The role of differential splicing in the genesis of breast cancer

The role of differential splicing in the genesis of breast cancer

Project details

Many or most genes can be expressed in a variety of transcript forms by splicing together the gene's exons in different ways. Using RNA-seq profiles of from breast cancer patients, laboratory models and patient-derived xenografts, this project will use new statistical techniques for detecting differential splicing and for assessing differential expression at the transcript level to understand the genesis of breast cancer. The project will include scope for developing new bioinformatics methodology as required.

About our research group

Professor Smyth's research Lab has a history of developing new statistical techniques for the analysis of genomic data that are widely used or have become accepted international standards. Members the group typically have backgrounds in mathematics, statistics, computer science, genetics, engineering or physics. The group has developed a number of well-known software packages including limma, edgeR, goseq, Rsubread, csaw and diffHic, goseq. Professor Smyth's Lab has a long-standing collaboration with Profs Visvader and Lindeman on the genesis and treatment of breast cancer, leading to 25 journal articles so far (for example (Shackleton Nature 2006 439: 84-88; Lim Nature Medicine 2009 15:907-913; Asselin-Labat Nature 2010 465:798–802; Pal Nature Communications 2017 8(1):1627).


Professor Gordon Smyth

Professor Gordon Smyth writing on a whiteboard
Joint Division Head
Dr Yunshun Chen
Bioinformatics division

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