Target capture kits are used to "target" specific regions of a given genome for the Whole Exome Sequencing (WXS) and Targeted Sequencing experimental strategies. Users should therefore take care when comparing data from different target capture kits for the WXS and Targeted Sequencing experimental strategies because of potential differences in genomic regions targeted, variant filtering, and subsequent variants recovered. Additionally, users should also consider that Whole Genome Sequencing (WGS) does not use target capture kits and may thus recover variants that are excluded in the WXS and Targeted Sequencing experimental strategies.
From the GDC Data Portal "Repository" page, the names of the target capture kits can be accessed by clicking the "Adding a File Filter" link and choosing "analysis.metadata.read_groups.target_capture_kit" from the menu. The GDC does not distribute target or bait files because they are intellectual property. Users should contact each individual project directly if detailed target capture region information is needed.