Data Dictionary Release Notes
| Version | Date |
|---|---|
| v.3.3.0 | September 30, 2024 |
| v.3.1.0 | May 30, 2024 |
| v.3.0.0 | October 30, 2023 |
| v.2.6.6 | June 16, 2023 |
| v.2.6.0 | February 2, 2023 |
| v.2.5.0 | July 8, 2022 |
| v.2.4.1 | August 23, 2021 |
| v.2.4.0 | June 21, 2021 |
| v.2.3.0 | January 5, 2021 |
| v.2.2.0 | July 2, 2020 |
| v.2.1.0 | March 10, 2020 |
| v.2.0.0 | January 30, 2020 |
| v.1.18.1 | November 6, 2019 |
| v.1.18 | July 31, 2019 |
| v.1.17 | June 5, 2019 |
| v.1.16 | April 17, 2019 |
| v.1.15 | December 18, 2018 |
| v.1.14 | September 27, 2018 |
| v1.13 | May 21, 2018 |
| v1.12.1 | April 26, 2018 |
| v1.12 | April 23, 2018 |
| v1.11 | January 20, 2018 |
| v1.10.0 | August 22, 2017 |
| v1.7.1 | March 16, 2017 |
| v1.3.1 | September 7, 2016 |
v3.3.0
- GDC Product: GDC Data Dictionary
- Release Date: September 30, 2024
New Features and Changes
- Altered
demographicEntity- New property:
population_group
- New property:
- Altered
diagnosisEntity- New property:
ajcc_serum_tumor_markers - Changes made to
method_of_diagnosis- New permissible value:
Orchiectomy
- New permissible value:
- Changes made to
primary_diagnosis- New permissible value:
Adenocarcinoma in tubulovillous adenoma - New permissible value:
Myxofibrosarcoma - New deprecated value:
Adenocarcinoma in tubolovillous adenoma
- New permissible value:
- Changes made to
sites_of_involvement- New permissible value:
Breast, Left Lower Inner - New permissible value:
Breast, Left Lower Outer - New permissible value:
Breast, Left Upper Inner - New permissible value:
Breast, Left Upper Outer - New permissible value:
Breast, Right Lower Inner - New permissible value:
Breast, Right Lower Outer - New permissible value:
Breast, Right Upper Inner - New permissible value:
Breast, Right Upper Outer - New permissible value:
Eye, Choroid - New permissible value:
Eye, Ciliary Body - New permissible value:
Eye, Iris - New permissible value:
Hilar Fat - New permissible value:
Rete Testis - New permissible value:
Scrotum - New permissible value:
Skin, Extremities - New permissible value:
Skin, Groin - New permissible value:
Skin, Head and Neck - New permissible value:
Skin, Trunk - New permissible value:
Spermatic Cord - New permissible value:
Tunica Albuginea - New permissible value:
Tunica Vaginalis
- New permissible value:
- New property:
- Altered
follow_upEntity- New property:
histologic_progression - Changes made to
evidence_of_progression_type- New permissible value:
Biopsy with Histologic Confirmation - New permissible value:
Physical Examination - New permissible value:
Positive Biomarker(s)
- New permissible value:
- Changes made to
imaging_anatomic_site- New permissible value:
Cervix Uteri
- New permissible value:
- Changes made to
imaging_findings- New permissible value:
Bladder Involvement - New permissible value:
Extra-Pelvic Metastatic Disease - New permissible value:
Paraaortic Lymph Node Involvement - New permissible value:
Parametrium Involvement - New permissible value:
Pelvic Lymph Node Involvement - New permissible value:
Supraclavicular Lymph Node Involvement
- New permissible value:
- Changes made to
timepoint_category- New permissible value:
After Chemotherapy - New permissible value:
After Study Enrollment - New permissible value:
End of Consolidation Therapy - New permissible value:
End of Treatment Course - New permissible value:
End of Treatment Course 1 - New permissible value:
End of Treatment Course 2 - New permissible value:
First Complete Response - New permissible value:
First Treatment - New permissible value:
Post Initial Treatment - New permissible value:
Prior to Chemotherapy - New permissible value:
Prior to Procurement - New permissible value:
Prior to Study Enrollment - New permissible value:
Prior to Study Registration - New permissible value:
Progression - New permissible value:
Recurrence - New permissible value:
Sample Procurement
- New permissible value:
- New property:
- Altered
molecular_testEntity- Changes made to
hpv_strain- New permissible value:
HPV63 - New permissible value:
HPV70
- New permissible value:
- Changes made to
test_value_range- New permissible value:
1-4% - New permissible value:
5-9%
- New permissible value:
- Changes made to
timepoint_category- New permissible value:
Adjuvant Therapy - New permissible value:
Adolescence - New permissible value:
Adulthood - New permissible value:
After Chemotherapy - New permissible value:
After Study Enrollment - New permissible value:
Childhood - New permissible value:
End of Treatment Course - New permissible value:
First Complete Response - New permissible value:
First Treatment - New permissible value:
Follow-up - New permissible value:
Last Contact - New permissible value:
Post Adjuvant Therapy - New permissible value:
Post Hormone Therapy - New permissible value:
Post Initial Treatment - New permissible value:
Post Secondary Therapy - New permissible value:
Postoperative - New permissible value:
Prior to Adjuvant Therapy - New permissible value:
Prior to Chemotherapy - New permissible value:
Prior to Diagnosis - New permissible value:
Prior to Procurement - New permissible value:
Prior to Study Enrollment - New permissible value:
Prior to Study Registration - New permissible value:
Progression - New permissible value:
Recurrence - New permissible value:
Recurrence/Progression - New permissible value:
Within 2 Months After Completion of First-Course Treatment - New permissible value:
Within 3 Months of Surgery - New permissible value:
Other
- New permissible value:
- Changes made to
- Altered
other_clinical_attributeEntity- New property:
undescended_testis_corrected_age_range - Changes made to
comorbidities- New permissible value:
Adenomyosis - New permissible value:
Adenosis (Atypical Adenomatous Hyperplasia) - New permissible value:
Alcoholic Liver Disease - New permissible value:
Allergy, Animal, NOS - New permissible value:
Allergy, Ant - New permissible value:
Allergy, Bee - New permissible value:
Allergy, Cat - New permissible value:
Allergy, Dairy or Lactose - New permissible value:
Allergy, Dog - New permissible value:
Allergy, Eggs - New permissible value:
Allergy, Food, NOS - New permissible value:
Allergy, Fruit - New permissible value:
Allergy, Meat - New permissible value:
Allergy, Mold or Dust - New permissible value:
Allergy, Nuts - New permissible value:
Allergy, Processed Foods - New permissible value:
Allergy, Seafood - New permissible value:
Allergy, Wasp - New permissible value:
Alpha-1 Antitrypsin Deficiency - New permissible value:
Altered Mental Status - New permissible value:
Androgen Excess - New permissible value:
Autoimmune Atrophic Chronic Gastritis - New permissible value:
BAP1 Tumor Predisposition Syndrome - New permissible value:
Benign Prostatic Hyperplasia - New permissible value:
Birt-Hogg-Dube Syndrome - New permissible value:
BK Virus - New permissible value:
Chronic Kidney Disease - New permissible value:
Colonization, Bacterial - New permissible value:
Colonization, Fungal - New permissible value:
Common Variable Immune Deficiency (CVID) - New permissible value:
Cortisol Excess - New permissible value:
Cowden Syndrome - New permissible value:
Cyst(s) - New permissible value:
Dementia - New permissible value:
Diabetes, NOS - New permissible value:
Diabetes, Type I - New permissible value:
Diverticulosis - New permissible value:
Endometriosis - New permissible value:
Endosalpingiosis - New permissible value:
Epithelial Dysplasia - New permissible value:
Epithelial Hyperplasia - New permissible value:
Estrogen Excess - New permissible value:
Gastric Polyp(s) - New permissible value:
Gilbert's Syndrome - New permissible value:
Glomerular Disease - New permissible value:
Hay Fever - New permissible value:
Helicobacter pylori-Associated Gastritis - New permissible value:
Hematologic Disorder, NOS - New permissible value:
Hemochromatosis - New permissible value:
Hepatic Encephalopathy - New permissible value:
Hepatitis, NOS - New permissible value:
Hereditary Breast Cancer - New permissible value:
Hereditary Hemorrhagic Telangiectasia - New permissible value:
Hereditary Kidney Oncocytoma - New permissible value:
Hereditary Leiomyomatosis and Renal Cell Carcinoma - New permissible value:
Hereditary Ovarian Cancer - New permissible value:
Hereditary Papillary Renal Cell Carcinoma - New permissible value:
Hereditary Prostate Cancer - New permissible value:
Hereditary Renal Cell Carcinoma - New permissible value:
High Grade Dysplasia - New permissible value:
High-grade Prostatic Intraepithelial Neoplasia (PIN) - New permissible value:
Human Herpesvirus-6 (HHV-6) - New permissible value:
Human Herpesvirus-8 (HHV-8) - New permissible value:
Inflammation - New permissible value:
Inflammation, Hyperkeratosis - New permissible value:
Inherited Genetic Syndrome, NOS - New permissible value:
Intestinal Metaplasia - New permissible value:
Low Grade Dysplasia - New permissible value:
Mineralcorticoids Excess - New permissible value:
Motor / Movement Change - New permissible value:
Myelodysplastic Syndrome - New permissible value:
Neurocystericerosis - New permissible value:
Nevus of Ota - New permissible value:
Nodular Prostatic Hyperplasia - New permissible value:
Nonalcoholic Fatty Liver Disease - New permissible value:
Parasitic Disease of Biliary Tract - New permissible value:
Parkinson's Disease - New permissible value:
Recurrent Pyogenic Cholangitis - New permissible value:
Rubella - New permissible value:
Scarlet Fever - New permissible value:
Sensory Changes - New permissible value:
Serous Tubal Intraepithelial Carcinoma (STIC) - New permissible value:
Sialadenitis - New permissible value:
Skin Rash - New permissible value:
Squamous Metaplasia - New permissible value:
Succinate Dehydrogenase-Deficient Renal Cell Carcinoma - New permissible value:
Thyroid Nodular Hyperplasia - New permissible value:
Tobacco, NOS - New permissible value:
Tobacco, Smokeless - New permissible value:
Tobacco, Smoking - New permissible value:
Tuberous Sclerosis - New permissible value:
Tubulointerstitial Disease - New permissible value:
Tumor-Associated Lymphoid Proliferation - New permissible value:
Undescended Testis - New permissible value:
Vascular Disease - New permissible value:
Vision Changes - New permissible value:
Von Hippel-Lindau Syndrome - New deprecated value:
Alpha-1 Antitrypsin - New deprecated value:
Diabetes - New deprecated value:
Gastroesophageal Reflux Disease - New deprecated value:
Hepatitis - New deprecated value:
Kidney Disease - New deprecated value:
Smoking
- New permissible value:
- Changes made to
number_of_pregnancies- New permissible value:
0
- New permissible value:
- Changes made to
risk_factors- New permissible value:
Adenocarcinoma - New permissible value:
Adenomatous Polyposis Coli - New permissible value:
Allergies - New permissible value:
Arthritis - New permissible value:
Atrial Fibrillation - New permissible value:
Basal Cell Carcinoma - New permissible value:
Biliary Disorder - New permissible value:
Bronchitis - New permissible value:
Calcium Channel Blockers - New permissible value:
Cataracts - New permissible value:
Celiac Disease - New permissible value:
Cerebrovascular Disease - New permissible value:
Chronic Fatigue Syndrome - New permissible value:
Clonal Hematopoiesis - New permissible value:
CNS Infection - New permissible value:
Common Variable Immunodeficiency - New permissible value:
Congestive Heart Failure (CHF) - New permissible value:
Connective Tissue Disorder - New permissible value:
COPD - New permissible value:
Coronary Artery Disease - New permissible value:
Crohn's Disease - New permissible value:
Cryptogenic Organizing Pneumonia - New permissible value:
Dyslipidemia - New permissible value:
GERD - New permissible value:
Glaucoma - New permissible value:
Glycogen Storage Disease - New permissible value:
Gout - New permissible value:
Heart Disease - New permissible value:
Hepatitis, Chronic - New permissible value:
Hereditary Non-Polyposis Colon Cancer - New permissible value:
Herpes - New permissible value:
Herpes Simplex Virus - New permissible value:
High Grade Liver Dysplastic Nodule - New permissible value:
HIV/AIDS - New permissible value:
Hyperglycemia - New permissible value:
Hyperlipidemia - New permissible value:
Inflammatory Bowel Disease - New permissible value:
Interstitial Pneumonitis or ARDS - New permissible value:
Intraductal Papillary Mucinous Neoplasm - New permissible value:
Ischemic Heart Disease - New permissible value:
ITP - New permissible value:
Liver Cirrhosis (Liver Disease) - New permissible value:
Low Grade Liver Dysplastic Nodule - New permissible value:
Lupus - New permissible value:
Myocardial Infarction - New permissible value:
Neuroendocrine Tumor - New permissible value:
Nevus of Ota - New permissible value:
Organ Transplant (Site) - New permissible value:
Osteoarthritis - New permissible value:
Peptic Ulcer (Ulcer) - New permissible value:
Peripheral Vascular Disease - New permissible value:
Peutz-Jeghers Disease - New permissible value:
Pregnancy in Patient or Partner - New permissible value:
Psoriasis - New permissible value:
Pulmonary Fibrosis - New permissible value:
Renal Failure (Requiring Dialysis) - New permissible value:
Renal Insufficiency - New permissible value:
Rheumatologic Disease - New permissible value:
Sleep Apnea - New permissible value:
Staph Osteomyelitis - New permissible value:
Thyroid Disease, Non-Cancer - New permissible value:
Tyrosinemia - New permissible value:
Urinary Tract Infection - New deprecated value:
Chronic Hepatitis - New deprecated value:
Cirrhosis - New deprecated value:
HIV - New deprecated value:
Reflux Disease
- New permissible value:
- Changes made to
timepoint_category- New permissible value:
After Chemotherapy - New permissible value:
After Study Enrollment - New permissible value:
End of Consolidation Therapy - New permissible value:
End of Treatment Course - New permissible value:
End of Treatment Course 1 - New permissible value:
End of Treatment Course 2 - New permissible value:
First Complete Response - New permissible value:
First Treatment - New permissible value:
Post Initial Treatment - New permissible value:
Prior to Adjuvant Therapy - New permissible value:
Prior to Chemotherapy - New permissible value:
Prior to Procurement - New permissible value:
Prior to Study Enrollment - New permissible value:
Prior to Study Registration - New permissible value:
Progression - New permissible value:
Recurrence - New permissible value:
Within 2 Months After Completion of First-Course Treatment
- New permissible value:
- New deprecated property:
undescended_testis_corrected_age
- New property:
- Altered
pathology_detailEntity- New property:
epithelioid_cell_percent_range - New property:
extraocular_nodule_size - New property:
extrascleral_extension_present - New property:
intratubular_germ_cell_neoplasia_present - New property:
spindle_cell_percent_range - New property:
timepoint_category - New property:
tumor_basal_diameter - Changes made to
lymph_node_dissection_site- New permissible value:
Retroperitoneal
- New permissible value:
- Changes made to
lymph_node_involved_site- New permissible value:
Intra-Abdominal, NOS
- New permissible value:
- New deprecated property:
epithelioid_cell_percent - New deprecated property:
extrascleral_extension - New deprecated property:
size_extraocular_nodule - New deprecated property:
spindle_cell_percent
- New property:
- Altered
sampleEntity- Changes made to
biospecimen_anatomic_site- New permissible value:
Brainstem - New permissible value:
Common Bile Duct - New deprecated value:
Brain Stem - New deprecated value:
Common Duct
- New permissible value:
- Changes made to
method_of_sample_procurement- New permissible value:
Indeterminate - New deprecated value:
Indeterminant
- New permissible value:
- Changes made to
- Altered
treatmentEntity- New property:
margin_distance - New property:
margin_status - New property:
margins_involved_site - New property:
pretreatment - Changes made to
drug_category- New permissible value:
Platinum
- New permissible value:
- Changes made to
therapeutic_agents- New permissible value:
Cidofovir - New permissible value:
Cyanocobalamin - New permissible value:
Poly ICLC
- New permissible value:
- Changes made to
timepoint_category- New permissible value:
Adjuvant Therapy - New permissible value:
Adolescence - New permissible value:
Adulthood - New permissible value:
After Chemotherapy - New permissible value:
After Study Enrollment - New permissible value:
Childhood - New permissible value:
End of Treatment Course 1 - New permissible value:
End of Treatment Course 2 - New permissible value:
Follow-up - New permissible value:
Initial Diagnosis - New permissible value:
Last Contact - New permissible value:
Post Adjuvant Therapy - New permissible value:
Post Hormone Therapy - New permissible value:
Post Initial Treatment - New permissible value:
Post Secondary Therapy - New permissible value:
Prior to Adjuvant Therapy - New permissible value:
Prior to Chemotherapy - New permissible value:
Prior to Study Enrollment - New permissible value:
Recurrence/Progression - New permissible value:
Sample Procurement - New permissible value:
Within 2 Months After Completion of First-Course Treatment - New permissible value:
Within 3 Months of Surgery - New permissible value:
Other
- New permissible value:
- Changes made to
treatment_anatomic_sites- New permissible value:
Epiglottis
- New permissible value:
- Changes made to
treatment_intent_type- New permissible value:
Re-Excision - New permissible value:
Salvage
- New permissible value:
- Changes made to
treatment_type- New permissible value:
Hysterectomy, NOS
- New permissible value:
- New deprecated property:
therapeutic_level_achieved
- New property:
Bugs Fixed Since Last Release
- N/A
Known Issues and Workarounds
- The enum
Head - Face Or Neck, Noshas been deprecated for the propertytreatment_anatomic_siteson thetreatmententity, but still appears in the Data Dictionary viewer. This will be resolved in a future release.
v3.1.0
- GDC Product: GDC Data Dictionary
- Release Date: May 30, 2024
New Features and Changes
- New Entity:
germline_mutation_index - New Entity:
submitted_expression_array - Altered
aggregated_somatic_mutationEntity- New property:
platform
- New property:
- Altered
aligned_readsEntity- Added
minimumand/ormaximumvalues to propertiesaverage_base_qualityaverage_insert_sizeaverage_read_lengthcontaminationcontamination_errormean_coveragemsi_scorepairs_on_diff_chrproportion_base_mismatchproportion_coverage_10xproportion_coverage_30xproportion_reads_duplicatedproportion_reads_mappedproportion_targets_no_coveragetotal_readstumor_ploidytumor_purity
- Added
- Altered
annotated_somatic_mutationEntity- New property:
platform
- New property:
- Altered
annotationEntity- Changes made to
linksgermline_mutation_indexesadded to subgroupsubmitted_expression_arraysadded to subgroup
- Changes made to
properties- New property:
germline_mutation_indexes - New property:
submitted_expression_arrays
- New property:
- Changes made to
- Altered
copy_number_auxiliary_fileEntity- Changes made to
data_format- New permissible value:
PDF
- New permissible value:
- Changes made to
data_type- New permissible value:
CNV Model
- New permissible value:
- Changes made to
- Altered
copy_number_segmentEntity- New property:
cancer_dna_fraction - New property:
genome_doubling - New property:
subclonal_genome_fraction - New property:
tumor_ploidy - New property:
tumor_purity
- New property:
- Altered
demographicEntity- Added permissible values
Unknownand/orNot Reportedto propertiescountry_of_birthcountry_of_residence_at_enrollmenteducation_levelmarital_status
- Added permissible values
- Altered
diagnosisEntity- New property:
calgb_risk_group - New property:
tumor_of_origin - Changes made to
classification_of_tumor- New permissible value:
Subsequent Primary
- New permissible value:
- Changes made to
primary_diagnosis- New permissible value:
Diffuse intrinsic pontine glioma, H3 K27M-mutant - Removed permissible value:
Hairy cell leukaemia variant
- New permissible value:
- Changes made to
sites_of_involvement- New permissible value:
Dura Mater - New permissible value:
Esophagus, Lower Third - New permissible value:
Esophagus, Middle Third - New permissible value:
Esophagus, NOS - New permissible value:
Esophagus, Upper Third - New permissible value:
Lymph Node, Cervical - New permissible value:
Lymph Node, Femoral - New permissible value:
Lymph Node, Hilar - New permissible value:
Lymph Node, Iliac-Common - New permissible value:
Lymph Node, Iliac-External - New permissible value:
Lymph Node, Mediastinal - New permissible value:
Lymph Node, Mesenteric - New permissible value:
Lymph Node, Para-Aortic - New permissible value:
Lymph Node, Retroperitoneal - New permissible value:
Lymph Node, Splenic - New permissible value:
Lymph Node, Submandibular - New permissible value:
Lymph Node, Supraclavicular - New permissible value:
Pancreas Body - New permissible value:
Pancreas Duct - New permissible value:
Pancreas Head - New permissible value:
Pancreas Tail - New permissible value:
Pancreas, NOS - New permissible value:
Parametrium, NOS - New deprecated value:
Esophagus - New deprecated value:
Pancreas
- New permissible value:
- Added permissible values
Unknownand/orNot Reportedto propertiesadrenal_hormoneann_arbor_b_symptoms_describedbest_overall_responsecancer_detection_methodclark_levelcontiguous_organ_invadeddouble_expressor_lymphomadouble_hit_lymphomaensat_clinical_mensat_pathologic_nensat_pathologic_stageensat_pathologic_tgleason_grade_groupgleason_grade_tertiaryinternational_prognostic_indexmargins_involved_sitemasaoka_stagemelanoma_known_primarypediatric_kidney_stagingprimary_gleason_gradesecondary_gleason_gradetumor_grade_categoryulceration_indicatorweiss_assessment_findingsweiss_assessment_score
- New property:
- Altered
exposureEntity- Added permissible values
Other,Unknownand/orNot Reportedto propertiesalcohol_frequencyasbestos_exposure_typechemical_exposure_typeenvironmental_tobacco_smoke_exposureexposure_sourceexposure_typeoccupation_typeparent_with_radiation_exposuresmoking_frequencytime_between_waking_and_first_smoketype_of_smoke_exposure
- Added permissible values
- Altered
family_historyEntity- Added permissible values
Unknownto propertiesrelative_deceasedrelative_smoker
- Added permissible values
- Altered
filtered_copy_number_segmentEntity- New property:
platform
- New property:
- Altered
follow_upEntity- New property:
treatment_emergent_adverse_event - Changes made to
adverse_event- New permissible value:
Cardiac Ischemia - New permissible value:
Glomerular Filtration Rate Decreased - New permissible value:
Joint Pain - New permissible value:
Rash/Desquamation - New permissible value:
Renal Failure - New permissible value:
Ureteral Obstruction - New permissible value:
Unknown - New permissible value:
Not Reported
- New permissible value:
- Changes made to
first_event- New permissible value:
Recurrence - New permissible value:
Unknown
- New permissible value:
- Changes made to
imaging_anatomic_site- New permissible value:
Pleura - New permissible value:
Unknown - New permissible value:
Not Reported
- New permissible value:
- Changes made to
imaging_findings- New permissible value:
Distant Metastasis - New permissible value:
Equivocal - New permissible value:
Extraprostatic Extension, Localized - New permissible value:
Extraprostatic Extension, Regional Lymphadenopathy - New permissible value:
No Evidence of Extraprostatic Extension - New permissible value:
Unknown
- New permissible value:
- Changes made to
imaging_type- New permissible value:
Bone Scan, NOS - New permissible value:
Unknown - New permissible value:
Not Reported
- New permissible value:
- Changes made to
timepoint_category- New permissible value:
Prior to Adjuvant Therapy - New permissible value:
Within 2 Months After Completion of First-Course Treatment - New permissible value:
Unknown
- New permissible value:
- Added permissible values
Unknownand/orNot Reportedto propertiesadverse_event_gradeevidence_of_progression_typeevidence_of_recurrence_typehistory_of_tumorhistory_of_tumor_typeperitoneal_washing_resultsscan_tracer_used
- New deprecated property:
days_to_risk_factor
- New property:
- Altered
gene_expressionEntity- New property:
platform - Changes made to
experimental_strategy- New permissible value:
Expression Array
- New permissible value:
- New property:
- Altered
germline_mutation_calling_workflowEntity- Changes made to
workflow_type- New permissible value:
Strelka2 Germline
- New permissible value:
- Changes made to
- Altered
masked_somatic_mutationEntity- New property:
platform
- New property:
- Altered
mirna_expressionEntity- New property:
platform
- New property:
- Altered
molecular_testEntity- Changes made to
chromosomal_translocation- New permissible value:
t(4;11) - New permissible value:
t(9;11) - New permissible value:
t(9;22) - New permissible value:
t(15;17)
- New permissible value:
- Changes made to
gene_symbol- New permissible value:
MPO - New permissible value:
RAS, NOS
- New permissible value:
- Changes made to
laboratory_test- New permissible value:
Abnormal Cells
- New permissible value:
- Changes made to
molecular_analysis_method- New permissible value:
Immunophenotyping, NOS
- New permissible value:
- Changes made to
second_gene_symbol- New permissible value:
MPO - New permissible value:
RAS, NOS
- New permissible value:
- Changes made to
test_units- New permissible value:
IU - New permissible value:
nmol/L - New permissible value:
Seconds - New permissible value:
x10^6 cells/mcL
- New permissible value:
- Changes made to
test_value_range- New permissible value:
0-25% - New permissible value:
26-50% - New permissible value:
51-75% - New permissible value:
76-100% - New permissible value:
Unknown - New deprecated value:
0-25 - New deprecated value:
26-50 - New deprecated value:
51-75 - New deprecated value:
76-100
- New permissible value:
- Changes made to
timepoint_category- New permissible value:
Initial Diagnosis - New permissible value:
Sample Procurement - New permissible value:
Unknown
- New permissible value:
- Added permissible values
Unknownand/orNot Reportedto propertiesaneuploidychromosome_armclonalityhpv_strainmolecular_consequencemutation_codonpathogenicitystaining_intensity_scalestaining_intensity_valuevariant_origin
- Changes made to
- Altered
other_clinical_attributeEntity- New property:
days_to_risk_factor - New property:
hormonal_replacement_therapy_status - New property:
number_of_pregnancies - New property:
viral_hepatitis_serology_tests - Changes made to
immunosuppressive_treatment_type- New permissible value:
Immunoglobulin - New permissible value:
Prednisone
- New permissible value:
- Changes made to
pregnancy_outcome- New permissible value:
Full Term Birth, NOS
- New permissible value:
- Changes made to
risk_factors- New permissible value:
BK Virus - New permissible value:
Diverticulosis - New permissible value:
Hypercholesterolemia - New permissible value:
Hypertension - New permissible value:
Scarlet Fever - New permissible value:
Ulcerative Colitis
- New permissible value:
- Changes made to
timepoint_category- New permissible value:
Sample Procurement - New permissible value:
Unknown
- New permissible value:
- Added permissible values
Unknownand/orNot Reportedto propertieseye_colornononcologic_therapeutic_agentsoxygen_use_typerisk_factor_method_of_diagnosisundescended_testis_correctedundescended_testis_corrected_lateralityundescended_testis_corrected_methodundescended_testis_historyundescended_testis_history_laterality
- Removed
maximumvalue for propertiesdlco_ref_predictive_percentfev1_fvc_post_bronch_percentfev1_ref_post_bronch_percentfev1_fvc_pre_bronch_percentfev1_ref_pre_bronch_percent
- New deprecated property:
pregnancy_count - New deprecated property:
viral_hepatitis_serologies
- New property:
- Altered
pathology_detailEntity- New property:
prcc_type - New property:
tumor_burden - Added permissible values
Unknownand/orNot Reportedto propertiesconsistent_pathology_reviewextracapsular_extensionextracapsular_extension_presentextranodal_extensionextrathyroid_extensionlymph_node_dissection_sitelymph_nodes_removedmeasurement_typemeasurement_unitmorphologic_architectural_patternnecrosis_presentresidual_tumorresidual_tumor_measurementrhabdoid_presentsarcomatoid_presenttumor_depth_descriptortumor_infiltrating_lymphocytestumor_infiltrating_macrophagestumor_shapezone_of_origin_prostate
- New property:
- Altered
rna_expression_workflowEntity- Changes made to
linkssubmitted_expression_arraysadded to subgroup
- New property:
submitted_expression_arrays - Changes made to
workflow_type- New permissible value:
Expression Array Quantification
- New permissible value:
- Changes made to
- Altered
sampleEntity- New deprecated property:
tumor_code - Updated definitions for properties
days_to_collectiondays_to_sample_procurementbiospecimen_anatomic_site
- New deprecated property:
- Altered
secondary_expression_analysisEntity- New property:
platform
- New property:
- Altered
simple_germline_variationEntity- Changes made to
data_format- New permissible value:
gVCF
- New permissible value:
- Changes made to
platform- New permissible value:
Illumina
- New permissible value:
- Changes made to
- Altered
simple_somatic_mutationEntity- New property:
platform
- New property:
- Altered
somatic_aggregation_workflowEntity- Changes made to
workflow_type- New permissible value:
Tumor-Only Somatic Variant Merging and Masking
- New permissible value:
- Changes made to
- Altered
somatic_annotation_workflowEntity- Changes made to
workflow_type- New permissible value:
Manta Indel Annotation - New permissible value:
Strelka2 Annotation - New permissible value:
SvABA Indel Annotation
- New permissible value:
- Changes made to
- Altered
somatic_copy_number_workflowEntity- Changes made to
workflow_type- New permissible value:
ABSOLUTE GATK4 CNV Auto - New permissible value:
ABSOLUTE GATK4 CNV Curated
- New permissible value:
- Changes made to
- Altered
somatic_mutation_calling_workflowEntity- Changes made to
workflow_type- New permissible value:
Manta Indel - New permissible value:
Strelka2 - New permissible value:
SvABA Indel
- New permissible value:
- Changes made to
- Altered
somatic_mutation_indexEntity:- Updated definition for Entity
- Altered
structural_variant_calling_workflowEntity- Changes made to
workflow_type- New permissible value:
Manta
- New permissible value:
- Changes made to
- Altered
structural_variationEntity- New property:
platform
- New property:
- Altered
treatmentEntity- New property:
prescribed_dose_units - Changes made to
reason_treatment_not_given- New permissible value:
Patient Ineligible
- New permissible value:
- Changes made to
treatment_type- New permissible value:
Ablation or Embolization, NOS
- New permissible value:
- Added permissible values
Unknownand/orNot Reportedto propertiesdrug_categoryembolic_agentprotocol_identifierreason_treatment_endedresidual_diseasetherapeutic_target_leveltimepoint_categorytreatment_dose_units
- New property:
Bugs Fixed Since Last Release
- The GDC Data Dictionary Viewer on the GDC Documentation Site correctly displays links to terms for properties that were previously listed as 'null'.
Known Issues and Workarounds
- The enum
Head - Face Or Neck, Noshas been deprecated for the propertytreatment_anatomic_siteson thetreatmententity, but still appears in the Data Dictionary viewer. This will be resolved in a future release.
v3.0.0
- GDC Product: GDC Data Dictionary
- Release Date: October 30, 2023
New Features and Changes
- New Entity:
other_clinical_attribute - Altered
annotationEntity- Changes made to
linksother_clinical_attributesadded to subgroup
- Changes made to
- Altered
demographicEntity- New deprecated property:
premature_at_birth - New deprecated property:
weeks_gestation_at_birth
- New deprecated property:
- Altered
diagnosisEntity- Changes made to
morphology- New permissible value:
8980/6
- New permissible value:
- Changes made to
primary_diagnosis- New permissible value:
Diffuse Pediatric-type High Grade Glioma
- New permissible value:
- Changes made to
sites_of_involvement- New permissible value:
Thyroid Gland Isthmus
- New permissible value:
- Changes made to
tumor_grade- Removed deprecated value:
not reported
- Removed deprecated value:
- New deprecated property
pregnant_at_diagnosis - Removed property:
measurement_type
- Changes made to
- Altered
exposureEntity- Changes made to
exposure_source- New permissible value:
Home - New permissible value:
Social - New permissible value:
Work
- New permissible value:
- Changes made to
- Altered
follow_upEntity- Changes made to
imaging_anatomic_site- New permissible value:
Lymph Node
- New permissible value:
- Changes made to
imaging_type- New permissible value:
Ultrasound
- New permissible value:
- New deprecated property:
aids_risk_factors - New deprecated property:
bmi - New deprecated property:
body_surface_area - New deprecated property:
cd4_count - New deprecated property:
cdc_hiv_risk_factors - New deprecated property:
comorbidity_method_of_diagnosis - New deprecated property:
comorbidities - New deprecated property:
days_to_comorbidity - New deprecated property:
diabetes_treatment_type - New deprecated property:
dlco_ref_predictive_percent - New deprecated property:
eye_color - New deprecated property:
fev1_fvc_post_bronch_percent - New deprecated property:
fev1_fvc_pre_bronch_percent - New deprecated property:
fev1_ref_post_bronch_percent - New deprecated property:
fev1_ref_pre_bronch_percent - New deprecated property:
haart_treatment_indicator - New deprecated property:
height - New deprecated property:
hepatitis_sustained_virological_response - New deprecated property:
hiv_viral_load - New deprecated property:
hormonal_contraceptive_type - New deprecated property:
hormonal_contraceptive_use - New deprecated property:
hormone_replacement_therapy_type - New deprecated property:
hysterectomy_margins_involved - New deprecated property:
hysterectomy_type - New deprecated property:
immunosuppressive_treatment_type - New deprecated property:
menopause_status - New deprecated property:
nadir_cd4_count - New deprecated property:
pancreatitis_onset_year - New deprecated property:
pregnancy_count - New deprecated property:
pregnancy_outcome - New deprecated property:
reflux_treatment_type - New deprecated property:
risk_factor_method_of_diagnosis - New deprecated property:
risk_factor_treatment - New deprecated property:
risk_factors - New deprecated property:
undescended_testis_corrected - New deprecated property:
undescended_testis_corrected_age - New deprecated property:
undescended_testis_corrected_laterality - New deprecated property:
undescended_testis_corrected_method - New deprecated property:
undescended_testis_history - New deprecated property:
undescended_testis_history_laterality - New deprecated property:
viral_hepatitis_serologies - New deprecated property:
weight
- Changes made to
- Altered
molecular_testEntity- New property:
staining_intensity_value - Changes made to
antigen- New permissible value:
CD43
- New permissible value:
- Changes made to
molecular_analysis_method- New permissible value:
Microscopy, NOS
- New permissible value:
- Changes made to
test_result- New permissible value:
Mitotic Count Reported - New permissible value:
Staining Intensity Value Reported
- New permissible value:
- Changes made to
test_units- Removed deprecated value:
count x10^9/L
- Removed deprecated value:
- Changes made to
timepoint_category- New permissible value:
Prior to Treatment
- New permissible value:
- New property:
- Altered
pathology_detailEntity- Changes made to
lymph_node_involved_site- New permissible value:
Cervical, Central - New permissible value:
Cervical, Lateral - New permissible value:
Cervical, NOS - New deprecated value:
Cervical
- New permissible value:
- Changes made to
measurement_type- New permissible value:
Echographic
- New permissible value:
- New property:
days_to_pathology_detail - New property:
extracapsular_extension_present - New property:
extrathyroid_extension - New property:
histologic_progression_type - New property:
micrometastasis_present - Removed property:
tumor_measurement_method
- Changes made to
- Altered
read_groupEntity- Changes made to
instrument_model- New permissible value:
Illumina NovaSeq X
- New permissible value:
- Changes made to
- Altered
sampleEntity- Changes made to
biospecimen_anatomic_site- New permissible value:
Head, Face or Neck, NOS - New deprecated value:
Head - Face Or Neck, Nos
- New permissible value:
- Changes made to
- Altered
submitted_aligned_readsEntity- Changes made to
experimental_strategy- New deprecated value:
scRNA-Seq
- New deprecated value:
- Changes made to
- Altered
treatmentEntity- Changes made to
timepoint_category- New permissible value:
First Treatment - New permissible value:
Prior to Treatment
- New permissible value:
- Changes made to
treatment_anatomic_sites- New deprecated value:
Head - Face Or Neck, Nos - New permissible value:
Head, Face or Neck, NOS
- New deprecated value:
- New property:
radiosensitizing_agent - New property:
reason_treatment_not_given - New property:
therapeutic_levels_achieved
- Changes made to
Bugs Fixed Since Last Release
- The GDC Data Dictionary Viewer on the GDC Documentation Site correctly displays links to terms for properties that were previously listed as 'null'.
Known Issues and Workarounds
- The enum
Head - Face Or Neck, Noshas been deprecated for the propertytreatment_anatomic_siteson thetreatmententity, but still appears in the Data Dictionary viewer. This will be resolved in a future release.
v2.6.6
- GDC Product: GDC Data Dictionary
- Release Date: June 16, 2023
New Features and Changes
- Updated CDE links to point to newer version of caDSR website.
- Altered
aligned_readsEntity- New property:
wgs_coverage
- New property:
- Altered
caseEntity- New required property:
disease_type - New required property:
primary_site - Changes made to
primary_site- New permissible value:
Not Applicable
- New permissible value:
- New required property:
- Altered
demographicEntity- New property:
country_of_birth - New property:
education_level - New property:
marital_status
- New property:
- Altered
diagnosisEntity- New deprecated property:
metastasis_at_diagnosis_site - New property:
clark_level - New property:
contiguous_organ_invaded - New property:
ensat_clinical_m - New property:
ensat_pathologic_n - New property:
ensat_pathologic_stage - New property:
ensat_pathologic_t - New property:
first_symptom_longest_duration - New property:
measurement_type - New property:
melanoma_known_primary - New property:
tumor_burden - New property:
ulceration_indicator - Changes made to
sites_of_involvement- New permissible value:
Ascites - New permissible value:
Common or Superficial Femoral Vein - New permissible value:
Distant Nodes - New permissible value:
Distant Organ - New permissible value:
Gastrointestinal Tract - New permissible value:
Great Blood Vessel - New permissible value:
Groin - New permissible value:
Head, Face or Neck, NOS - New permissible value:
Inferior Vena Cava - New permissible value:
Lymph Node, Axillary - New permissible value:
Lymph Node, Inguinal - New permissible value:
Lymph Node, Regional - New permissible value:
Lymph Node, Subcarinal - New permissible value:
Mediastinum - New permissible value:
Pelvic Vein, Common, External or Iliac - New permissible value:
Peritoneal Cavity - New permissible value:
Renal Vein - New permissible value:
Scalp - New permissible value:
Spinal Cord - New permissible value:
Urethra - New permissible value:
Vertebral Canal - New permissible value:
Vulva, NOS
- New permissible value:
- New deprecated property:
- Altered
exposureEntity- New property:
exposure_duration_hrs_per_day - Changes made to
exposure_type- New permissible value:
Dust, NOS
- New permissible value:
- New property:
- Altered
family_historyEntity- New property:
relative_deceased - New property:
relative_smoker
- New property:
- Altered
follow_upEntity- New property:
discontiguous_lesion_count - Changes made to
comorbidities- New permissible value:
Pneumonia, NOS
- New permissible value:
- Changes made to
first_event- New permissible value:
Presented with Metastases
- New permissible value:
- Changes made to
risk_factors- New permissible value:
Pneumonia, NOS
- New permissible value:
- Changes made to
timepoint_category- New permissible value:
Within 3 Months of Surgery
- New permissible value:
- New property:
- Altered
masked_methylation_arrayEntity- Changes made to
platform- New permissible value:
Illumina Methylation Epic v2
- New permissible value:
- Changes made to
- Altered
methylation_beta_valueEntity- Changes made to
platform- New permissible value:
Illumina Methylation Epic v2
- New permissible value:
- Changes made to
- Altered
molecular_testEntity- New property:
staining_intensity_scale - Changes made to
gene_symbolandsecond_gene_symbol- New permissible value:
ACACA - New permissible value:
BRD1 - New permissible value:
BTBD18 - New permissible value:
CBFA2T2 - New permissible value:
CEP164 - New permissible value:
CEP170B - New permissible value:
CTDP1 - New permissible value:
DOT1L - New permissible value:
FRYL - New permissible value:
GLIS2 - New permissible value:
HMGB3 - New permissible value:
HNRNPH1 - New permissible value:
INO80D - New permissible value:
JARID2 - New permissible value:
PHF23 - New permissible value:
PIM3 - New permissible value:
PTP4A1 - New permissible value:
RPS15 - New permissible value:
SETD1A - New permissible value:
SLC66A2 (aka PQLC1) - New permissible value:
TOP2B - New permissible value:
UBB - New permissible value:
ZEB2
- New permissible value:
- Changes made to
test_value_range- New permissible value:
<10% - New permissible value:
10-19% - New permissible value:
20-29% - New permissible value:
30-39% - New permissible value:
40-49% - New permissible value:
50-59% - New permissible value:
60-69% - New permissible value:
70-79% - New permissible value:
80-89% - New permissible value:
90-99% - New permissible value:
<1% - New permissible value:
1-49% - New permissible value:
>=50%
- New permissible value:
- Changes made to
timepoint_category- New permissible value:
Preoperative
- New permissible value:
- New property:
- Altered
pathology_detailEntity- New property:
epithelioid_cell_percent - New property:
measurement_type - New property:
measurement_unit - New property:
spindle_cell_percent - New property:
tumor_depth_descriptor - New property:
tumor_depth_measurement - New property:
tumor_infiltrating_lymphocytes - New property:
tumor_infiltrating_macrophages - New property:
tumor_length_measurement - New property:
tumor_measurement_method - New property:
tumor_shape - New property:
tumor_width_measurement - Changes made to
additional_pathology_findings- New permissible value:
Extravascular Matrix Loops - New permissible value:
Other Complex Extravascular Matrix Patterns - New permissible value:
Poorly Differentiated - New permissible value:
Well Differentiated
- New permissible value:
- New property:
- Altered
raw_methylation_arrayEntity- Changes made to
platform- New permissible value:
Illumina Methylation Epic v2
- New permissible value:
- Changes made to
- Altered
sampleEntity- Changes made to
preservation_method- New permissible value:
EDTA
- New permissible value:
- Changes made to
specimen_type- New permissible value:
Derived Cell Lines and Sorted Cells
- New permissible value:
- Changes made to
- Altered
treatmentEntity- New deprecated property:
treatment_anatomic_site - New property:
treatment_anatomic_sites - Changes made to
protocol_identifier- New permissible value:
P9407
- New permissible value:
- New deprecated property:
Bugs Fixed Since Last Release
- The GDC Data Dictionary Viewer on the GDC Documentation Site correctly displays permissible values for array-type properties.
v2.6.0
- GDC Product: GDC Data Dictionary
- Release Date: February 2, 2023
New Features and Changes
- Altered
aliquotEntity- New deprecated property:
analyte_type_id
- New deprecated property:
- Altered
analyteEntity- New deprecated property:
analyte_type_id
- New deprecated property:
- Altered
annotationEntity- Changes made to
linkscopy_number_auxiliary_filesadded to subgroup
- New property:
copy_number_auxiliary_files
- Changes made to
- Altered
exposureEntity- New deprecated property:
coal_dust_exposure - New property:
alcohol_frequency - New property:
chemical_exposure_type - New property:
occupation_duration_years - New property:
occupation_type - Changes made to
exposure_type- New permissable value:
Coal Dust
- New permissable value:
- Changes made to
tobacco_smoking_status- New permissable value:
Current Reformed Smoker, Duration Not Specified - New permissable value:
Current Reformed Smoker for < or = 15 yrs - New permissable value:
Current Reformed Smoker for > 15 yrs - New permissable value:
Current Smoker - New permissable value:
Lifelong Non-Smoker - New permissable value:
Smoker at Diagnosis - New permissable value:
Smoking history not documented - New deprecated value:
1 - New deprecated value:
2 - New deprecated value:
3 - New deprecated value:
4 - New deprecated value:
5 - New deprecated value:
6 - New deprecated value:
7
- New permissable value:
- New deprecated property:
- Altered
diagnosisEntity- New property:
cancer_detection_method - New property:
fab_morphology_code - New property:
gleason_score - New property:
pediatric_kidney_staging - New property:
sites_of_involvement_count - New property:
tumor_grade_category - New property:
uicc_staging_system_edition - New property:
weiss_assessment_findings - Changes made to
inpc_grade- New permissable value:
Undifferentiated or Poorly Differentiated
- New permissable value:
- Changes made to
sites_of_involvement- Changes made to
items- New permissable value:
Brain, Brain stem - New permissable value:
Brain, Cerebellum, NOS - New permissable value:
Brain, Cerebrum - New permissable value:
Brain, Frontal lobe - New permissable value:
Brain, Occipital lobe - New permissable value:
Brain, Parietal - New permissable value:
Brain, Temporal lobe - New permissable value:
Brain, Ventricle, NOS - New permissable value:
Central Lung - New permissable value:
Gastrosplenic Ligament - New permissable value:
Parametrium, Left - New permissable value:
Parametrium, Right - New permissable value:
Pelvic Lymph Node(s) - New permissable value:
Peri-aortic Lymph Node(s) - New permissable value:
Peripheral Lung - New permissable value:
Thorax, NOS
- New permissable value:
- Changes made to
- New property:
- Altered
family_historyEntity- Changes made to
relationship_type- New permissable value:
First Degree Relative, NOS
- New permissable value:
- Changes made to
- Altered
follow_upEntity- New deprecated property:
comorbidity - New deprecated property:
risk_factor - New property:
comorbidities - New property:
days_to_first_event - New property:
days_to_risk_factor - New property:
evidence_of_progression_type - New property:
first_event - New property:
imaging_anatomic_site - New property:
imaging_findings - New property:
imaging_suv - New property:
imaging_suv_max - New property:
peritoneal_washing_results - New property:
pregnancy_count - New property:
risk_factors - New property:
risk_factor_method_of_diagnosis - New property:
timepoint_category - New property:
year_of_follow_up - Changes made to
evidence_of_recurrence_type- New permissable value:
Histologic Confirmation
- New permissable value:
- Changes made to
history_of_tumor_type- New permissable value:
Colorectal Cancer - New permissable value:
Lower Grade Glioma
- New permissable value:
- Changes made to
pregnancy_outcome- New permissable value:
Spontaneous Abortion
- New permissable value:
- Changes made to
progression_or_recurrence_type- New permissable value:
Locoregional
- New permissable value:
- New deprecated property:
- Altered
gene_expressionEntity- Changes made to
experimental_strategy- New permissable value:
m6A MeRIP-Seq
- New permissable value:
- Changes made to
- Altered
molecular_testEntity- New property:
aneuploidy - New property:
chromosomal_translocation - New property:
chromosome_arm - New property:
mutation_codon - New property:
test_value_range - New property:
timepoint_category - Changes made to
antigen- New permissable value:
Immunoglobulin, Cytoplasmic - New permissable value:
Immunoglobulin, Surface
- New permissable value:
- Changes made to
laboratory_test- New permissable value:
Blast Count - New permissable value:
Metaphase Nucleus Count - New permissable value:
Minimal Residual Disease - New permissable value:
Monocytes
- New permissable value:
- Changes made to
test_result- New permissable value:
Amplified - New permissable value:
Elevated - New permissable value:
Not Amplified
- New permissable value:
- Changes made to
variant_type- New permissable value:
Fusion - New permissable value:
Genetic Polymorphism - New permissable value:
Internal Tandem Duplication - New permissable value:
Mutation, NOS
- New permissable value:
- New property:
- Altered
pathology_detailEntity- New property:
extracapsular_extension - New property:
extranodal_extension - New property:
extrascleral_extension - New property:
lymph_node_dissection_method - New property:
lymph_node_dissection_site - New property:
lymph_nodes_removed - New property:
percent_tumor_nuclei - New property:
residual_tumor_measurement - Changes made to
additional_pathology_findings- New permissable value:
Bone marrow concordant histology - New permissable value:
Bone marrow discordant histology
- New permissable value:
- Changes made to
dysplasia_type- New permissable value:
Esophageal Mucosa Columnar Dysplasia
- New permissable value:
- Changes made to
lymph_node_involved_site- New permissable value:
Aortic - New permissable value:
Pelvis, NOS
- New permissable value:
- New property:
- Altered
read_groupEntity- Changes made to
target_capture_kit- New property:
Custom SureSelect CGCI-BLGSP Panel - 7.8 Mb
- New property:
- Changes made to
- Altered
sampleEntity- New required property:
preservation_method - New required property:
specimen_type - New required property:
tumor_descriptor - New deprecated property:
composition - New deprecated property:
sample_type - New deprecated property:
sample_type_id - New property:
specimen_type - Changes made to
tumor_descriptor- New permissable value:
New Primary
- New permissable value:
- New required property:
- Altered
simple_germline_variationEntity- Changes made to
experimental_strategy- New permissable value:
Genotyping Array
- New permissable value:
- Changes made to
- Altered
somatic_copy_number_workflowEntity- Changes made to
workflow_type- New permissable value:
ABSOLUTE LiftOver - New permissable value:
ASCAT3 - New permissable value:
GATK4 CNV
- New permissable value:
- Changes made to
- Altered
structural_variant_calling_workflowEntity- Changes made to
workflow_type- New permissable value:
SvABA
- New permissable value:
- Changes made to
- Altered
submitted_genotyping_arrayEntity- Changed
aliquotlink fromone-to-onetomany-to-one
- Changed
- Altered
treatmentEntity- New property:
residual_disease - New property:
timepoint_category - New property:
treatment_duration - New property:
treatment_outcome_duration - New property:
therapeutic_level_achieved - New property:
therapeutic_target_level - Changes made to
initial_disease_status- New permissable value:
Persistent Disease - New permissable value:
Refractory Disease
- New permissable value:
- Changes made to
protocol_identifier- New permissable value:
901 - New permissable value:
911 - New permissable value:
914 - New permissable value:
925 - New permissable value:
935 - New permissable value:
937 - New permissable value:
3881 - New permissable value:
3891 - New permissable value:
4941 - New permissable value:
8605 - New permissable value:
9047 - New permissable value:
9082 - New permissable value:
9340 - New permissable value:
9341 - New permissable value:
9342 - New permissable value:
9343 - New permissable value:
9464 - New permissable value:
9640 - New permissable value:
9906 - New permissable value:
321P2 - New permissable value:
321P3 - New permissable value:
323P - New permissable value:
A3961 - New permissable value:
A3973 - New permissable value:
AADM01P1 - New permissable value:
AALL0031 - New permissable value:
AALL0232 - New permissable value:
AALL0331 - New permissable value:
AALL03B1 - New permissable value:
AALL0434 - New permissable value:
AALL07P4 - New permissable value:
AALL08P1 - New permissable value:
AALL1131 - New permissable value:
AAML00P2 - New permissable value:
AAML03P1 - New permissable value:
AAML0531 - New permissable value:
AAML0631 - New permissable value:
AAML1031 - New permissable value:
AB9804 - New permissable value:
ACCL0331 - New permissable value:
ACCL0431 - New permissable value:
ACCL05C1 - New permissable value:
ACCL0934 - New permissable value:
ACCL1031 - New permissable value:
ADVL0018 - New permissable value:
ADVL0212 - New permissable value:
ADVL0214 - New permissable value:
ADVL0215 - New permissable value:
ADVL0421 - New permissable value:
ADVL0524 - New permissable value:
ADVL0525 - New permissable value:
ADVL06B1 - New permissable value:
ADVL0714 - New permissable value:
ADVL0812 - New permissable value:
ADVL0813 - New permissable value:
ADVL0821 - New permissable value:
ADVL0911 - New permissable value:
ADVL0912 - New permissable value:
ADVL0918 - New permissable value:
ADVL0921 - New permissable value:
ADVL1011 - New permissable value:
ADVL1111 - New permissable value:
ADVL1112 - New permissable value:
ADVL1115 - New permissable value:
ADVL1213 - New permissable value:
ADVL1412 - New permissable value:
AEPI07N1 - New permissable value:
ALTE03N1 - New permissable value:
ALTE05N1 - New permissable value:
ANBL0032 - New permissable value:
ANBL00B1 - New permissable value:
ANBL00P1 - New permissable value:
ANBL00P3 - New permissable value:
ANBL02P1 - New permissable value:
ANBL0321 - New permissable value:
ANBL0322 - New permissable value:
ANBL0421 - New permissable value:
ANBL0531 - New permissable value:
ANBL0532 - New permissable value:
ANBL0621 - New permissable value:
ANBL0931 - New permissable value:
ANBL09P1 - New permissable value:
ANBL1021 - New permissable value:
ANBL1221 - New permissable value:
ANUR1131 - New permissable value:
AOST0121 - New permissable value:
AOST0331 - New permissable value:
AOST06B1 - New permissable value:
AOST06P1 - New permissable value:
AREN03B2 - New permissable value:
B003 - New permissable value:
B903 - New permissable value:
B947 - New permissable value:
B954 - New permissable value:
B973 - New permissable value:
BCM - New permissable value:
CCG2961 - New permissable value:
D9902 - New permissable value:
E04 - New permissable value:
E18 - New permissable value:
GBCTTO/99 - New permissable value:
GLATO 2006 - New permissable value:
I03 - New permissable value:
IHRT - New permissable value:
INT-0133 - New permissable value:
N891 - New permissable value:
NWTS-4 - New permissable value:
NWTS-5 - New permissable value:
OSTEO 2006 - New permissable value:
Not Reported - New permissable value:
P9462 - New permissable value:
P9641 - New permissable value:
P9754 - New permissable value:
P9851 - New permissable value:
P9906 - New permissable value:
P9963 - New permissable value:
R9702 - New permissable value:
S31 - New permissable value:
S921 - New permissable value:
STB
- New permissable value:
- Changes made to
treatment_anatomic_site- New permissable value:
Locoregional Site
- New permissable value:
- Changes made to
treatment_intent_type- New permissable value:
Consolidation Therapy - New permissable value:
First-Line Therapy - New permissable value:
Induction - New permissable value:
Radiation Boost
- New permissable value:
- Changes made to
treatment_outcome- New permissable value:
Normalization of Tumor Markers
- New permissable value:
- Changes made to
treatment_type- New permissable value:
Biopsy, Excisional - New permissable value:
Biopsy, Incisional - New permissable value:
Distal Pancreatectomy - New permissable value:
Surgery, NOS - New permissable value:
Surgery, Minimally Invasive - New permissable value:
Surgery, Open - New permissable value:
Total Pancreatectomy - New permissable value:
Whipple - New deprecated value:
Cryoablation - New deprecated value:
Surgery
- New permissable value:
- Changes made to
therapeutic_agents- New permissable value:
TLR9 Agonist SD-101
- New permissable value:
- New property:
- New Entity:
copy_number_auxiliary_file
Known Issues and Workarounds
- The GDC Data Dictionary Viewer on the GDC Documentation Site does not currently display permissible values for array type properties. This does not impact submission of permissible values for these properties. Data submitters that would like to submit data for these properties can contact the GDC Helpdesk (support@nci-gdc.datacommons.io) for a list of permissible values for the affected properties. This will be addressed in a future release.
v2.5.0
- GDC Product: GDC Data Dictionary
- Release Date: July 8, 2022
New Features and Changes
- Altered
diagnosisEntity- New property:
double_expressor_lymphoma - New property:
double_hit_lymphoma - New property:
max_tumor_bulk_site - New property:
uicc_clinical_m - New property:
uicc_clinical_n - New property:
uicc_clinical_stage - New property:
uicc_clinical_t - New property:
uicc_pathologic_m - New property:
uicc_pathologic_n - New property:
uicc_pathologic_stage - New property:
uicc_pathologic_t - Changes made to
ajcc_pathologic_n- New permissible value:
N2mi
- New permissible value:
- Changes made to
ajcc_pathologic_t- New permissible value:
T1c2
- New permissible value:
- Changes made to
classification_of_tumor- New permissible value:
Prior primary - New permissible value:
Synchronous primary
- New permissible value:
- Changes made to
metastasis_at_diagnosis_site- New permissible value:
Spleen - New permissible value:
Stomach
- New permissible value:
- Changes made to
morphology- New permissible value:
8211/6 - New permissible value:
8460/6 - New permissible value:
8520/6 - New permissible value:
9715/3
- New permissible value:
- Changes made to
primary_diagnosis- New permissible value:
Breast implant-associated anaplastic large cell lymphoma - New permissible value:
Indolent T-cell lymphoproliferative disorder of gastrointestinal tract
- New permissible value:
- Changes made to
sites_of_involvement- New permissible value:
Abdomen - New permissible value:
Adrenal gland, NOS - New permissible value:
Adnexa - New permissible value:
Anus, NOS - New permissible value:
Appendix - New permissible value:
Bladder, NOS - New permissible value:
Bone, NOS - New permissible value:
Bone marrow - New permissible value:
Brain, NOS - New permissible value:
Breast, NOS - New permissible value:
Bronchus - New permissible value:
Buccal mucosa - New permissible value:
Central nervous system - New permissible value:
Cerebrospinal fluid - New permissible value:
Chest wall - New permissible value:
Colon, NOS - New permissible value:
Diaphragm - New permissible value:
Ear - New permissible value:
Epididymis - New permissible value:
Esophagus - New permissible value:
Eye - New permissible value:
Gallbladder - New permissible value:
Heart - New permissible value:
Kidney, NOS - New permissible value:
Larynx, NOS - New permissible value:
Leptomeninges - New permissible value:
Liver - New permissible value:
Lower lobe, lung - New permissible value:
Lung, NOS - New permissible value:
Lymph node, NOS - New permissible value:
Mandible - New permissible value:
Maxilla - New permissible value:
Mediastinal soft tissue - New permissible value:
Mesentery - New permissible value:
Middle lobe, lung - New permissible value:
Mouth - New permissible value:
Nasopharynx - New permissible value:
Nasal soft tissue - New permissible value:
Neck - New permissible value:
Ocular orbits - New permissible value:
Oropharynx - New permissible value:
Pancreas - New permissible value:
Parotid gland - New permissible value:
Pelvis - New permissible value:
Pericardium - New permissible value:
Perineum - New permissible value:
Peri-orbital soft tissue - New permissible value:
Peripheral blood - New permissible value:
Peripheral nervous system - New permissible value:
Peritoneum, NOS - New permissible value:
Pleura - New permissible value:
Prostate - New permissible value:
Rectum - New permissible value:
Retroperitoneum - New permissible value:
Salivary gland - New permissible value:
Sigmoid colon - New permissible value:
Sinus - New permissible value:
Skin - New permissible value:
Small intestine - New permissible value:
Soft tissue - New permissible value:
Spleen - New permissible value:
Stomach - New permissible value:
Testes - New permissible value:
Thyroid - New permissible value:
Tongue - New permissible value:
Tonsil - New permissible value:
Trachea - New permissible value:
Transplanted kidney - New permissible value:
Transverse colon - New permissible value:
Upper lobe, lung - New permissible value:
Vagina - New permissible value:
Vertebrae
- New permissible value:
- Changes made to
tumor_depth- New property:
minimum
- New property:
- New property:
- Altered
submitted_unaligned_readsEntity- Changes made to
experimental_strategy- New permissible value:
m6A MeRIP-Seq - Removed permissible value:
m6A RNA Methylation
- New permissible value:
- Changes made to
- Altered
pathology_detailEntity- New property:
tumor_level_prostate - New property:
zone_of_origin_prostate - Changes made to
additional_pathology_findings- New permissible value:
Percent follicular component <= 10% - New permissible value:
Percent follicular component > 10%
- New permissible value:
- New property:
- Altered
exposureEntity- New property:
asbestos_exposure_type - New property:
age_at_last_exposure - New property:
exposure_source - New property:
use_per_day - Removed property:
marijuana_use_per_week - Removed property:
smokeless_tobacco_quit_age - Removed property:
tobacco_use_per_day - Changes made to
alcohol_intensity- New permissible value:
Social Drinker
- New permissible value:
- Added maximum to
exposure_duration_years - Changes made to
exposure_type- New permissible value:
Asbestos - New permissible value:
Chemical - New permissible value:
Radon - New permissible value:
Respirable Crystalline Silica - New permissible value:
Smokeless Tobacco
- New permissible value:
- New property:
- Altered
caseEntity- Added min/max to
days_to_consent
- Added min/max to
- Altered
analyteEntity- Changes made to
analyte_type- New permissible value:
m6A Enriched RNA
- New permissible value:
- Changes made to
- Altered
read_groupEntity- Changes made to
library_strategy- New permissible value:
m6A MeRIP-Seq - Removed permissible value:
m6A RNA Methylation
- New permissible value:
- Changes made to
target_capture_kit- New permissible value:
Custom SeqCap EZ BeatAML Panel - 12.5 Mb - New permissible value:
Custom Twist MP2PRT-WT Panel - 52 Kb
- New permissible value:
- Changes made to
- Altered
aligned_readsEntity- Changes made to
experimental_strategy- New permissible value:
m6A MeRIP-Seq
- New permissible value:
- Changes made to
- Altered
follow_upEntity- Changes made to
comorbidity- New permissible value:
CNS Infection - New permissible value:
EBV Lymphoproliferation - New permissible value:
Hodgkin Lymphoma - New permissible value:
Lymphamatoid Papulosis - New permissible value:
Methicillin-Resistant Staphylococcus aureus (MRSA) - New permissible value:
Staph Osteomyelitis - New permissible value:
Thyroid Disease, Non-Cancer - New permissible value:
Urinary Tract Infection
- New permissible value:
- Changes made to
diabetes_treatment_type- New permissible value:
Linagliptin
- New permissible value:
- Changes made to
risk_factor- New permissible value:
Adenomyosis - New permissible value:
Human Herpesvirus-6 (HHV-6) - New permissible value:
Human Herpesvirus-8 (HHV-8)
- New permissible value:
- Changes made to
undescended_testis_corrected_age- New property:
maximum
- New property:
- Changes made to
- Altered
molecular_testEntity- New property:
hpv_strain - Changes made to
antigen- New permissible value:
TAG-72
- New permissible value:
- Changes made to
gene_symbol- New permissible value:
TLR2
- New permissible value:
- Changes made to
laboratory_test- New permissible value:
Erythrocyte Sedimentation Rate - New permissible value:
Prothrombin Time
- New permissible value:
- Changes made to
second_gene_symbol- New permissible value:
TLR2
- New permissible value:
- Changes made to
test_result- New permissible value:
Stable
- New permissible value:
- Changes made to
test_units- New permissible value:
cells/mL - New permissible value:
mcg/L - New permissible value:
mg/24 hr
- New permissible value:
- New property:
- Altered
somatic_annotation_workflowEntity- Changes made to
workflow_type- New permissible value:
GATK4 MuTect2 Tumor-Only Annotation
- New permissible value:
- Changes made to
- Altered
treatmentEntity- New property:
clinical_trial_indicator - New property:
course_number - New property:
drug_category - New property:
embolic_agent - New property:
lesions_treated_number - New property:
number_of_fractions - New property:
prescribed_dose - New property:
protocol_identifier - New property:
treatment_dose_max route_of_administrationchanged to array type.- Changes made to
treatment_dose_units- New permissible value:
AUC - New permissible value:
g/day - New permissible value:
g/m2 - New permissible value:
IU/kg - New permissible value:
IU/mg - New permissible value:
mCi - New permissible value:
mEq - New permissible value:
mg/day - New permissible value:
mg/dL - New permissible value:
mg/kg - New permissible value:
mg/kg/day - New permissible value:
mg/m2 - New permissible value:
mg/m2/day - New permissible value:
mg/m2/wk - New permissible value:
mg/mL - New permissible value:
mg/wk - New permissible value:
mIU - New permissible value:
mL - New permissible value:
ug - New permissible value:
ug/m2 - New permissible value:
Wafer
- New permissible value:
- Changes made to
treatment_type- New permissible value:
Peptide Receptor Radionuclide Therapy (PRRT)
- New permissible value:
- Changes made to
therapeutic_agents- New permissible value:
Canakinumab - New permissible value:
Rivaroxaban
- New permissible value:
- New property:
- Altered
somatic_mutation_calling_workflowEntity- Changes made to
workflow_type- New permissible value:
GATK4 MuTect2 Tumor-Only
- New permissible value:
- Changes made to
- Altered
submitted_aligned_readsEntity- Changes made to
experimental_strategy- New permissible value:
m6A MeRIP-Seq - Removed permissible value:
m6A RNA Methylation
- New permissible value:
- Changes made to
Known Issues and Workarounds
- The
mitotic_countfield indiagnosisis erroneously set as "deprecated" and does not appear in the dictionary viewer. This field can be uploaded successfully without issue and will appear in the dictionary viewer at a later release.
v2.4.1
- GDC Product: GDC Data Dictionary
- Release Date: August 23, 2021
New Features and Changes
- Altered
pathology_detailEntity- Changes made to
additional_pathology_findings- New permissible value:
Adenomyosis - New permissible value:
Atrophic endometrium - New permissible value:
Atypical hyperplasia/Endometrial intraepithelial neoplasia (EIN) - New permissible value:
Autoimmune atrophic chronic gastritis - New permissible value:
Asbestos bodies - New permissible value:
Benign endocervical polyp - New permissible value:
Bilateral ovaries with endometriotic cyst and surface adhesions - New permissible value:
Carcinoma in situ - New permissible value:
Cirrhosis - New permissible value:
Clostridioides difficile (c. diff) - New permissible value:
Colonization; bacterial - New permissible value:
Colonization; fungal - New permissible value:
Cyst(s) - New permissible value:
Diffuse and early nodular diabetic glomerulosclerosis - New permissible value:
Dysplasia; high grade - New permissible value:
Dysplasia; low grade - New permissible value:
Endometrial polyp - New permissible value:
Endometriosis - New permissible value:
Endometroid carcinoma with local mucinous differentiation - New permissible value:
Endosalpingiosis - New permissible value:
Epithelial dysplasia - New permissible value:
Epithelial hyperplasia - New permissible value:
Gallbladder adenomyomatosis - New permissible value:
Glomerular disease - New permissible value:
Hyperkeratosis - New permissible value:
Inflammation - New permissible value:
Intestinal metaplasia - New permissible value:
Keratinizing dysplasia; mild - New permissible value:
Keratinizing dysplasia; moderate - New permissible value:
Keratinizing dysplasia; severe (carcinoma in situ) - New permissible value:
Leiomyoma - New permissible value:
Leiomyomata w/ degenerative changes - New permissible value:
Nonkeratinizing dysplasia; mild - New permissible value:
Nonkeratinizing dysplasia; moderate - New permissible value:
Nonkeratinizing dysplasia; severe (carcinoma in situ) - New permissible value:
Other - New permissible value:
PD-L1 CPS (223C LDT) - 20% - New permissible value:
Platinum-resistant - New permissible value:
Pleural plaque - New permissible value:
Pulmonary interstitial fibrosis - New permissible value:
Sialadenitis - New permissible value:
Sinonasal papilloma - New permissible value:
Squamous metaplasia - New permissible value:
Squamous papilloma; solitary - New permissible value:
Squamous papillomatosis - New permissible value:
Tubular (papillary) adenoma(s) - New permissible value:
Tumor-associated lymphoid proliferation - New permissible value:
Tumor has rough spikey edges - Removed permissible value:
Pleurodesis, Talc - Removed permissible value:
Pleurodesis, NOS
- New permissible value:
- Changes made to
- Altered
diagnosisEntityprimary_diseasefield changed todiagnosis_is_primary_diseasefor clarity.
- Altered
treatmentEntity- Changes made to
treatment_type- New permissible value:
Pleurodesis, Talc - New permissible value:
Pleurodesis, NOS
- New permissible value:
- Changes made to
- Altered
molecular_testEntity- Changes made to
test_units- New permissible value:
mm^2 - New permissible value:
ng/mL - New permissible value:
percent - New permissible value:
count x10^9/L
- New permissible value:
- Changes made to
Known Issues and Workarounds
- The
mitotic_countfield indiagnosisis erroneously set as "deprecated" and does not appear in the dictionary viewer. This field can be uploaded successfully without issue and will appear in the dictionary viewer at a later release.
v2.4.0
- GDC Product: GDC Data Dictionary
- Release Date: June 21, 2021
New Features and Changes
- Added min-max limitations on property values in
demographic,portion,aliquot,family_history,slide,follow_up,read_group,sample,analyte,exposure,diagnosis,treatment,molecular_test - Altered
submitted_unaligned_reads,submitted_aligned_reads,annotated_somatic_mutation,simple_somatic_mutation,masked_somatic_mutation,submitted_genomic_profile,aligned_reads,aggregated_somatic_mutation,simple_germline_variationEntities- Changes made to
experimental_strategy- Removed permissible value:
Low Pass WGS
- Removed permissible value:
- Changes made to
- Altered
follow_upEntity- New property:
eye_color - New property:
history_of_tumor - New property:
history_of_tumor_type - New property:
undescended_testis_corrected - New property:
undescended_testis_corrected_age - New property:
undescended_testis_corrected_laterality - New property:
undescended_testis_corrected_method - New property:
undescended_testis_history - New property:
undescended_testis_history_laterality - Changes made to
comorbidity- New permissible value:
Dermatomyosis - New permissible value:
Herpes Zoster - New permissible value:
Varicella Zoster Virus
- New permissible value:
- Changes made to
risk_factor- New permissible value:
Dermatomyosis - New permissible value:
Herpes Zoster - New permissible value:
Varicella Zoster Virus
- New permissible value:
- New property:
- Altered
read_groupEntity- Changes made to
instrument_model- New permissible value:
Illumina NovaSeq 6000
- New permissible value:
- Changes made to
single_cell_library- New permissible value:
Chromium scATAC v1 Library
- New permissible value:
- Changes made to
target_capture_kit- New permissible value:
Twist Human Comprehensive Exome
- New permissible value:
- Changes made to
- Altered
somatic_aggregation_workflowEntity- Added link:
simple_somatic_mutations - Changes made to
workflow_type- New permissible value:
CaVEMan Variant Aggregation and Masking
- New permissible value:
- Added link:
- Altered
sampleEntity- Changes made to
sample_type- New permissible value:
Next Generation Cancer Model Expanded Under Non-conforming Conditions
- New permissible value:
- Changes made to
sample_type_id- New permissible value:
87
- New permissible value:
- Changes made to
- Altered
germline_mutation_calling_workflowEntity- New link:
submitted_genotyping_arrays - Changes made to
workflow_type- New permissible value:
Birdseed
- New permissible value:
- New link:
- Altered
slide_imageEntity- Changes made to
data_format- New permissible value:
JPEG 2000
- New permissible value:
- Changes made to
- Altered
exposureEntity- New property:
exposure_duration_years - New property:
parent_with_radiation_exposure - Changes made to
exposure_type- New permissible value:
Radiation
- New permissible value:
- New property:
- Altered
simple_germline_variationEntity- New property:
platform - Changes made to
data_format- New permissible value:
TSV
- New permissible value:
- New property:
- Altered
pathology_detailEntity- New property:
consistent_pathology_review - New property:
residual_tumor - New property:
size_extraocular_nodule - New property:
tumor_thickness
- New property:
- Altered
diagnosisEntity- New property:
adrenal_hormone - New property:
primary_disease - Changes made to
ajcc_pathologic_stage- New permissible value:
Stage IIIA1 - New permissible value:
Stage IIIA2
- New permissible value:
- Changes made to
metastasis_at_diagnosis_site- New permissible value:
Bladder - New permissible value:
Bronchus - New permissible value:
Head, Face or Neck, NOS - New permissible value:
Lymph Node, Regional - New permissible value:
Lymph Node, Subcarinal
- New permissible value:
- Changes made to
method_of_diagnosis- New permissible value:
Exoresection
- New permissible value:
- Changes made to
morphology- New permissible value:
8246/6 - New permissible value:
8380/6 - New permissible value:
8461/6 - New permissible value:
8522/6
- New permissible value:
- Changes made to
sites_of_involvement- New permissible value:
Mesothelium
- New permissible value:
- New property:
- Altered
treatmentEntity- New property:
route_of_administration - Changes made to
treatment_arm- New permissible value:
A081801
- New permissible value:
- Changes made to
therapeutic_agents- New permissible value:
Interferon Alfa-2B - New permissible value:
Levoleucovorin Calcium - New permissible value:
Mistletoe Extract
- New permissible value:
- New property:
- Altered
somatic_mutation_calling_workflowEntity- Changes made to
workflow_type- New permissible value:
Strelka2 RNA
- New permissible value:
- Changes made to
- Altered
molecular_testEntity- New property:
days_to_test - New link:
diagnoses - Changes made to
antigen- New permissible value:
FMC-7 - New permissible value:
Kappa, Surface - New permissible value:
Lambda, Surface
- New permissible value:
- Changes made to
gene_symbol- New permissible value:
AQP1 - New permissible value:
CALB2 - New permissible value:
DNTT - New permissible value:
EPCAM - New permissible value:
GCET1 - New permissible value:
PDPN - New permissible value:
PTGS2
- New permissible value:
- Changes made to
laboratory_test- New permissible value:
BG8 - New permissible value:
Circulating Endothelial Cells - New permissible value:
Cytokeratin 5 - New permissible value:
Cytokeratin 6 - New permissible value:
Dopamine-Secreting - New permissible value:
Epinephrine-Secreting - New permissible value:
Metanephrine-Secreting - New permissible value:
Methoxytyramine-Secreting - New permissible value:
Microsatellite Instability - New permissible value:
Norepinephrine-Secreting - New permissible value:
Normetanephrine-Secreting - New permissible value:
Serum Mesothelin - New permissible value:
TAG-72
- New permissible value:
- New property:
Known Issues and Workarounds
- The
mitotic_countfield indiagnosisis erroneously set as "deprecated" and does not appear in the dictionary viewer. This field can be uploaded successfully without issue and will appear in the dictionary viewer at a later release.
v2.3.0
- GDC Product: GDC Data Dictionary
- Release Date: January 5, 2021
New Features and Changes
- Altered
submitted_unaligned_readsEntity- Changes made to
experimental_strategy- New permissible value:
HiChIP - New permissible value:
m6A RNA Methylation - New permissible value:
scATAC-Seq
- New permissible value:
- Changes made to
read_pair_number- New permissible value:
R3
- New permissible value:
- Changes made to
- Altered
submitted_aligned_readsEntity- Changes made to
experimental_strategy- New permissible value:
HiChIP - New permissible value:
m6A RNA Methylation - New permissible value:
scATAC-Seq
- New permissible value:
- Changes made to
- Altered
follow_upEntity- Changes made to
comorbidity- New permissible value:
Abnormal Glucose Level - New permissible value:
Chronic Fatigue Syndrome - New permissible value:
Clonal Hematopoiesis - New permissible value:
Fibromyalgia - New permissible value:
Gastritis
- New permissible value:
- Changes made to
risk_factor- New permissible value:
Abnormal Glucose Level - New permissible value:
Chronic Kidney Disease - New permissible value:
Escherichia coli - New permissible value:
Gastritis - New permissible value:
Skin Rash
- New permissible value:
- Changes made to
- New Entity:
masked_methylation_array - Altered
read_groupEntity- New property:
chipseq_antibody - New property:
fragmentation_enzyme - Removed property:
RIN - Changes made to
library_strategy- New permissible value:
HiChIP - New permissible value:
m6A RNA Methylation - New permissible value:
scATAC-Seq
- New permissible value:
- New property:
- Altered
sampleEntity- New property:
sample_ordinal - Changes made to
composition- New permissible value:
Mixed Adherent Suspension
- New permissible value:
- New property:
- Altered
analyteEntity- New property:
experimental_protocol_type - New property:
rna_integrity_number
- New property:
- Altered
pathology_detailEntity- New property:
additional_pathology_findings - New property:
necrosis_percent - New property:
necrosis_present - New property:
rhabdoid_percent - New property:
rhabdoid_present - New property:
sarcomatoid_percent - New property:
sarcomatoid_present - Changes made to
dysplasia_degree- New permissible value:
Mild - New permissible value:
Moderate - New permissible value:
Severe
- New permissible value:
- Changes made to
dysplasia_type- New permissible value:
Epithelial - New permissible value:
Keratinizing - New permissible value:
Nonkeratinizing
- New permissible value:
- Changes made to
lymph_node_involvement
- New property:
- Altered
diagnosisEntity- New property:
ann_arbor_b_symptoms_described - Changes made to
ajcc_clinical_stage- New permissible value:
Stage IA3
- New permissible value:
- Changes made to
ajcc_pathologic_m- New permissible value:
M1d
- New permissible value:
- Changes made to
metastasis_at_diagnosis_site- New permissible value:
Gastrointestinal Tract - New permissible value:
Heart - New permissible value:
Neck - New permissible value:
Retroperitoneum - New permissible value:
Urethra - New permissible value:
Uterine Adnexa - New permissible value:
Vertebral Canal - New permissible value:
Vulva, NOS
- New permissible value:
- Changes made to
morphology- New permissible value:
8249/6 - New permissible value:
8800/6
- New permissible value:
- Changes made to
supratentorial_localization- New permissible value:
Frontal lobe - New permissible value:
Occipital lobe - New permissible value:
Parietal lobe - New permissible value:
Temporal lobe
- New permissible value:
- New property:
- Altered
treatmentEntity- Changes made to
treatment_dose_units- New permissible value:
mg
- New permissible value:
- Changes made to
treatment_type- New permissible value:
Radiation, Hypofractionated - New permissible value:
Radiation, Mixed Photon Beam - New permissible value:
Radiation, Photon Beam
- New permissible value:
- Changes made to
therapeutic_agents- Updated enum list.
- Changes made to
- Altered
caseEntity- Updated
disease_typeandprimary_siteenum values.
- Updated
- Altered
rna_expression_workflowEntity- Changes made to
workflow_type- New permissible value:
STAR - Smart-Seq2 Raw Counts - New permissible value:
STAR - Smart-Seq2 Filtered Counts
- New permissible value:
- Changes made to
- Altered
molecular_testEntity- New link:
slides - Changes made to
antigen- New permissible value:
Ki67
- New permissible value:
- Changes made to
gene_symbol- New permissible value:
CHGA - New permissible value:
SYP
- New permissible value:
- Changes made to
molecular_consequence- New permissible value:
Exon Variant
- New permissible value:
- Changes made to
second_gene_symbol- New permissible value:
CHGA - New permissible value:
SYP
- New permissible value:
- New link:
- Altered
aligned_readsEntity- Changes made to
experimental_strategy- New permissible value:
HiChIP - New permissible value:
scATAC-Seq
- New permissible value:
- Changes made to
Bugs Fixed Since Last Release
- None
v2.2.0
- GDC Product: GDC Data Dictionary
- Release Date: July 2, 2020
New Features and Changes
- Added NCIt codes associated with enumeration values in
diagnosisentity type - Added
pathology_detailentity - Modified
treatmententity- Added new enumerations for
therapeutic_agentspropertyItraconazoleTipiracilTipiracil HydrochlorideZirconium Zr 89 PanitumumabEstradiol mustardProgestational IUDPD-1 InhibitorIGF-1R InhibitorCDK4/6 InhibitorALK Inhibitor
- Added new enumerations for
- Modified
annotationentity- Added
many_to_manylink tocopy_number_estimateentity
- Added
- Modified
diagnosisentity- Added new properties:
eln_risk_classificationsatellite_nodule_presentwho_cns_gradewho_nte_gradesites_of_involvement
- Added new permissible values to
ajcc_pathologic_stagepropertyStage IA3
- Added new permissible values to
classification_of_tumorpropertyProgression
- Added new permissible values to
metastasis_at_diagnosis_sitepropertyEsophagus
- Added new permissible values to
morphologyproperty - Removed properties as
requireddays_to_last_follow_uptumor_gradeprogression_or_recurrencedays_to_recurrencedays_to_last_known_disease_statuslast_known_disease_status
- Deprecated properties
mitotic_countpapillary_renal_cell_typemicropapillary_featuresnon_nodal_regional_diseasenon_nodal_tumor_deposits
- Added new properties:
- Modified
sampleentity- Changed description of properties
days_to_collectiondays_to_sample_procurement
- Deprecated properties
is_ffpeoct_embedded
- Added new permissible values to
sample_typepropertyMixed Adherent Suspension Saliva
- Changed description of properties
- Modified
follow_upentity- Added new properties
procedures_performedhormonal_contraceptive_typehormone_replacement_therapy_type
- Added new permissible values to
comorbidityproperty - Added new permissible values to
risk_factorproperty - Added new permissible values to
evidence_of_recurrence_typeproperty - Added new permissible values to
aids_risk_factorsproperty
- Added new properties
- Modified
exposureentity- Added new properties
smokeless_tobacco_quit_agealcohol_type
- Added new permissible values to
exposure_typepropertyWood DustSmoke
- Added new permissible value to
type_of_smoke_exposurepropertyTobacco smoke, NOS
- Added new properties
- Modified
submitted_unaligned_readsproperty- Removed permissible value from
read_pair_numberpropertyI1
- Removed permissible value from
- Modified
aliquotentity- Added new permissible value to
analyte_typepropertyNuclei RNA
- Added new permissible value to
- Modified
rna_expression_workflowentity- Removed permissible value from
workflow_typepropertySTAR - Smart-Seq2 Counts
- Added new permissible values to
workflow_typepropertySTAR - Smart-Seq2 Gene CountsSTAR - Smart-Seq2 GeneFull Counts
- Removed permissible value from
- Modified
molecular_testentity- Added new properties
mitotic_countmitotic_total_areabiospecimen_volume
- Added new permissible values to
gene_symbolproperty - Added new permissible values to
second_gene_symbolproperty - Added new permissible values to
antigenproperty - Added new permissible values to
laboratory_testproperty
- Added new properties
Bugs Fixed Since Last Release
- None
v2.1.0
- GDC Product: GDC Data Dictionary
- Release Date: March 10, 2020
New Features and Changes
- Added NCIt codes associated with enumeration values in
exposure,family_history, anddemographicentity types - Restructured dictionary for consistency across types
- read_group entity
- Added 5 new target capture kits
Custom Twist Broad PanCancer Panel - 396 GenesNextera DNA ExomeCustom Twist Broad Exome v1.0 - 35.0 MbCustom SureSelect CGCI-HTMCP-CC KMT2D And Hotspot Panel - 37.0 KbTruSeq RNA Exome
- Add one new enum to
library_strategyscRNA-Seq
- structural_variation entity
- Added
VCFtodata_formatproperty - Added links to
structural_variationfromsomatic_mutation_index - Added links to
aligned_readsfromsomatic_copy_numberworkflow - copy_number_segment entity
- Added new permissible values to
experimental_strategypropertyWGSWXS
- Added new enum to
experimental_strategyWGS
- aligned_reads entity
- Added 2 new properties
tumor_ploidytumor_purity
- treatment entity
- Added enumeration to
therapeutic_agentproperty - copy_number_estimate entity
- Added new enum to
data_formatTSV
- demographic entity
- Added new property
country_of_residence_at_enrollment - family_history entity
- Added new permissible values to
relationship_primary_diagnosisproperty - follow_up entity
- Added new properties
body_surface_arearecist_targeted_regions_numberrecist_targeted_regions_sumadverse_event_gradecd4_countimaging_typescan_tracer_usednadir_cd4_counthiv_viral_loadaids_risk_factorshaart_treatment_indicatorimmunosuppressive_treatment_typeevidence_of_recurrence_typeimaging_resulthormonal_contraceptive_usepregnancy_outcomehysterectomy_typehysterectomy_margins_involveddays_to_imagingcdc_hiv_risk_factorsrisk_factor
- Added new enum to
days_to_follow_upnull
- molecular_test entity
- Added new permissible values to various properties
laboratory_testsecond_gene_symbolmolecular_consequencebiospecimen_typemolecular_analysis_methodgene_symbolclonality
- sample entity
- Added new permissible values to various properties
method_of_sample_procurementbiospecimen_anatomic_sitetumor_descriptor
- Added new property
tissue_collection_type
- treatment entity
- Added new properties
treatment_armreason_treatment_endednumber_of_cyclestreatment_effect_indicatortreatment_dosetreatment_dose_unitstreatment_frequencychemo_concurent_to_radiation
- Added new permissible values to various properties
therapeutic_agenttreatment_effecttreatment_intent_type
- slide entity
- Added new properties
percent_sarcomatoid_featurespercent_rhabdoid_featuresprostatic_chips_total_countprostatic_chips_positive_countprostatic_involvement_percentbone_marrow_malignant_cellspercent_follicular_componenttissue_microarray_coordinates
- diagnosis entity
- Added new properties
tumor_depthmargin_distancetransglottic_extensionmargins_involved_sitegleason_grade_tertiarypapillary_renal_cell_typegleason_patterns_percentgreatest_tumor_dimensionlymph_node_involved_sitepregnant_at_diagnosisfigo_staging_edition_year
- Added new permissible values to various properties
classification_of_tumorfigo_stagetumor_grademetastasis_at_diagnosis_sitegleason_grade_grouptissue_or_organ_of_originmorphology
- exposure entity
- Added new properties
secondhand_smoke_as_childexposure_typetype_of_tobacco_usedexposure_durationtobacco_use_per_dayage_at_onsetmarijuana_use_per_weektobacco_smoking_status
- case entity
- Added new properties
consent_typedays_to_consent
- Added new permissible values to
index_date - Added
scRNA-Seqas new enum toexperimental_strategyin 4 entitiessubmitted_unaligned_readssubmitted_aligned_readsaligned_readsgene_expression
- Added 3 new permissible values to
workflow_typein alignment_workflowCellRanger - 10x ChromiumSTAR - Smart-Seq2zUMIs - Smart-Seq2
- Added 4 new permissible values to
workflow_typein rna_expression_workflowCellRanger - 10x Raw CountsCellRanger - 10x Filtered CountsSTAR - Smart-Seq2 CountszUMIs - Smart-Seq2 Counts
- Add one new integer property to
read_groupnumber_expect_cells
- Add one new enum to
read_pair_numberinsubmitted_unaligned_readsI1
- Add one new enum property in
read_groupnodeChromium 3' Gene Expression v2 LibraryChromium 3' Gene Expression v3 LibrarySmart-Seq2
- Created new node
expression_analysis_workflow - Created new node
secondary_expression_analysis - Add one new enum to
data_formatingene_expressionMEX
Bugs Fixed Since Last Release
- None
v2.0.0
- GDC Product: GDC Data Dictionary
- Release Date: January 30, 2020
New Features and Changes
- The API that includes the GDC data dictionary now uses Python 3.
Bugs Fixed Since Last Release
- None
v.1.18.1
- GDC Product: GDC Data Dictionary
- Release Date: November 6, 2019
New Features and Changes
- Added new permissible value
deletedto propertyfile_state
Bugs Fixed Since Last Release
- None
v.1.18
- GDC Product: GDC Data Dictionary
- Release Date: July 31, 2019
New Features and Changes
- Added new entities
protein_expression_quantificationsubmitted_genotyping_arraysomatic_copy_number_workflow
- Add links in data model to
somatic_copy_number_workflowfromcopy_number_segment - Add links in data model to
somatic_copy_number_workflowfromcopy_number_estimate - Add links in data model from
annotated_somatic_mutationtogenomic_profile_harmonization_workflow - Modified
copy_number_segmententity- Add new data type
Allele-specific Copy Number Segment
- Add new data type
- Update data dictionary to support new annotation classifications
- Fixed typo in
sampleentity schema - Unrequired project link for aliquot level MAFs
- Added NCIt codes for gender values
- Changed description of
masked_somatic_mutationandaggregated_somatic_mutationnodes to be the same - Modified
archiveentity- Set
downloadableproperty totrue
- Set
- Modified
publicationentity- Set
downloadableproperty totrue
- Set
- Modified
filtered_copy_number_segmententity- Set
downloadableproperty totrue
- Set
- Modified
aligned_readsentity- Added
MSI propertiesas new property
- Added
- Modified
read_groupentity- Added
Custom SureSelect Human All Exon v1.1 Plus 3 Boostersas new permissible value fortarget_capture_kitfield - Added
SeqCap EZ Human Exome v3.0as new permissible value fortarget_capture_kitfield - Added new permissible values for
instrument_modelUnknownNot ReportedIon Torrent S5
- Added
- Modified
biospecimen_supplemententity- Added
CDC JSONas new permissible data format
- Added
- Modified
demographicentity- Added new property
age_is_obfuscated
- Added new property
- Modified
demographicentity- Added new properties
cause_of_death_sourceoccupation_duration_years
- Added new properties
- Modified
diagnosisentity- Added new properties
non_nodal_regional_diseasenon_nodal_tumor_depositsovarian_specimen_statusovarian_surface_involvementpercent_tumor_invasionperitoneal_fluid_cytological_statusbreslow_thicknessinternational_prognostic_indexlargest_extrapelvic_peritoneal_focusmitotic_count
- Removed permissible values from
primary_diagnosis - Removed permissible values from
site_of_resection_or_biopsy - Removed
tumor_stageas required property - Added new permissible values for
ajcc_pathologic_stagemetastasis_at_diagnosis_site
- Migrated values not part of permissible values to
Not Reportedfor following propertiesprimary_diagnosissite_of_resection_or_biopsytumor_gradetissue_or_organ_of_origin
- Removed permissible values from
tissue_or_organ_of_originmorphology
- Added new properties
- Modified
structural_variant_calling_workflowentity- Added new
workflow_type
- Added new
- Modified
structural_variantentity- Added
BEDPEtodata_formatas permissible value
- Added
- Modified
molecular_testentity- Added new permissible values for
gene_symbol - Added new permissible values for
test_result - Added new permissible values for
antigen - Added new property
pathogenicity
- Added new permissible values for
- Modified
follow_upentity- Added new permissible value for
risk_factor
- Added new permissible value for
- Modified
sampleentity- Added new permissible values for
method_of_sample_procurement
- Added new permissible values for
- Modified
genomic_profile_harmonization_workflowentity- Added new
workflow_typepermissible values
- Added new
- Modified
somatic_mutation_calling_workflowentity- Added new
workflow_typepermissible values - Modified
somatic_annotation_workflowentity - Added new
workflow_typepermissible values
- Added new
- Modified
caseentity- Added new permissible value to
disease_typeNot Applicable
- Added new permissible value to
- Modified
copy_number_estimateentity- Added new permissible value to
experimental_strategyWXS
- Added new permissible value to
- Modified
family_historyentity- Added new property
relatives_with_cancer_history_count
- Added new property
- Modified
sampleentity- Added new permissible values
sample_typesample_type_id
- Added new permissible values
Bugs Fixed Since Last Release
- None
v.1.17
- GDC Product: GDC Data Dictionary
- Release Date: June 5, 2019
New Features and Changes
- Deleted vital status, days_to_birth, and days_to_death from Diagnosis node. Data submission and data requests should all be directed to the corresponding properties on the Demographic Node.
Bugs Fixed Since Last Release
- None
v.1.16
- GDC Product: GDC Data Dictionary
- Release Date: April 17, 2019
New Features and Changes
- Updates to the Data Dictionary Search Tool
- Added new bioinformatics workflow for methylation arrays (Sesame)
- Changed
somatic_mutation_calling_workflowlink fromone_to_manytomany_to_many - Modified
read_groupentity- Added
SeqCap EZ Human Exome v2.0as new permissible value fortarget_capture_kitfield - Added
Custom SureSelect Human All Exon v1.1 Plus 3 Boostersas new permissible valuetarget_capture_kitfield - Added
Custom SureSelect CGCI-HTMCP-CC Panel - 19.7 Mbas new permissible valuetarget_capture_kitfield
- Added
- Modified
caseentity- Updated the description for the
primary_sitefield - Added new permissible value to
lost_to_followupfield
- Updated the description for the
- Modified
molecular_testentity- Removed properties with genomic coordinates
- Add new permissible values to
test_result - Added
second_exonas new property
- Modified
aligned_reads_indexentity- Made these files not submittable
- Modified
somatic_mutation_indexentity- Made these files not submittable
- Modified
sampleentity- Added new permissible values for
sample_typeBlood Derived Cancer - Bone MarrowBlood Derived Cancer - Peripheral Blood
- Added new permissible values to
sample_type_id
- Added new permissible values for
- Modified
diagnosisentity- Added 6 new staging and grading properties for TCGA
igcccg_stagemasaoka_stagegleason_grade_groupprimary_gleason_gradesecondary_gleason_gradeweiss_assessment_score
- Made
vital_statusan optional field - Removed deprecated properties
days_to_deathdays_to_birthcause_of_deathhiv_positivedays_to_hiv_diagnosisldh_normal_range_uppernew_event_typehpv_statushpv_positive_typecolon_polyps_historyprogression_free_survivalprogression_free_survival_eventoverall_survivaldays_to_treatmentldh_level_at_diagnosis
- Added
vital_statusproperty to deprecated list
- Added 6 new staging and grading properties for TCGA
- Modified
somatic_aggregation_workflowentity- Added
Aliquot Ensemble Somatic Variant Merging and Maskingas new permissible value toworkflow_type
- Added
- Modified
slideentity- Updated the description for the
magnificationfield
- Updated the description for the
- Modified
aliquotentity- Updated the the description for several fields
selected_normal_low_pass_wgsselected_normal_targeted_sequencingselected_normal_wgsselected_normal_wxs
- Updated the the description for several fields
- Modified
follow-upentity- Added new field
days_to_progression_free
- Added new field
- Modified
demographicentity- Made
vital_statusa required field
- Made
- Modified
exposureentity- Added new properties
environmental_tobacco_smoke_exposurerespirable_crystalline_silica_exposurecoal_dust_exposuretype_of_smoke_exposuretype_of_tobacco_usedsmoking_frequencytime_between_waking_and_first_smoke
- Removed
cigarettes_per_dayproperty from deprecated list
- Added new properties
- Modified
annotationentity- Modified permissible values to
status- Approved
- Rescinded
- Modified permissible values to
Bugs Fixed Since Last Release
- None
v.1.15
- GDC Product: GDC Data Dictionary
- Release Date: December 18, 2018
New Features and Changes
- Removed
Raw Sequencing DataandSequencing Dataas permissible values fromsubmitted_aligned_reads,submitted_unaligned_reads, andaligned_reads - Deleted
aligned_reads_metricsentity - Created new
raw_methylation_arrayentity - Add regex validation to property
md5sumfor following entities:slide_imageanalysis_metadataclinical_supplementexperiment_metadatapathology_reportrun_metadatabiospecimen_supplementsubmitted_aligned_readssubmitted_genomic_profilesubmitted_methylation_beta_valuesubmitted_tangent_copy_numbersubmitted_unaligned_reads
- Modified
molecular_testentity- Migrated data from
blood_testtolaboratory_testandbiospecimen_typefor all entities - Added new property
intron - Deleted
blood_testentity - Added new permissible values for
gene_symbol - Added new permissible values for
antigen - Added new permissible values for
molecular_analysis_method - Added new permissible values for
variant_type - Added new permissible values for
test_result - Added new permissible values for
molecular_consequence - Added regex validation to property
transcript - Added regex validation to property
locus - Changed data type of
exonproperty to bestringwith regex validation
- Migrated data from
- Modified
diagnosisentity- Added new fields
tumor_focalitytumor_regression_gradelymph_nodes_tested- Added new permissible value for
primary_diagnosisfield - Added min and max values to time-based properties
- Added new permissible value for
morphologyfield
- Modified
follow_upentity- Added new permissible values for
ecog_performance_status - Added new permissible values for
comorbidity - Added new permissible values for
disease_response - Added new permissible values for
risk_factor - Added min and max values to time-based properties
- Added new property:
hepatitis_sustained_virological_response- Updated CDE, CDE version, description and URL for
comorbidity - Added a CDE for
days_to_comorbidity - Removed
reflux_treatmentproperty - Add a new property:
risk_factor_treatment
- Added new permissible values for
- Modified
aligned_readsentity - Added new contamination properties
contaminationcontamination_error
- Modified
read_groupentity - Added new permissible values for
target_capture_kit - Updated description for property
instrument_model - Added new permissible values for
target_capture_kit - Added new permissible values for
library_strategy - Added regex validation to property
adapter_sequence - Added regex validation to property
multiplex_barcode - Allow users to enter null for property
read_length - Allow users to enter null for property
is_paired_end - Modified
family_historyentity - Added new permissible values for
relationship_primary_diagnosis - Added min and max values to properties
- Modified
caseentity - Add min and max values to properties
- Delete permissible value from
primary_siteUnknown Primary Site
- Modified
analyteentity - Corrected the description for fields
analyte_volumeto include microliters as unit - Modified
exposureentity - Added new properties
asbestos_exposureradon_exposure
- Modified
sampleentity - Added new permissible values to
method_of_sample_procurement - Added regex validation to
pathology_report_uuid - Change type from string to number for properties:
intermediate_dimensionlongest_dimensionshortest_dimensiontime_between_clamping_and_freezingtime_between_excision_and_freezing
- Add min and max to properties on the sample node
- Populated sample nodes that have no value for
tissue_typeto "Not Reported" - Modified
treatmententity - Added a new property
prior_treatment_effect
- Add min and max values to properties
- Modified
aliquotentity - Corrected the description for fields
analyte_volumeto include microliters as unit - Modified
demographicentity - Added min and max to properties
Bugs Fixed Since Last Release
- Fixed value of
pathology_report_uuidon sample entity7b29b034-86e4-4266-8657-036e96e04430to satisfy regex requirements - Migrated a few unsupported values for sample.pathology_report_uuid, read_group.adapter_sequence, read_group.multiplex_barcode
v.1.14
- GDC Product: GDC Data Dictionary
- Release Date: September 27, 2018
New Features and Changes
- Added description and type information to generic properties
- Modify the dictionary viewer to be case sensitive for deprecated fields
- Deleted
sample_level_mafentity - Added new field for all nodes:
previous_versions_downloadable
- Modified
molecular_testentity- Migrated data from
blood_testtolaboratory_testandbiospecimen_type - Added new fields:
laboratory_testbiospecimen_type
- Added new permissible values for
gene_symbolfieldsNot Applicable
- Deleted field
blood_test - Added new permissible values for
antigenfield - Added new permissible values to
molecular_analysis_method - Added new permissible values for
variant_typefield - Added new permissible values to
test_result
- Migrated data from
- Modified
caseentity- Modified permissible values on
index_date- Added new value
Initial Genomic Sequencing
- Added new value
- Updated CDE codes for properties
- Add new permissible value to
index_dateSample Procurement
- Modified permissible values on
- Modified
aliquotentity- Changed
exclusivetoTrue
- Changed
- Modified
read_group_qcentity- Made following fields not
requiredand addedUnknown/Not Reportedas permissible values:adapter_contentbasic_statisticsencodingkmer_contentoverrepresented_sequencesper_base_sequence_qualityper_tile_sequence_qualityper_sequence_quality_scoreper_base_sequence_contentper_sequence_gc_contentper_base_n_contentpercent_gc_contentsequence_length_distributionsequence_duplication_levelstotal_sequences
- Made following fields not
- Modified
aligned_readsentity- Added new permissible values to
experimental_strategyfieldTargeted SequencingBisulfite-SeqChIP-SeqATAC-Seq
- Added new permissible values to
- Modified
read_groupentity- Added new field
days_to_sequencing - Add new permissible values to
target_capture_kitCustom Personalis ACEcp VAREPOP-APOLLO Panel v2xGen Exome Research Panel v1.0SureSelect Human All Exon v5 + UTR
- Added new field
- Modified
treatmententity- Updated CDE codes for properties
- Updated description for
treatment_or_therapy - Updated description for
therapeutic_agents - Added new field:
initial_disease_status
- Updated permissible values for
treatment_type - Added new permissible values for
treatment_outcomeNo Measurable DiseasePersistent Disease
- Deleted values from
treatment_intent_type
- Modified
annotated_somatic_mutationentity- Added new permissible values to
experimental_strategyfieldRNA-SeqmiRNA-SeqBisulfite-SeqChIP-SeqATAC-Seq
- Add new permissible value to
data_formatMAF
- Add new permissible value to
data_typeMasked Annotated Somatic Mutation
- Added new permissible values to
- Modified
masked_somatic_mutationentity- Added new permissible values to
experimental_strategyfieldRNA-SeqmiRNA-SeqBisulfite-SeqChIP-SeqATAC-Seq
- Removed
Validationas permissible fromexperimental_strategy
- Added new permissible values to
- Modified
simple_germlne_variationentity- Added new permissible values to
experimental_strategyfieldRNA-SeqmiRNA-SeqBisulfite-SeqChIP-SeqATAC-Seq
- Added new permissible values to
- Modified
simple_somatic_mutationentity- Added new permissible values to
experimental_strategyfieldRNA-SeqmiRNA-SeqBisulfite-SeqChIP-SeqATAC-Seq
- Added new permissible values to
- Modified
submitted_genomic_profileentity- Added new permissible values to
experimental_strategyfieldWXSLow Pass WGSRNA-SeqmiRNA-SeqBisulfite-SeqChIP-SeqATAC-Seq
- Added new permissible values to
- Modified
diagnosisentity- Updated CDE codes for properties
- Corrected the reference to
ubiquitous_properties - Deleted permissible values from
vascular_invasion_presentfieldExtramuralIntramural
- Added permissible value to
ajcc_clinical_stageStage IIIC1
- Added permissible values to
method_of_diagnosisImagingPhysical ExamPathologic Review
- Added permissible value to
vascular_invasion_typeExtramuralIntramural
- Added permissible value to
metastasis_at_diagnosis_site - Updated deprecated values list
- Deleted field
ldh_level
- Modified
follow_upentity- Updated CDE codes for properties
- Added permissible value to
progression_or_recurrence_typeBiochemical
- Added permissible values to
hpv_positive_type6370
- Added permissible value to
disease_responseBED-Biochemical Evidence of DiseasePDM-Persistent Distant MetastasisPLD-Persistent Locoregional DiseaseTF-Tumor FreeWT-With Tumor
- Added permissible value to
comorbidityHepatitis A InfectionHerpes
- Added permissible values to
risk_factorfield
- Modified
demographicentity- Updated CDE codes for properties
- Modified permissible values for
cause_of_deathfieldCardiovascular Disorder, NOSRenal Disorder, NOSSurgical Complications
- Updated
days_todescriptions
- Modified
family_historyentity- Updated CDE codes for properties
- Added new fields:
relationship_primary_diagnosisrelationship_gender
- Updated CDE for field
relative_with_cancer_history
- Modified
submitted_unaligned_readsentity- Make field
read_pair_numberrequired - Added permissible values to
read_pair_numberNot Applicable
- Make field
- Modified
aligned_readsentity- Added new fields:
average_base_qualityaverage_insert_sizeaverage_read_lengthmean_coveragepairs_on_diff_chrproportion_base_mismatchproportion_coverage_10Xproportion_coverage_30Xproportion_reads_duplicatedproportion_reads_mappedproportion_targets_no_coveragetotal_reads
- Changed nodes with
experimental_strategyasValidationtoTargeted Sequencing
- Added new fields:
- Modified
sampleentity- Made
tissue_typea required field - Populated
tissue_typewithNot Reportedfor all nodes with no value
- Made
- Modified
alignment_workflowentity- Added new field to
workflow_typeSTAR 2-Pass Chimeric
- Added new field to
- Modified
rna_expression_workflowentity- Added new field to
workflow_typeSTAR - FPKM
- Added new field to
- Modified
gene_expressionentity- Add new permissible value to
data_typeSplice Junction Quantification
- Add new permissible value to
- Modified
aggregated_somatic_mutationentity- Updated field
experimental_strategy
- Updated field
- Modified
somatic_mutation_calling_workflowentity- Added
workflow_typefield
- Added
- Modified
somatic_annotation_workflowentity- Added
workflow_typefield
- Added
Bugs Fixed Since Last Release
- None
v.1.13
- GDC Product: GDC Data Dictionary
- Release Date: May 21, 2018
New Features and Changes
- Submitted Genomic Profile to Read Group relationship is updated to be many-to-many
- Added requirement for submitter_id on additional nodes
Bugs Fixed Since Last Release
- None
v.1.12.1
- GDC Product: GDC Data Dictionary
- Release Date: April 26, 2018
New Features and Changes
- None
Bugs Fixed Since Last Release
- Moved read_pair_number from Read Group to Submitted Unaligned Reads node
v.1.12
- GDC Product: GDC Data Dictionary
- Release Date: April 23, 2018
New Features and Changes
- Updates to data dictionary viewer:
- Data dictionary viewer displays
true/falseinstead ofboolean - Updated
md5description in data dictionary viewer to be more complete
- Data dictionary viewer displays
- Creation of new entities:
Copy Number Estimateentity for copy number variation dataCopy Number Variation Workflowentity for copy number variation pipeline metadataMolecular Testentity
- Updates to all entities:
- Updated all entities to include
batch_idfield for submission - Updated all entities to include
downloadablefield - Modified all file entities
file_sizefield to be an integer - Added support for creation of annotations on all entities in data model
- Updated all entities to include
- Added new links / updated links between entities:
- Created optional link between
follow_upanddiagnosisentities - Created many-to-many link between
genomic_profile_harmonization_workflowsandmasked_somatic_mutations - Remove the restriction that prevents having alignment workflows to point to both
submitted_aligned_readsandsubmitted_unaligned_reads
- Created optional link between
- Updated the BCR XML endpoint to support submission of new entity relationships
- Fixed description of
prior_malignancyondiagnosisentity - Modified
sampleentity- Added new fields
growth_ratepassage_countcatalog_referencedistributor_referencedistance_normal_to_tumorbiospecimen_laterality
- Added new permissible values to
compositionfieldSorted Cells
- Added new permissible value to
sample_typefieldNext Generation Cancer Model
- Added new permissible values to
method_of_sample_procurementfieldPancreatectomyWhipple ProcedureParacentesis
- Added new permissible values to
biospecimen_anatomic_sitefieldEsophageal; DistalEsophageal; MidEsophageal; ProximalHepatic FlexureRectosigmoid Junction
- Removed permissible values on
sample_type2D Classical Conditionally Reprogrammed Cells2D Modified Conditionally Reprogrammed Cells3D Organoid3D Air-Liquid Interface Organoid3D NeurosphereAdherent Cell LineLiquid Suspension Cell Line
- Added new fields
- Modified
aliquotentity- Added new fields
no_matched_normal_wxsno_matched_normal_wgsno_matched_normal_targeted_sequencingno_matched_normal_low_pass_wgs
- Added new fields
- Modified
read_groupentity- Updated descriptions on
read_groupentity - Added new field
target_capture_kit
- Made
library_selectiona required field - Removed duplicate
validatorsfield - Modified permissible values on
library_selectionfield- Replaced
Affinity_EnrichmentwithAffinity Enrichment - Replaced
Poly-T_EnrichmentwithPoly-T Enrichment - Replaced
Hybrid_SelectionwithHybrid Selection - Replaced
RNA_DepletionwithrRNA Depletion - Replaced
Targeted SequencingwithHybrid Selectionfor FM-AD
- Replaced
- Added new permissible value on
library_strandfieldNot Applicable
- Removed permissible values in
library_strategyfieldAmpliconValidationOther
- Updated descriptions on
- Modified
diagnosisentity- Added new fields
ajcc_staging_system_editionanaplasia_presentanaplasia_present_typechild_pugh_classificationcog_neuroblastoma_risk_groupcog_rhabdomyosarcoma_risk_groupenneking_msts_gradeenneking_msts_metastasisenneking_msts_stageenneking_msts_tumor_siteesophageal_columnar_dysplasia_degreeesophageal_columnar_metaplasia_presentfirst_symptom_prior_to_diagnosisgastric_esophageal_junction_involvementgoblet_cells_columnar_mucosa_presentinpc_gradeinss_stageirs_groupishak_fibrosis_scoremicropapillary_featuresmeduloblastoma_molecular_classificationmetastasis_at_diagnosismitosis_karyorrhexis_indexperipancreatic_lymph_nodes_positiveperipancreatic_lymph_nodes_testedsynchronous_malignancysupratentorial_localizationtumor_confined_to_organ_of_origin
- Added new permissible values to
vascular_invasion_presentfieldExtramuralIntramural
- Updated
ann_arbor_clinical_stageandann_arbor_pathologic_stagefields
- Added new fields
- Modified
aliquotentity- Added new fields
selected_normal_wxsselected_normal_wgsselected_normal_targeted_sequencingselected_normal_low_pass_wgs
- Added new fields
- Modified
projectentity- Added new fields
request_submissionin_reviewsubmission_enabled
- Removed duplicate
intended_release_datefield - Made fields
not requireddisease_typeprimary_site
- Added new fields
- Modified
caseentity- Updated descriptions
disease_typeprimary_site
- Updated descriptions
- Modified
demographicentity- Added new fields
premature_at_birthweeks_gestation_at_birth
- Made
submitter_ida required field - Changed type of
year_of_birthfrom number to integer - Changed type of
year_of_deathfrom number to integer
- Added new fields
- Modified
treatmententity- Updated CDE code for
treatment_anatomic_site - Modified permissible values to
treatment_anatomic_sitefield - Made
submitter_ida required field - Added new permissible value to
treatment_intent_typeNeoadjuvant
- Added new permissible value to
treatment_outcomeVery Good Partial ResponseMixed ResponseNo Response
- Added new permissible value to
treatment_typeBrachytherapy, High DoseBrachytherapy, Low DoseRadiation, 2D ConventionalRadiation, 3D ConformalRadiation, Intensity-Modulated RadiotherapyRadiation, Proton BeamRadiation, Stereotactic BodyRadiation Therapy, NOSStereotactic Radiosurgery
- Removed field
days_to_treatment
- Removed permissible values for
treatment_typeRadiationRadiation Therapy
- Updated CDE code for
- Modified
analyteentity- Removed duplicate
projectfield
- Removed duplicate
- Modified
follow_upentity- Added new permissible values to
comorbidityfield - Added new fields
progression_or_recurrence_typediabetes_treatment_typereflux_treatment_typebarretts_esophagus_goblet_cells_presentkarnofsky__performance_statusmenopause_statusviral_hepatitis_serologiesreflux_treatmentpancreatitis_onset_yearcomorbidity_method_of_diagnosisrisk_factor
- Removed fields
absolute_neutrophilalbuminbeta_2_microglobulinbuncalciumcea_levelcolon_polyps_historycreatininecrpdays_to_hiv_diagnosisestrogen_receptor_percent_positive_ihcestrogen_receptor_result_ihcglucosehemoglobinher2_erbb2_percent_positive_ihcher2_erbb2_result_fishher2_erbb2_result_ihchiv_positivehpv_statusigaiggigl_kappaigl_lambdaigmldh_levelldh_normal_range_upperm_proteinmicrosatellite_instability_abnormalplatelet_countprogesterone_receptor_percent_positive_ihcprogesterone_receptor_result_ihctotal_proteinwbc
- Added new permissible values to
- Modified
exposureentity- Added new fields
alcohol_days_per weekalcohol_drinks_per_day
- Added new fields
- Added
molecular_testentity- Added new fields
gene_symbolsecond_gene_symboltest_analyte_typetest_resultmolecular_analysis_methodvariant_typemolecular_consequencechromosomecytobandexontranscriptlocusdna_changeaa_changerna_changezygosityhistone_familyhistone_variantcopy_numberantigentest_valuetest_unitsspecialized_molecular_testploidycell_countloci_countloci_abnormal_countmismatch_repair_mutationblood_testblood_test_normal_range_upperblood_test_normal_range_lower
- Added new fields
- Modified
biospecimen_supplemententity- Added new permissible values to
data_formatfieldTSVBCR BiotabBCR SSF XMLBCR PPS XMLFoundationOne XMLBCR Auxiliary XML
- Removed permissible values on
data_formatfieldSSFPPS
- Added new permissible values to
- Modified
clinical_supplemententity- Added new permissible values to
data_formatfieldTSVBCR OMF XMLBCR Biotab
- Removed field
data_format
- Added new permissible values to
- Modified
submitted_aligned_readsentity- Added new permissible values to
experimental_strategyfieldTargeted SequencingBisulfite-SeqChIP-SeqATAC-Seq
- Removed permissible values from
experimental_strategyfieldValidationTotal RNA-Seq
- Added new permissible values to
- Modified
submitted_unaligned_readsentity- Added new field
read_pair_number
- Added new permissible values to
experimental_strategyfieldTargeted SequencingBisulfite-SeqChIP-SeqATAC-Seq
- Added new field
- Modified
alignment_workflowentity- Added new permissible values to
workflow_typefieldBWA with Mark Duplicates and BQSRBWA with BQSR
- Added new permissible values to
- Modified
copy_number_segmententity- Removed permissible values for
data_typefieldGene Level Copy NumberGene Level Copy Number Scores
- Removed permissible values for
- Modified
submitted_genomic_profileentity- Added new permissible values for
data_typeRaw GCI Variant
- Added new permissible values for
data_categoryCombined Nucleotide Variation
- Added new permissible values for
experimental_strategyWGS
- Added new permissible values for
data_formatVCF
- Added new permissible values for
- Modified
genomic_profile_harmonization_workflowentity- Added new permissible value for
workflow_typeVCF LiftOver
- Added new permissible value for
- Modified
simple_somatic_mutationentity- Added new permissible values for
data_typeRaw GCI Variant
- Added new permissible values for
data_categoryCombined Nucleotide Variation
- Added new permissible values for
- Modified
masked_somatic_mutationsentity- Added new permissible value for
experimental_strategyTargeted Sequencing
- Removed permissible value for
experimental_strategyValidation
- Added new permissible value for
Bugs Fixed Since Last Release
- Fixed issue when
file_sizeis specified as a float in submitted json file
v.1.11
- GDC Product: GDC Data Dictionary
- Release Date: January 20, 2018
New Features and Changes
- Added a link between the
sampleandanalyteentities in the data model - Added a link between the
sampleentity and othersampleentities in the data model - Created
structural_variant_calling_workflowentity - Created
structural_variationentity - Removed
clinical_testentity - Removed
exon_expressionentity - Modified relationships of entities
- Changed relationship between
submitted_genomic_profileandread_groupto one-to-many - Changed relationship between
projectsandmasked_somatic_mutationsfrom one-to-one to many_to_one - Changed relationship between
projectsandaggregated_somatic_mutationsfrom one-to-one to many_to_one - Changed relationship of
rna_expression_workflowto downstream entities from one-to-one to one-to-many - Changed relationship of
alignment_workflowto downstream entities from many-to-one to many-to-many
- Changed relationship between
- Modified
projectentity- Added new state
processed
- Added new fields
release_requestedawg_reviewis_legacy
- Added new state
- Modified
clinical_supplemententity- Added new
data_formatfieldCDC JSON
- Added new
- Modified
caseentity- Enumerated
primary_sitefield
- Enumerated
- Modified
diagnosisentity- Enumerated fields
primary_diagnosistissue_or_organ_of_originsite_of_resection_or_biopsytumor_grademorphologyajcc_clinical_stageajcc_pathologic_stagelateralitymethod_of_diagnosis
- Changed type of fields
year_of_diagnosis: changed type tointage_at_diagnosis: changed type toint
- Added new permissible values to fields
figo_stageStage IIC
lymphatic_invasion_presentNot Reported
perineural_invasion_presentNot Reported
ann_arbor_clinical_stageNot ReportedUnknown
residual_diseaseNot ReportedUnknown
vascular_invasion_typeMacroMicroNo Vascular InvasionNot ReportedUnknown
- Enumerated fields
- Modified
exposureentity- Enumerated fields
alcohol_intensityalcohol_historycause_of_death
- Removed
6as a valid field fromtobacco_smoking_status
- Enumerated fields
- Modified
demographicentity- Enumerated field
comorbidity
- Added new permissible values to field
cause_of_deathInfectionToxicitySpinal Muscular AtrophyEnd-stage Renal Disease
- Enumerated field
- Modified
family historyentity- Enumerated fields
relationship_primary_diagnosisrelationship_type
- Enumerated fields
- Modified
treatmententity- Enumerated fields
treatment_anatomic_sitetreatment_type
- Changed type of fields
days_to_treatment: changed type tointdays_to_treatment_end: changed type tointdays_to_treatment_start: changed type toint
- Enumerated fields
- Modified
follow_upentity- Enumerated field
comorbidity
- Removed
Noneas valid field fromcomorbidity
- Enumerated field
- Modified
demographicentity- Added new field
age_at_index
- Added new field
- Modified read_group entity
- Added new fields
fragment_minimum_lengthfragment_maximum_lengthfragment_mean_lengthfragment_standard_deviation_length
- Added new fields
- Modified
slide imageentity- Added new data_formats
JPEGandTIFF
- Added new data_type
Cell Culture
- Added new experimental strategy
Cell Culture
- Added new property
Magnification
- Added new field
date_time
- Added new data_formats
- Modified
sampleentity- Added new permissible values to fields
method_of_sample_procurementAutopsy
sample_type2D Classical Conditionally Reprogrammed Cells2D Modified Conditionally Reprogrammed Cells3D Organoid3D Air-Liquid Interface Organoid3D NeurosphereAdherent Cell LineLiquid Suspension Cell Line
composition2D Classical Conditionally Reprogrammed Cells2D Modified Conditionally Reprogrammed Cells3D Organoid3D Air-Liquid Interface Organoid3D NeurosphereAdherent Cell LineLiquid Suspension Cell Line
- Added new permissible values to fields
- Modified
genomic_profile_harmonization_workflowentity- Added new permissible values to field
workflow_typeGENIE Simple Somatic MutationGENIE Copy Number Variation
- Added new permissible values to field
- Modified
somatic_mutation_calling_workflowentity- Added new permissible values to field
workflow_typePindel
- Added new permissible values to field
- Modified
rna_expression_workflowentity- Added new permissible values to field
workflow_typeRSEM - QuantificationSTAR - CountsRNA-SeQC - CountsRNA-SeQC - FPKMKallisto - QuantificationKallisto - HDF5
- Added new permissible values to field
- Modified
somatic_aggregation_workflow- Added new permissible values to field
workflow_typePindel Variant Aggregation and MaskingGENIE Variant Aggregation and Masking
- Added new permissible values to field
- Modified
gene_expression entity- Added new data_types
Isoform Expression QuantificationExon Expression Quantification
- Added new data_format
HDF5
- Added new data_types
Bugs Fixed Since Last Release
- Fixed issue when submitting
tobacco_smoking_statusvia tsv
Known Issues and Workarounds
Release with API v1.10.0
- GDC Product: GDC Data Dictionary
- Release Date: August 22, 2017
New Features and Changes
- Created
follow_upentity to support longitudinal clinical data - Deprecated
clinical_testentity - Modified acceptable values for Read Group properties
library_selection: "Hybrid Selection, Affinity Enrichment, Poly-T Enrichment, Random, rRNA Depletion, miRNA Size Fractionation, Targeted Sequencing"library_strategy: "Targeted Sequencing"
- Modified Diagnosis entity
- Added field
iss_stage - Added field
best_overall_response - Added field
days_to_best_overall_response - Added field
progression_free_survival - Added field
progression_free_survival_event - Added field
overall_survival - Added field
days_to_diagnosis
- Added field
- Modified Treatment entity
- Added field
regimen_or_line_of_therapy
- Added field
- Modified Demographic entity
- Added field
cause_of_death - Added field
days_to_birth - Added field
days_to_death - Added field
vital_status
- Added field
- Modified Case entity
- Added field
days_to_lost_to_followup - Added field
lost_to_followup - Added field
index_date
- Added field
- Added new tumor code, tumor id, and sample types to Sample entity to support OCG
tumor_code: "Acute leukemia of Ambiguous Lineage (ALAL), Lymphoid Normal, Tumor Adjacent Normal - Post Neo Adjuvant Therapy"tumor_code_id: "15, 17, 18"
- Created
somatic_mutation_indexentity - Updated caDSR CDE links in data dictionary
- Added new
sample_type:tumorto sample entity - Made
classification_of_tumoron diagnosis entity non-required - Added support for FM-AD to Genomic Profile Harmonization Workflow entity
- Added
data_type:Gene Level Copy Number Scoresto Copy Number Segment entity
Bugs Fixed Since Last Release
None
Known Issues and Workarounds
- Portion
weightproperty is incorrectly described in the Data Dictionary as the weight of the patient in kg, should be described as the weight of the portion in mg
Release with API v1.7.1
- GDC Product: GDC Data Dictionary
- Release Date: March 16, 2017
New Features and Changes
- Added "submittable" property to all entities
- Changed Read Group to category biospecimen
- Added many new clinical properties available for submission
- Added sample codes from Office of Cancer Genomics (OCG) to analyte and aliquot
- Slides can now be attached to sample rather than just portion
sample_type_idis no longer required when submitting sample entitiesanalyte_type_idis no longer required when submitting aliquot and analyte entities- Clinical Test Entity is created for storing results of a variety of potential clinical tests related to the diagnosis -
- Genomic Profiling Report entity created for storing particular derived sequencing results
- Structural Variation entity created
- Project entity includes new field "Intended Release Date"
- Project entity includes new field "Releasable"
Bugs Fixed Since Last Release
None
Known Issues and Workarounds
None
Release with API v1.3.1
- GDC Product: GDC Data Dictionary
- Release Date: September 7, 2016
New Features and Changes
- Clinical Supplement entities can have
data_formatset to OMF. - Biospecimen Supplement entities can have
data_formatset to SSF or PPS. - Read group
instrument_modelcan be set to "Illumina HiSeq 4000". - Category of Slide entities in the GDC Data Model has changed from
data_bundletobiospecimen.
Bugs Fixed Since Last Release
None
Known Issues and Workarounds
None