Bioinformatics Seminars

Bioinformatics Seminar

Time: 11:00am Tuesdays.
Zoom Webinar

23 March 2021

Analysing cancer bulk sequencing data

Christoffer Flensburg
WEHI 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.

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