Preferred ontologies and nomenclatures
The full schemas and data dictionaries of tables used in K can be provided upon request. Data loaded in K follows a OMOP like schema with the following notable categorical standards :
QC Status
pass | fail | flag
LDH Level Bins
Normal | Elevated | Low
Protein Measure Type
global | phospho
Tumor Region
Stroma | Tumor Edge | Tumor Islet
Vital Status
Alive | Deceased
Gender
Male | Female
ECOG Performance Status
0 | 1 | 2 | 3 | 4 | 5
Smoking Status
Current | Former | Never
Treatment Response (RECIST)
Complete Response | Partial Response | Stable Disease | Progressive Disease
Treatment Line
Neoadjuvant | Adjuvant | First-line | Second-line | Third-line
Treatment Setting
Neoadjuvant | Adjuvant | Palliative | Curative
Treatment Type
chemotherapy | immunotherapy | surgery | radiotherapy | targeted therapy
Sample Tissue
Tumor | Normal | Blood | Metastasis
Histological Sample Type
Primary Tumor | Adjacent Normal | Metastatic | Recurrent
Sample Collection Chronology
Baseline | On-treatment | Post-treatment | Progression
TNM T Stage
T0 | T1 | T1a | T1b | T1c | T2 | T2a | T2b | T3 | T3a | T3b | T4 | T4a | T4b | Tx | Tis
TNM N Stage
N0 | N1 | N1a | N1b | N1c | N2 | N2a | N2b | N2c | N3 | N3a | N3b | Nx
TNM M Stage
M0 | M1 | M1a | M1b | M1c | Mx
TNM Stage Groups
Stage 0 | Stage I | Stage IA | Stage IB | Stage II | Stage IIA | Stage IIB | Stage IIC | Stage III | Stage IIIA | Stage IIIB | Stage IIIC | Stage IV | Stage IVA | Stage IVB
FIGO Stage
Stage I | Stage IA | Stage IB | Stage IC | Stage II | Stage IIA | Stage IIB | Stage III | Stage IIIA | Stage IIIB | Stage IIIC | Stage IV | Stage IVA | Stage IVB
Ann Arbor Stage
Stage I | Stage II | Stage III | Stage IV (may include A/B suffix)
International Prognostic Index (IPI)
Low | Low-Intermediate | High-Intermediate | High
HER2 IHC Status
0 | 1+ | 2+ | 3+
ER/PR IHC Status
Positive | Negative | (percentage values)
Microsatellite Instability
MSI-High | MSI-Low | MSS (Microsatellite Stable)
MGMT Promoter Status
Methylated | Unmethylated
Platinum Sensitivity
Sensitive | Resistant | Refractory
Homologous Recombination Deficiency
Positive | Negative | Deficient | Proficient
Surgery Type
Primary resection | Debulking | Biopsy only | Mastectomy | Lumpectomy
Residual Disease
R0 (complete resection) | R1 (microscopic residual) | R2 (macroscopic residual)
Menopausal Status
Premenopausal | Postmenopausal | Perimenopausal
Race
White | Black or African American | Asian | Native Hawaiian or Pacific Islander | American Indian or Alaska Native | Other | Unknown
Alcohol Intake
Current | Former | Never
COPD Stage
Stage 0 | Stage I | Stage II | Stage III | Stage IV
End of Study Reason
Completed | Death | Disease Progression | Adverse Event | Withdrawal | Lost to Follow-up
Variant Classification
Missense_Mutation | Nonsense_Mutation | Frame_Shift_Del | Frame_Shift_Ins | In_Frame_Del | In_Frame_Ins | Splice_Site | Silent
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