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cds-model

Model description files for the Cancer Data Service (draft)

Cancer Data Service Data Model

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Additional model files

Perl participant participant crdc_id dbGaP_subject_id ethnicity participant_id race sex sex_at_birth study_participant_id study study acl adult_or_childhood_study authz bioproject_accession cds_primary_bucket cds_requestor cds_secondary_bucket cds_tertiary_bucket clinical_trial_arm clinical_trial_identifier clinical_trial_repository clinical_trial_system co_investigator_email co_investigator_name crdc_id data_access_level data_types email file_types file_types_and_format first_name funding_agency funding_source_program_name grant_id index_date + 20 properties participant->study of_study program program crdc_id institution program_acronym program_external_url program_full_description program_name program_short_description program_short_name program_sort_order NonDICOMCTimages NonDICOMCTimages CTAquisitionProtocolElement_ctdiPhantomTypeCode CTAquisitionProtocolElement_ctdiVol CTAquisitionProtocolElement_exposureModulationType_Code CTAquisitionProtocolElement_gantryDetectorTilt CTAquisitionProtocolElement_kVp CTAquisitionProtocolElement_singleCollimationWidth CTAquisitionProtocolElement_spiralPitchFactor CTAquisitionProtocolElement_totalCollimationWidth CTImageReconstructionProtocolElement_convolutionKernel CTImageReconstructionProtocolElement_convolutionKernelGroupCode NonDICOMCTimages_id crdc_id image image citation_or_DOI crdc_id de_identification_method_description de_identification_method_type de_identification_software image_modality imaging_equipment_manufacturer imaging_equipment_model imaging_protocol imaging_software license longitudinal_temporal_event_offset longitudinal_temporal_event_type organ_or_tissue performed_imaging_study_typeCode species study_link_id NonDICOMCTimages->image of_image NonDICOMPETimages NonDICOMPETimages NonDICOMPETimages_id PETImagingAcquisitionProtocolElement_gantryDetectorTilt Radiopharmaceutical_radionuclideCode crdc_id NonDICOMPETimages->image of_image NonDICOMradiologyAllModalities NonDICOMradiologyAllModalities NonDICOMradiologyAllModalities_id crdc_id performed_imaging_study_acquisitionTypeCode performed_imaging_study_admittingDiagnosisCode performed_imaging_study_algorithmCode performed_imaging_study_bodyPositionCode performed_imaging_study_cardiacSynchronizationTechniqueCode performed_imaging_study_dataCollectionDiameter performed_imaging_study_description performed_imaging_study_lossyImageCompressionIndicator performed_imaging_study_nonAcquisitionModalitiesInStudyCode performed_imaging_study_primaryAnatomicSiteCode performed_imaging_study_reconstructionDiameter performed_imaging_study_reconstructionFieldOfViewHeight performed_imaging_study_reconstructionFieldOfViewWidth performed_imaging_study_reconstructionInterval performed_imaging_study_respiratoryMotionTechniqueCode performed_imaging_study_sliceThickness performed_imaging_study_summary NonDICOMradiologyAllModalities->image of_image treatment treatment crdc_id days_to_treatment response therapeutic_agents treatment_id treatment_type treatment->participant of_participant NonDICOMMRimages NonDICOMMRimages MRImageAcquisitionProtocolElement_acquisitionContrastCode MRImageAcquisitionProtocolElement_arterialSpinLabelingContrastCode MRImageAcquisitionProtocolElement_diffusionBValue MRImageAcquisitionProtocolElement_diffusionDirectionalityCode MRImageAcquisitionProtocolElement_echoPlanarPulseSequenceIndicator MRImageAcquisitionProtocolElement_echoPulseSequenceCategoryCode MRImageAcquisitionProtocolElement_inversionRecoveryIndicator MRImageAcquisitionProtocolElement_magneticFieldStrength MRImageAcquisitionProtocolElement_multipleSpinEchoIndicator MRImageAcquisitionProtocolElement_phaseContrastIndicator MRImageAcquisitionProtocolElement_pulseSequenceName MRImageAcquisitionProtocolElement_resonantNucleusCode MRImageAcquisitionProtocolElement_saturationRecoveryIndicator MRImageAcquisitionProtocolElement_spectrallySelectedSuppressionCode MRImageAcquisitionProtocolElement_steadyStatePulseSequenceCode MRImageAcquisitionProtocolElement_timeOfFlightContrastIndicator MRImageReconstructionProtocolElement_complexImageComponentCode NonDICOMMRimages_id crdc_id NonDICOMMRimages->image of_image NonDICOMpathologyImages NonDICOMpathologyImages NonDICOMpathologyImages_id acquisition_method_type crdc_id embedding_medium immersion lens_numerical_aperture nominal_magnification objective staining_method tissue_fixative tumor_tissue_type NonDICOMpathologyImages->image of_image study->program of_program MultiplexMicroscopy MultiplexMicroscopy MultiplexMicroscopy_id acquisition_method_type antibody_name catalog_number channel_id channel_metadata_file_url_in_cds channel_metadata_filename channel_name clone concentration crdc_id cycle_number dilution embedding_medium emission_bandwidth emission_wavelength excitation_bandwidth excitation_wavelength fluorophore imaging_assay_type immersion lens_numerical_aperture lot metal_isotope_element_abbreviation metal_isotope_element_mass + 20 properties MultiplexMicroscopy->image of_image sample sample biosample_accession crdc_id derived_from_specimen sample_age_at_collection sample_anatomic_site sample_description sample_id sample_tumor_status sample_type sample_type_category sample->participant of_participant diagnosis diagnosis age_at_diagnosis crdc_id days_to_last_followup days_to_last_known_disease_status days_to_last_known_status days_to_recurrence diagnosis_id disease_type incidence_type last_known_disease_status morphology primary_diagnosis primary_site progression_or_recurrence site_of_resection_or_biopsy study_diagnosis_id tissue_or_organ_of_origin tumor_grade tumor_stage_clinical_m tumor_stage_clinical_n tumor_stage_clinical_t vital_status diagnosis->participant of_participant file file checksum_algorithm checksum_value crdc_id experimental_strategy_and_data_subtypes file_description file_id file_mapping_level file_name file_size file_type file_url_in_cds is_supplementary_file md5sum release_datetime submission_version image->file of_file file->participant of_participant file->study of_study file->sample from_sample file->file associated_with genomic_info genomic_info avg_read_length bases coverage crdc_id custom_assembly_fasta_file_for_alignment design_description genomic_info_id instrument_model library_id library_layout library_selection library_source_material library_source_molecule library_strategy methylation_platform number_of_reads platform reference_genome_assembly reporter_label sequence_alignment_software genomic_info->file of_file proteomic proteomic aliquot_id analytical_fractions crdc_id instrument_make manufacturer_model_name proteomic_design_description proteomic_info_id proteomic_instrument_model proteomic->file of_file version version crdc_id data_version data_version_id datetime description model_version