Choosing a study/cohort
General recommendations
We recommend the TCGA Pan-Cancer (PANCAN) study for most analysis. Unless you need a specific type of data or need to run a type of analysis listed below, we recommend the TCGA Pan-Cancer (PANCAN) study.
Why do we recommend this study?
We recommend it because it has the data from the Cancer Genome Atlas (TCGA) Research Network, which generated the most comprehensive cross-cancer analysis to date: The Pan-Cancer Atlas. Xena displays the curated genomics and clinical data generated by the Pan-Cancer Atlas consortium working groups.
Note that if you use the TCGA Pan-Cancer (PANCAN) to study a specific cancer type, you will need to filter down to just that cancer type.
If you don't want to filter ...
Our second most recommended datasets are the cancer-specific GDC TCGA studies. These avoid the need to filter down to a single cancer type and contain harmonized data from the Genomic Data Commons.
Differences between the GDC and the legacy TCGA data
More information comparing the data in the GDC to the legacy TCGA data can be found here:
Choosing a study by type of data
The table below assumes that you are interested in TCGA data. These data types may also appear in other studies, but these are the recommended studies.
Choosing a study based on a specific analysis or sample type