STAR gene expression quantification excludes reads that are mapped to multiple different genes. This can cause some genes to appear with zero expression in the final counts, even if mapped reads are present in the raw data.
GDC Data Dictionary
New GDC Data Dictionary properties were added in the Okazaki release. Key highlights include:
Filtering in Cohort Builder results in a set of cases. A case can have multiple diagnosis and tissues or organ of origins may be related to a secondary diagnosis.
GDC Data Release 41 is now accessible on the GDC Data Portal. This release introduces new data sets featuring data for new NCI-MATCH Trial arms, whole slide images, and more.
To view the top frequently mutated genes for a cohort, first build a cohort using the Cohort Builder and then select the Mutation Frequency tool in the Analysis Center
Filtering in Cohort Builder results in a set of cases. Cases typically have available data for multiple Experimental Strategies (e.g., cases with RNA-Seq data can also have DNA-Seq data). As such, when navigating to Repository additional data besides RNA-Seq data is displayed. Repository filters are file based. When filtering Repository by Experimental Strategy (e.g., RNA-Seq) only files associated with the Experimental Strategy are displayed.
The GDC Nightingale release brings an upgrade to the GDC Data Transfer Tool (DTT) client and an Application Programming Interface (API) update to add an endpoint for Other Clinical Data Elements wi
Introducing the latest advancements in GDC 2.0 with Release 2.1! Here's what's new:
GDC Data Release 40 is now accessible on the GDC Data Portal.
The GDC has released GDC 2.0 which expands on the GDC Data Portal initially launched in 2016 by providing a cohort-centric design and new analysis tools. GDC 2.0 features include:
