Data Analysis of Socioeconomic Situation, Individual Biological Factors and Tumor Characteristics in Adenoma and Adenocarcinoma

Codebook: Variable Record type Response codes Nonresponse & missing codes Description case_id alphanumeric code case codes N/A Medical record number primary_site categorical (nominal) BreastBronchus and lungCervix uteriConnective, subcutaneous and other soft tissuesCorpus uteriEsophagusKidneyPancreasProstate glandRectosigmoid junctionRectumStomachThyroid gland N/A Anatomic site of the primary tumor primary_diagnosis categorical (nominal) histologic diagnosis "not reported" Histologic type of the primary tumor tumor_descriptor categorical (nominal) PrimaryMetastaticRecurrenceNew Primary Not Applicable N/A Describes the type of tumor sample in relation to the disease timeline tumor_grade categorical (ordinal) G1 = Well differentiated (low grade)G2 = Moderately differentiated (intermediate grade)G3 = Poorly differentiated (high grade)G4 = Undifferentiated (high grade)GX = Grade cannot be assessed "not reported" Histologic grade of the tumor indicating degree of differentiation and aggressiveness ajcc_pathologic_stage categorical (ordinal) Stage 0, I, IA, IB, ICStage II, IIA, IIB, IICStage III, IIIA, IIIB, IIICStage IV, IVA, IVB, IVCUnknown "not reported" Pathologic stage of the tumor ajcc_pathologic_t categorical (ordinal) TX = Primary tumor cannot be assessedT0 = No evidence of primary tumorTis = Carcinoma in situT1, T1a, T1b, T1c, T1a1, T1a2, T1b1, T1b2 = Tumor limited to organ, small size (subcategories indicate size/extent)T2, T2a, T2b, T2c, T2a1, T2a2 = Tumor more extensive but confined to organT3, T3a, T3b, T3c = Tumor invades beyond organ into surrounding tissuesT4, T4a, T4b = Tumor invades adjacent structures/organs "not reported" Description of the extent of the primary tumor ajcc_pathologic_n categorical (ordinal) NX = Regional lymph nodes cannot be assessedN0 = No regional lymph node metastasisN0 (i-) = No regional lymph node metastasis, negative immunohistochemistryN1, N1a, N1b, N1c = Metastasis in regional lymph nodes (subcategories indicate number, size, or location)N2, N2a, N2b = Metastasis in more extensive regional lymph nodesN3, N3a, N3b = Metastasis in distant regional lymph nodes or extensive involvement "not reported" Description of the extent of regional lymph node involvement ajcc_pathologic_m categorical (ordinal) M0 = No distant metastasisM1 = Distant metastasis presentM1a = Distant metastasis confined to a single organ or site (specific definition varies by cancer type)M1b = Distant metastasis in more than one organ or site (specific definition varies by cancer type)MX = Distant metastasis cannot be assessedUnknown = Metastasis status unknown "not reported" Description of the absence or presence of distant metastasis residual_disease categorical (ordinal) R0 = No residual tumor (complete resection, margins negative)R1 = Microscopic residual tumor (positive margins on microscopy)R2 = Macroscopic residual tumor (gross residual disease)RX = Presence of residual tumor cannot be assessedUnknown "not reported" Status of residual tumor after primary treatment (surgery/radiation), indicating if any macroscopic or microscopic tumor remains icd_10_code categorical (nominal) C15.5 = Lower third of esophagusC15.9 = EsophagusC16.0 = CardiaC16.1 = Fundus of stomachC16.2 = Body of stomachC16.3 = Gastric antrumC16.9 = StomachC19 = Rectosigmoid junctionC20 = RectumC25.0 = Head of pancreasC25.1 = Body of pancreasC25.2 = Tail of pancreasC25.8 = Overlapping lesion of pancreasC25.9 = PancreasC34.0 = Main bronchusC34.1 = Upper lobe, lungC34.2 = Middle lobe, lungC34.3 = Lower lobe, lungC34.8 = Overlapping lesion of lungC34.9 = LungC49.4 = Connective, subcutaneous and other soft tissues of abdomenC50.9 = BreastC50.919 = Breast (female)C53.0 = EndocervixC53.9 = Cervix uteriC54.0 = Isthmus uteriC54.1 = EndometriumC54.9 = Corpus uteriC61 = Prostate glandC64.1 = Kidney, NOS (right/left)C64.9 = Kidney, NOS C73 = Thyroid gland "not reported" ICD-10 code for the primary cancer diagnosis prior_malignancy categorical (nominal) no or yes "not reported" Indicates whether the patient had a prior malignancy (cancer) before the current diagnosis age_at_diagnosis numeric (discrete) values representing complete years of age at diagnosis "not reported" Age of the patient at primary cancer diagnosis, rounded down to the nearest whole year year_of_diagnosis numeric (year) values from 1991-2013 N/A Year when the patient received their primary cancer diagnosis year_of_birth numeric (year) values representing birth year (range: 1911-1997) "not reported" Patient's year of birth relative_with_cancer_history categorical (nominal) yes, no or Unknown "not reported" Indicates whether any immediate family member has a history of cancer ethnicity categorical (nominal) hispanic or latino = Person of Cuban, Mexican, Puerto Rican, South or Central Americannot hispanic or latinoUnknown "not reported" Patient's ethnicity race categorical (nominal) whiteblack or african americanasianamerican indian or alaska nativenative hawaiian or other pacific islanderUnknown N/A Patient's races sex_at_birth categorical (binary) male or female N/A Patient's sex at birth vital_status categorical (binary) alive or dead N/A Patient's vital status rate_race_agegender (%) numeric (continous) values from 0,4% to 95,1% N/A % cancer incidence rate stratified by sex and age group rate_race_site (%) numeric (continous) values from 0,4% to 94% N/A % cancer incidence or mortality rate stratified by racial group country_of_residence_at_enrollment categorical (nominal) United States GermanyCanadaAustraliaPolandRussiaUkraineBrazilSouth KoreaVietnamNetherlandsBulgariaMoldovaGeorgiaRomaniaUnited Kingdom N/A Country where the patient was residing at the time of enrollment into the study PIB_capita ($) numeric (continous) values from 1,108 $ to 50,404 $ N/A Country PIB per capita average from the year of birth until the year of diagnosis of each patient specimen_type categorical (binary) Solid tissue or Unknown N/A Type of biospecimen collected from the patient tissue_type categorical (binary) Normal or Tumor N/A Indicates whether the biospecimen is derived from normal tissue or tumor tissue analyte_type categorical (nominal) DNA = Standard DNA extraction (non-amplified)RNA = RNA extractionTotal RNA = Total RNA (includes mRNA, rRNA, tRNA)Repli-G (Qiagen) DNA = Whole genome amplified DNA using Qiagen Repli-G kitRepli-G X (Qiagen) DNA = Whole genome amplified DNA using Qiagen Repli-G X kit N/A Type of nucleic acid analyte extracted from the biospecimen, including amplification method where applicable normal_tumor_genotype categorical (binary) Yes "not reported" Indicates whether SNP genotyping has been performed to confirm the relationship between matched normal and tumor samples tumor_nuclei (%) numeric (continous) Values from 0 to 100 "not reported" Percentage of tumor cell nuclei estimated by pathologist review of the slide, indicating tumor cellularity or purity of the specimen