PhD Scholarship - Targeting transposable elements in cancer @ SAiGENCI and University of Adelaide
Employer: SAiGENCI
Closing date: 30/09/2024
Brief position description:
Transposable elements (TEs), also known as “jumping genes” are repetitive genomic elements that represent almost half of the human genome. While the majority of TEs in the human genome have lost the ability to transpose, their sequences hold a significant regulatory potential. TEs contain binding sites for transcription factors (TFs), enabling them to function as alternative promoters or enhancers regulating the gene expression. TEs are frequently activated during tumorigenesis, promoting oncogenic gene expression. While some TEs have been previously documented to contribute to gene deregulation in cancer, a comprehensive view of the regulatory landscape of TEs in cancer remains incomplete. This project will leverage large pan-cancer transcriptome, epigenome, and 3D genome datasets to carry out a comprehensive study of the contribution of TEs to the regulatory cancer genome.
Ideally, we are seeking a candidate with prior research experience in NGS data processing and analyses, and knowledge of at least one computational language (e.g., Python, R). Datasets you will have access to include ATAC-seq, RNA-seq Hi-C, ChIP-seq/CUT&RUN, Nanopore, and single-cell data. We have access to HPC to streamline any large data processing and machine learning applications.
Interested candidates, please email a cover letter explaining your interest in the position and relevant experience along with a CV and transcripts to joanna.achinger@adelaide.edu.au.
Contact name: Joanna Achinger-Kawecka
Contact email: joanna.achinger@adelaide.edu.au