Dissecting Transposable Elements Contribution to Oncogenic Transcription in Colorectal Cancer University of Adelaide in Australia

This PhD opportunity at the University of Adelaide, hosted by the South Australian immunoGENomics Cancer Institute, focuses on dissecting the contribution of transposable elements (TEs) to oncogenic transcription in colorectal cancer. The project addresses a fundamental question in cancer biology: how do genetic mutations and epigenetic alterations drive tumorigenesis? Recent research highlights the significant role of TEs—remnants of ancient viral infections that now comprise over half of the human genome—in shaping gene regulatory networks and influencing transcriptional landscapes in both development and disease.

Once considered 'junk' DNA, TEs are now recognized as functional genomic elements capable of acting as alternative promoters or enhancers, reshaping local epigenetic states, influencing cell identity, and activating innate immune signaling pathways. Despite their abundance and regulatory potential, the role of TEs in cancer remains poorly understood, largely due to the technical challenges posed by their repetitive nature. However, advances in long-read sequencing technologies, such as Oxford Nanopore, have revolutionized the study of these elements, enabling accurate identification and functional characterization of individual TE insertions.

This project will leverage long-read sequencing on primary colorectal cancer samples sourced from the Flinders Bowel Health Service Biobank, as well as in vitro colorectal cancer organoid models. The aim is to elucidate how TEs regulate oncogenic transcriptional programs and contribute to the transition from normal colorectal epithelium to malignant disease. The research integrates cutting-edge genomics, bioinformatics, and molecular genetics approaches, offering students the chance to work at the forefront of cancer genomics and epigenetics.

Applicants should have a strong background in biology, genetics, bioinformatics, or a related discipline, with experience in molecular biology techniques and/or genomics analysis highly desirable. The ability to work independently and collaboratively, as well as strong communication skills, are important. International candidates may need to provide evidence of English language proficiency. Funding details are not specified; applicants are encouraged to inquire directly with the supervisor or institution.

Applications are accepted year-round. To apply, prepare a CV, academic transcripts, and a cover letter outlining your research interests and suitability for the project. For further information, contact Dr J Achinger-Kawecka or visit the project page.