Archive - CCG Updates & Insights
- Low-Coverage Whole Genome Sequencing: Learning From Less Data
Low-coverage whole-genome sequencing is a recent trend to sequence samples to a very low depth of coverage, often less than 1X. Researchers from very different fields (genetics and cancer diagnostics) are developing computational methods to learn useful information from the limited amount of data.
- Beat AML 1.0: A Collaborative Program for Functional Genomic Data Integration
The Beat AML project integrates molecular, drug response, and clinical data for progress towards individualized therapies for acute myeloid leukemia patients. Dr. Jeffrey Tyner from Oregon Health and Science University describes the collaborative effort.
- Brain Tumors Through the Single-Cell RNA Sequencing Lens: Researcher Interview with Mario Suvà
Brain cancers are notoriously hard to study, model, and treat. Dr. Mario Suvà speaks about how single-cell RNA sequencing is helping researchers gain clarity on the origins, development, and response to treatment for these cancers.
- Meticulous Reconstructions of Tumor Origins With Single-Cell DNA Sequencing: Researcher Interview with Nicholas Navin
Dr. Nicholas Navin talks about single-cell DNA sequencing and his research, considerations for working in the single-cell sequencing space, and what’s next for his lab.
- ATAC-seq on TCGA: Insights Into the Noncoding Region in Primary Cancers
Researchers used ATAC-seq to profile the chromatin accessibility of 410 TCGA samples representing 23 primary cancers. The study uncovered a vast number of novel DNA regulatory elements and their potential roles in cancer development, prognosis, and response to therapy.
- Getting to Know the Complexities of Cancer: A 2018 TCGA Symposium Preview
At the 2018 Cell Symposium, TCGA Legacy: Multi-Omic Studies in Cancer, cancer genomics experts will discuss the latest research in molecularly characterizing cancer, classifying the disease, and the development of targeted therapy. A preview of how some researchers are starting to understand the complex and dynamic aspects of cancer.
- Finding Pediatric Cancer Genomic Data through PGDI
The Pediatric Genomic Data Inventory (PGDI), developed by the Office of Cancer Genomics (OCG), is a new public resource informing researchers how and where to access globally generated pediatric cancer genomic datasets. Connecting researchers with data and fostering collaborations is key to furthering our understanding of childhood cancers.
- From Ignoring Features to Machine Learning Features: Computational Biology Then and Now
Dr. John Weinstein discusses progress in computational biology over the 12-year span of TCGA. The field has expanded greatly, with researchers taking on more complex problems and trying different approaches.
- The Genomic Data Commons Turns 2: Progress in Clinical Tool Development
The Genomic Data Commons (GDC) launched two years ago with the goal to build a collaborative, interactive knowledge system that anyone can use. Dr. Lou Staudt reflects on milestones reached at the GDC’s two year anniversary and challenges ahead in building clinically relevant tools and advancing precision medicine.