Table 2 Type, subtypes, and sources of clinical parameters used in elastic-net analysis. Eighteen total clinical parameters were included—availability of each clinical attribute is dependent on cancer type
Clinical parameter | Number of subtypes | Type | Subtypes | Number of cancer types | Source |
|---|---|---|---|---|---|
Country | 16 | Categorical | US, Russia, Korea South, Italy, etc. | 17 | TCGA |
Gender | 2 | Binary | male, female | 18 | TCGA |
HistoType | by cancer type | Categorical | Ex) Intestinal/diffuse for stomach | 10 | TCGA |
PriorMalignancy | 2 | Binary | yes, no | 7 | TCGA |
FamilyHistory | by cancer type | Ordinal | 0,1,2,3 | 1 | TCGA |
M-Status | 2 | Binary | M0, M1 | 15 | TCGA |
N-Status | 4 | Ordinal | N0, N1, N2, N3 | 18 | TCGA |
ClinicalStage | 4 | Ordinal | I, II, III, IV | 16 | TCGA |
T-Status | 5 | Ordinal | T0, T1, T2, T3, T4, | 18 | TCGA |
HistoGrade | 3 | Ordinal | Low, Intermediate, High | 11 | TCGA |
SmokingHistory | 4 | Categorical | Current smoker, Lifelong Non-smoker, Current reformed smoker for >15 years, Current reformed smoker for ≤15 years | 8 | TCGA |
MolecularSubtype | 2 | Categorical | CIN, GS, MSI, EBV | 1 | TCGA |
MSIstatus | 3 | Ordinal | MSS, MSI-L, MSI-H | 5 | UCSC |
PAM50clust | 5 | Categorical | Normal-like, Luminal A, Luminal B, Basal-like, HER2-enriched | 1 | UCSC |
RPPAclustersBRCA | 6 | Categorical | ReacI, LumA/B, Basal, LumA, Her2, ReacII | 1 | UCSC |
GeneExpSubtype | 4 | Categorical | Classical, Mesenchymal, Proneural, Neural | 1 | UCSC |
TripleMarker | 4 | Categorical | TripleNegative, Her2Positive, Erpositive, TriplePositive | 1 | UCSC |
EBV present | 2 | Binary | Positive, Negative | 1 | cBio |