New Projects Available in GDC Data Release 45
The GDC released Data Release 45 with data from new projects, new tissue slide images, and more. Key highlights from this release include:
Access Data
Data for New Projects Now Available in GDC Data Release 44
The GDC released Data Release 44 with data from new projects, new cases from existing projects, and more. Key highlights from this release include:
Why does TCGABiolinks no longer work when retrieving diagnosis?
Submitted by gaheens
on
TCGA clinical data was expanded in GDC Data Releases 42 and 43. TCGA clinical data used to have one diagnosis per case. With the clinical data expansion, it is possible that a TCGA case has multiple diagnoses. This could be due to pre-enrollment diagnoses or other reasons. To properly query for the diagnosis information associated with the molecular data, the primary disease flag should be set to true (i.e., diagnosis_is_primary_disease = true).
GDC Dictionary Updates in the Turing Release
The GDC Turing Data Dictionary Release 3.4 includes the following features:
GDC Releases Data Release 43 with Expanded Genomic and Clinical Data
The GDC has announced Data Release 43, featuring a range of new and updated data sets. Key highlights from this release include:
Why can’t I download data immediately after receiving dbGaP access to a study?
Submitted by gaheens
on
It may take up to 24 hours for the GDC to sync with dbGaP. Please allow this time after receiving dbGaP authorization before attempting to access the study’s data on the GDC.
New Single Cell RNA-Seq Tool and CNV Categories Available in the GDC Data Portal
The GDC 2.4 Röntgen Release brings a range of new features aimed at enhancing data analysis and user experience.
Why do some genes show no expression in STAR results across all samples, even though I can see mapped reads in the raw RNA-Seq data?
Submitted by gaheens
on
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.
8000+ New WGS Variant Calls Now Available in the GDC!
The GDC is excited to announce the release of 8000+ new whole genome sequencing (WGS) variant calls as part of Data Release 42. Highlights of this release include:
New GDC Data Portal Features in the Pauling Release (GDC 2.3)
The latest GDC 2.3 Pauling Release introduces several new features designed to enhance user experience and improve data analysis.