Cancer staging statistics 11¶
The below statistics were taken from the cancer_staging_consolidated LabKey table from the Main Programme V11 data release. The table is built from the participant IDs and Tumour Sample Plate-key IDs from the cancer_analysis table which comprises QC-passed and interpreted tumour-normal genome pairs.
Completion as a percent of samples in the cancer_analysis table¶
This table shows the rate of data completion as a percentage of the total number of distinct participants and distinct tumour sample plate-keys in the cancer_analysis table vs the cancer_staging_consolidated table. Please note that this indicates the number of entries (participants or tumour sample plate-keys, respectively) for which we have stage information from one of the three input sources (cancer_participant_tumour, av_tumour, sact) within 12 months of acquiring the tumour sample. No additional checks were conducted.
|Distinct Tumour Sample Plate-keys||16,350||13,101 (number of rows in cancer_staging_consolidated table)||80.13|
Completion rates of cancer_staging_consolidated by each source of staging¶
This table shows the number and rate of completion of tumour_sample plate-keys (n = 13,101) that are linked each of the three sources of staging. Note the link must be within a year of the tumour_clinical_sample_time field from the cancer_analysis table.
|Source||Number of tumour sample plate-keys||% complete|
Summary and Distribution of time-difference days between tumour clinical sample time and staging information¶
This table shows the summary statistics of the distribution of time (in days) between the tumour_clinical_sample_time and the date of staging data acquisition. This is broken down by the three sources of staging.
NB: Note that in the below table and histogram, positive values indicate that the date of staging data acquisition is before the tumour_clinical_sample_time. Negative values indicate that the date of staging data acquisition is after the tumour_clinical_sample_time.
Frequency of the nearest staging source to the tumour clinical sample time for each tumour sample plate-key¶
The below table shows the break down of the tumour_sample plate-keys (n = 13,101) by the nearest source of staging data. For example if a tumour_sample plate-key has both linked av_tumour and sact staging entries, then the nearest entry to the tumour_clinical_sample_time is taken.
Frequency of breakdown by combination of data sources for each tumour sample plate-key¶
This table shows the frequency breakdown of the three sources of staging data across the tumour_sample plate-keys (n = 13,101). For example, if a tumour_sample plate-key has only cancer_participant_tumour and sact data available, then these two data sources are marked as Y.