] "pharmaceutical_therapy_type"
## [67] "pharmaceutical_tx_started_days_to"
## [68] "pharmaceutical_tx_ongoing_indicator"
## [69] "pharmaceutical_tx_ended_days_to"
## [70] "treatment_best_response"
## [71] "days_to_stem_cell_transplantation"
## [72] "pharm_regimen"
## [73] "pharm_regimen_other"
## [74] "pharma_adjuvant_cycles_count"
## [75] "pharma_type_other"
## [76] "pharmaceutical_tx_dose_units"
## [77] "pharmaceutical_tx_total_dose_units"
## [78] "prescribed_dose"
## [79] "regimen_number"
## [80] "route_of_administration"
## [81] "stem_cell_transplantation"
## [82] "stem_cell_transplantation_type"
## [83] "therapy_regimen"
## [84] "therapy_regimen_other"
## [85] "total_dose"
## [86] "tx_on_clinical_trial"
summary(M2)
## bcr_patient_barcode prospective_collection
## TCGA-42-2582: 28 [Not Available] :2808
## TCGA-42-2588: 26 CDE_ID:3088492 : 1
## TCGA-09-1662: 23 NO : 10
## TCGA-42-2589: 20 tissue_prospective_collection_indicator: 1
## TCGA-24-1467: 19 YES : 9
## TCGA-29-A5NZ: 18
## (Other) :2695
## retrospective_collection
## [Not Available] :2808
## CDE_ID:3088528 : 1
## NO : 9
## tissue_retrospective_collection_indicator: 1
## YES : 10
##
##
## gender birth_days_to
## CDE_ID:2200604: 1 -17961 : 28
## FEMALE :2827 -22377 : 26
## gender : 1 -21246 : 23
## -19852 : 20
## -21635 : 20
## -18652 : 19
## (Other):2693
## race
## WHITE :2516
## BLACK OR AFRICAN AMERICAN : 162
## [Not Available] : 70
## ASIAN : 64
## AMERICAN INDIAN OR ALASKA NATIVE : 12
## NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER: 3
## (Other) : 2
## ethnici jewish_religion_heritage_indicator
## [Not Available] :1220 [Not Available]:2670
## [Not Evaluated] : 7 [Not Evaluated]: 3
## CDE_ID:2192217 : 1 [Unknown] : 0
## ethnicity : 1 ASHKENAZI : 154
## HISPANIC OR LATINO : 57 CDE_ID:2200537 : 1
## NOT HISPANIC OR LATINO:1543 jewish_origin : 1
##
## history_other_malignan
## [Not Available] :2794
## CDE_ID:3382736 : 1
## No : 28
## other_dx : 1
## Yes, History of Synchronous/Bilateral Malignancy: 5
##
##
## history_neoadjuvant_treatment initial_pathologic_dx_year
## CDE_ID:3382737 : 1 2008 : 325
## history_of_neoadjuvant_treatment: 1 2004 : 285
## No :2823 2005 : 247
## Yes : 4 2009 : 224
## 2003 : 219
## 2006 : 212
## (Other):1317
## method_initial_path_dx_other
## [Not Applicable] :2823
## CDE_ID:2757948 : 1
## Colonoscopy and biopsy : 2
## Dilatation and Curettage, Polypectomy: 2
## init_pathology_dx_method_other : 1
##
##
## tumor_grade residual_tumor
## G3 :2333 [Not Available]:2559
## G2 : 399 CDE_ID:2608702 : 1
## GX : 45 R0 : 86
## G1 : 25 R1 : 146
## G4 : 14 R2 : 28
## [Not Available]: 8 residual_tumor : 1
## (Other) : 5 RX : 8
## residual_disease_largest_nodule vascular_invasion_indicator
## [Not Available] : 275 [Not Available]:2112
## >20 mm : 510 [Unknown] : 6
## 1-10 mm :1315 CDE_ID:64358 : 1
## 11-20 mm : 170 NO : 272
## CDE_ID:2785858 : 1 venous_invasion: 1
## No Macroscopic disease: 557 YES : 437
## tumor_residual_disease: 1
## lymphovascular_invasion_indicator days_to_tumor_progression
## [Not Available] :1767 [Not Available] :2827
## [Unknown] : 6 CDE_ID:3165480 : 1
## CDE_ID:64171 : 1 days_to_tumor_progression: 1
## lymphatic_invasion: 1
## NO : 365
## YES : 689
##
## age_at_initial_pathologic_diagnosis
## 58 : 168
## 56 : 133
## 50 : 122
## 51 : 117
## 53 : 117
## 61 : 117
## (Other):2055
## anatomic_neoplasm_subdivision clinical_M
## [Not Available] : 133 [Not Applicable]:2827
## anatomic_neoplasm_subdivision: 1 CDE_ID:3440331 : 1
## Bilateral :2010 clinical_M : 1
## CDE_ID:3108203 : 1
## Left : 400
## Right : 284
##
## clinical_N clinical_T clinical_stage
## [Not Applicable]:2827 [Not Applicable]:2827 Stage IIIC:2057
## CDE_ID:3440330 : 1 CDE_ID:3440328 : 1 Stage IV : 424
## clinical_N : 1 clinical_T : 1 Stage IIIB: 132
## Stage IIC : 77
## Stage IIIA: 42
## Stage IC : 30
## (Other) : 67
## days_to_initial_pathologic_diagnosis
## 0 :2827
## CDE_ID:3008275 : 1
## days_to_initial_pathologic_diagnosis: 1
##
##
##
##
## days_to_patient_progression_free disease_code
## [Not Available] :2827 [Not Available]:2827
## CDE_ID:4887491 : 1 CDE_ID: : 1
## days_to_patient_progression_free: 1 disease_code : 1
##
##
##
##
## extranodal_involvement histological_type
## [Not Applicable] :2827 CDE_ID:3081934 : 1
## CDE_ID:3364582 : 1 histological_type : 1
## extranodal_involvement: 1 Serous Cystadenocarcinoma:2827
##
##
##
##
## icd_10 icd_o_3_histolo icd_o_3_site
## C48.0 : 0 8440/3 : 2 C48.0 : 0
## C48.1 : 39 8441/3 :2790 C48.1 : 39
## C48.2 : 13 8460/3 : 23 C48.2 : 13
## C56.9 :2775 8461/3 : 12 C56.9 :2775
## CDE_ID:3226287: 1 CDE_ID:3226275 : 1 CDE_ID:3226281: 1
## icd_10 : 1 icd_o_3_histology: 1 icd_o_3_site : 1
##
## informed_consent_verified pathologic_M
## CDE_ID:3288361 : 1 [Not Applicable]:2827
## informed_consent_verified: 1 CDE_ID:3045439 : 1
## YES :2827 pathologic_M : 1
##
##
##
##
## pathologic_N pathologic_T pathologic_stage
## [Not Applicable]:2827 [Not Applicable]:2827 [Not Applicable]:2827
## CDE_ID:3203106 : 1 CDE_ID:3045435 : 1 CDE_ID:3203222 : 1
## pathologic_N : 1 pathologic_T : 1 pathologic_stage: 1
##
##
##
##
## patient_id project_code stage_other
## 2582 : 28 [Not Available]:2827 [Not Available]:2827
## 2588 : 26 CDE_ID: : 1 CDE_ID:2007104 : 1
## 1662 : 23 project_code : 1 stage_other : 1
## 2589 : 20
## 1467 : 19
## A5NZ : 18
## (Other):2695
## system_version tissue_source_site tumor_tissue_site
## [Not Available]:2827 24 :592 CDE_ID:3427536 : 1
## CDE_ID:2722309 : 1 13 :554 Omentum : 36
## system_version : 1 29 :312 Ovary :2778
## 61 :251 Peritoneum ovary : 13
## 04 :208 tumor_tissue_site: 1
## 23 :183
## (Other):729
## bcr_followup_barcode
## TCGA-09-1662-F24243: 23
## TCGA-24-1467-F26039: 19
## TCGA-04-1542-F24118: 16
## TCGA-24-1557-F26194: 16
## TCGA-24-1930-F26410: 16
## TCGA-23-1023-F25587: 15
## (Other) :2724
## bcr_followup_uuid
## 0b2f4ddb-fa9e-45ec-97ab-a8fc3d0f4be8: 23
## 0b7db63c-a9e8-47c4-8459-b34e4260d092: 19
## 300786cc-f4e9-45c3-8987-c78cb62f21ea: 16
## 4e109663-798b-40df-a011-0527bb6151ff: 16
## 6c66cb68-4c55-4a8a-9241-99a2f36bc6fd: 16
## 12658bed-f067-4263-b749-1e9839821a25: 15
## (Other) :2724
## followup_reason
## [Not Available] :2761
## Additional New Tumor Event : 40
## CDE_ID:3233305 : 1
## followup_case_report_form_submission_reason: 1
## Scheduled Follow-up Submission : 26
##
##
## followup_lost_to radiation_treatment_adjuvant
## [Not Available]:2761 [Not Available] : 245
## CDE_ID:61333 : 1 [Unknown] : 2
## lost_follow_up : 1 CDE_ID:2005312 : 1
## NO : 64 NO :2561
## YES : 2 radiation_therapy: 1
## YES : 19
##
## pharmaceutical_tx_adjuvant
## [Not Available] : 238
## CDE_ID:3397567 : 1
## NO : 39
## postoperative_rx_tx: 1
## YES :2550
##
##
## treatment_outcome_first_course vital_status
## Complete Remission/Response:1648 Alive :1135
## [Not Available] : 474 CDE_ID:5 : 1
## Partial Remission/Response : 316 Dead :1692
## Progressive Disease : 210 vital_status: 1
## Stable Disease : 168
## [Not Applicable] : 6
## (Other) : 7
## last_contact_days_to death_days_to
## [Not Available]: 514 [Not Applicable]:1135
## 3224 : 19 1024 : 25
## 1446 : 18 2717 : 23
## 1484 : 17 3224 : 19
## 1579 : 17 1102 : 18
## 1213 : 16 1446 : 18
## (Other) :2228 (Other) :1591
## tumor_status
## [Not Available] : 134
## [Unknown] : 17
## CDE_ID:2759550 : 1
## person_neoplasm_cancer_status: 1
## TUMOR FREE : 495
## WITH TUMOR :2181
##
## new_tumor_event_dx_indicator
## [Not Available] :2531
## [Unknown] : 7
## CDE_ID:3121376 : 1
## new_tumor_event_after_initial_treatment: 1
## NO : 53
## YES : 236
##
## treatment_outcome_at_tcga_followup
## [Not Available] :2529
## Progressive Disease : 169
## Complete Remission/Response: 67
## Stable Disease : 31
## [Unknown] : 17
## [Not Applicable] : 8
## (Other) : 8
## ecog_score karnofsky_score
## [Not Available] :2134 [Not Available] :2568
## 0 : 453 100 : 43
## 1 : 190 40 : 3
## 2 : 41 60 : 54
## 3 : 9 80 : 159
## CDE_ID:88 : 1 CDE_ID:2003853 : 1
## eastern_cancer_oncology_group: 1 karnofsky_performance_score: 1
## performance_status_timing
## [Not Available] :1939
## CDE_ID:2792763 : 1
## Other : 141
## performance_status_scale_timing: 1
## Post-Adjuvant Therapy : 292
## Pre-Adjuvant Therapy : 292
## Preoperative : 163
## bcr_patient_uuid bcr_drug_barcode
## 7922df77-f09a-488c-a1be-58646ceb9b3e: 28 TCGA-42-2582-D28028: 4
## 654d02ab-05b4-4863-99d9-04d087ff91b4: 26 TCGA-42-2582-D28029: 4
## 867f9563-16c9-45a8-b519-6df61ba1b6b7: 23 TCGA-42-2582-D28030: 4
## dfb7dc5d-92f4-4a3a-9667-db38efcc9fdb: 20 TCGA-42-2582-D28031: 4
## 34f545ab-d420-4dd2-8db4-3159896efd23: 19 TCGA-42-2582-D28818: 4
## F1CB3D48-1415-408D-89D1-DFDCC5924963: 18 TCGA-42-2582-D28819: 4
## (Other) :2695 (Other) :2805
## bcr_drug_uuid form_completion_date
## 180D0212-9DF5-42F7-928C-EB0455BB8FAE: 4 2009-4-16: 143
## 1a6c0376-6bc1-4d52-ad00-2a5d128b8232: 4 2009-3-27: 138
## 44CFCC79-0825-468C-84A0-5E1288307CF4: 4 2009-4-15: 120
## 495ec0d8-ca4e-4ef2-af6c-2f5ee7b212fc: 4 2009-5-13: 116
## 55f15f39-17c5-4aa3-9a39-bab6794e69f5: 4 2009-6-30: 113
## 6a1466ac-1f06-4617-a34e-604e6945dac0: 4 2009-12-4: 88
## (Other) :2805 (Other) :2111
## pharmaceutical_therapy_drug_name
## Carboplatin:769
## Taxol :407
## Paclitaxel :366
## Cisplatin :219
## Doxil :134
## Topotecan :123
## (Other) :811
## clinical_trial_drug_classification
## [Not Available] :2827
## CDE_ID:3378323 : 1
## clinical_trail_drug_classification: 1
##
##
##
##
## pharmaceutical_therapy_type pharmaceutical_tx_started_days_to
## [Not Available] : 18 [Not Available]: 156
## CDE_ID:2793530 : 1 35 : 52
## Chemotherapy :2663 31 : 49
## Hormone Therapy : 56 17 : 46
## Immunotherapy : 18 21 : 44
## Targeted Molecular therapy: 72 22 : 39
## therapy_type : 1 (Other) :2443
## pharmaceutical_tx_ongoing_indicator pharmaceutical_tx_ended_days_to
## [Not Available]: 182 [Not Available]: 352
## CDE_ID:3103479 : 1 161 : 30
## NO :2573 147 : 29
## therapy_ongoing: 1 151 : 29
## YES : 72 141 : 26
## 143 : 25
## (Other) :2338
## treatment_best_response
## [Not Available] :2790
## Complete Response : 19
## Partial Response : 6
## Clinical Progressive Disease: 5
## Stable Disease : 4
## [Not Applicable] : 3
## (Other) : 2
## days_to_stem_cell_transplantation pharm_regimen
## [Not Available] :2827 [Not Available]:2827
## CDE_ID:3414613 : 1 CDE_ID:3366758 : 1
## days_to_stem_cell_transplantation: 1 pharm_regimen : 1
##
##
##
##
## pharm_regimen_other pharma_adjuvant_cycles_count
## [Not Available] :2827 06 : 514
## CDE_ID:3366930 : 1 [Not Available]: 448
## pharm_regimen_other: 1 6 : 434
## 03 : 145
## 08 : 145
## 04 : 114
## (Other) :1029
## pharma_type_other pharmaceutical_tx_dose_units
## [Not Available] :2827 mg :1329
## CDE_ID:2001762 : 1 [Not Available]: 814
## therapy_type_notes: 1 mg/m2 : 557
## AUC : 103
## mg/kg : 16
## mg/day : 6
## (Other) : 4
## pharmaceutical_tx_total_dose_units prescribed_dose
## mg :1329 [Not Available]:2601
## [Not Available]: 814 135 : 14
## mg/m2 : 557 60 : 10
## AUC : 103 180 : 8
## mg/kg : 16 175 : 7
## mg/day : 6 800 : 7
## (Other) : 4 (Other) : 182
## regimen_number route_of_administration
## [Not Available]:2782 IV :2148
## 02 : 21 [Not Available] : 289
## 03 : 10 IP : 169
## 04 : 6 IP|IV : 159
## 05 : 4 PO : 57
## 06 : 4 Other (specify below): 5
## (Other) : 2 (Other) : 2
## stem_cell_transplantation
## [Not Available] :2827
## CDE_ID:3090688 : 1
## stem_cell_transplantation: 1
##
##
##
##
## stem_cell_transplantation_type
## [Not Available] :2827
## CDE_ID:2730901 : 1
## stem_cell_transplantation_type: 1
##
##
##
##
## therapy_regimen therapy_regimen_other
## ADJUVANT :1568 [Not Applicable] :2760
## PROGRESSION : 581 [Not Available] : 10
## RECURRENCE : 573 Persistent : 8
## OTHER, SPECIFY IN NOTES: 67 Adjuvant and Progression : 6
## [Not Available] : 37 Persistence : 6
## CDE_ID:2793511 : 1 Progression and Recurrence: 6
## (Other) : 2 (Other) : 33
## total_dose tx_on_clinical_trial
## [Not Available]: 869 [Not Available] :2790
## 175 : 129 CDE_ID:3925111 : 1
## 5 : 102 NO : 28
## 6 : 70 tx_on_clinical_trial: 1
## 75 : 59 YES : 9
## 135 : 48
## (Other) :1552