For breast, ovarian and colon CPTAC analyzed TCGA samples. Where can I find a mapping between CPTAC IDs and TCGA barcodes?
The Cancer Genome Atlas (TCGA) and the Clinical Proteomic Tumor Analysis Consortium (CPTAC) are two publicly available datasets that provide valuable resources for cancer research.
To map between TCGA and CPTAC samples, you can follow these steps:
1. Download the sample metadata files for both datasets from their respective portals.
2. Identify common identifiers between the two datasets, such as patient IDs or sample IDs.
3. Cross-reference the common IDs and create a table that maps the TCGA samples to their corresponding CPTAC samples.
4. Verify the mapping by comparing relevant metadata fields for the matched samples. It is essential to confirm that the data fields match, such as sample type, sequencing platform, and cancer diagnosis, to ensure that the mapping is correct.
5. Once you have created the mapping table, use it to link TCGA and CPTAC data based on the mapped samples.
6. Perform integrative analyses using the combined TCGA-CPTAC data to gain a more comprehensive understanding of the molecular mechanisms of cancer.
Note that mapping between TCGA and CPTAC samples can be challenging due to variations in sample types or processing methods. However, following the above steps can help build an accurate mapping table between TCGA and CPTAC sample datasets.
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