Bioinformatics Seminar
Time: 11:00am Tuesdays.
Venue:
Zoom Webinar
23 March 2021
Analysing cancer bulk sequencing data
Christoffer FlensburgWEHI Blood Cells & Blood Cancer
Majewski lab has over 7 years analysed about a hundred batches of cancer sequencing data. RNA-seq, exomes and genomes. Generated by our group, by collaborators or public data. Each one with it's own research question, experimental design and quality issues.
Over the years we have developed methods to answer our research questions, and many of them have been incorporated in our R package superFreq. The seminar is an overview of what we have learned over the years, with a focus on more recent developments. One topic will be copy number calling from RNA-Seq, which is doable and reliable for segments larger than a few tens of Mbps. We will also talk about the value of comparing matched samples, and how mutational signatures can be combined with clonal tracking to filter out noise, or to reveal relapse driving DNA-repair genes.