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.
The GDC 2.4 Röntgen Release brings a range of new features aimed at enhancing data analysis and user experience.
This webinar is designed for cancer researchers and bioinformaticians who are interested in exploring the latest updates to the NCI Genomic Data Commons (GDC) whole genome sequencing workflows for variant calling.
The GDC processes and provides access to diverse genomic data types, including whole genome sequencing (WGS), to identify genetic variants such as SNPs, indels, and structural variations across coding, non-coding, and regulatory regions. The GDC WGS variant calling workflows produce various downstream data types, including simple somatic mutations (SSMs), structural variants (SVs), and copy number variations (CNVs). These workflows utilize advanced tools like Mutect2, SvABA, Strelka, Manta, and GATK4 CNV. In this webinar, the GDC will present the latest updates to GDC WGS variant calling workflows.
IMPORTANT NOTICE: Please note that this Webex service allows audio and other information sent during the session to be recorded, which may be discoverable in a legal matter. By joining this session, you automatically consent to such recordings. If you do not consent to being recorded, discuss your concerns with the host or do not join the session.
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.
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:
The Sequence Reads and BAM Slicing tools, available in GDC 2.0, are powerful web-based resources for analyzing sequence reads. The Sequence Reads Tool enables users to visualize read alignments from BAM files, and classify reads supporting either the reference or alternative alleles based on variant information (e.g., chromosome, position, reference, and alternative alleles). The BAM Slicing Tool allows users to download specific sections of a BAM file, targeting particular genomic or unmapped regions, thus avoiding the need to download large, multi-gigabyte files. This webinar provides a comprehensive overview of both tools.
This webinar is designed for researchers interested in visualizing DNA or RNA sequencing reads or downloading Binary Alignment Map (BAM) slices for a specific gene, position, SNP, or variant. It is ideal for anyone looking to analyze sequence reads for cancer mutations, regardless of their prior experience in genomics.
The Sequence Reads and BAM Slicing tools, available in GDC 2.0, are powerful web-based resources for analyzing sequence reads. The Sequence Reads Tool enables users to visualize read alignments from BAM files, and classify reads supporting either the reference or alternative alleles based on variant information (e.g., chromosome, position, reference, and alternative alleles). The BAM Slicing Tool allows users to download specific sections of a BAM file, targeting particular genomic or unmapped regions, thus avoiding the need to download large, multi-gigabyte files. This webinar will provide a comprehensive overview of both tools.
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Sequence Reads Analysis with GDC 2.0 Webinar Presentation.
IMPORTANT NOTICE: Please note that this Webex service allows audio and other information sent during the session to be recorded, which may be discoverable in a legal matter. By joining this session, you automatically consent to such recordings. If you do not consent to being recorded, discuss your concerns with the host or do not join the session.
The latest GDC 2.3 Pauling Release introduces several new features designed to enhance user experience and improve data analysis.
