The position of Postdoctoral Fellow (PDF) in computational cancer genomics is immediately available at The Cancer Science Institute of Singapore (The National University of Singapore). This PDF will lead a newly funded project in the laboratory of Dr. Jason Pitt that will explore how germline genetics and cell-of-origin contribute to genomic instability (GI) in cancer (see Pitt et al. 2018 Nat Comms; Pitt et al. 2018 Cancer Cell; Wang & Pitt et al. 2019 Int J Cancer). The acquisition of GI by malignant cells is critical to cancer development and progression. However the magnitude and type of GI can vary widely across patients and cancer types. Delineating the underlying sources of GI will help identify novel therapeutic biomarkers (Pitt Hoppe & Jeyasekharan; PCT/SG2021/050105). The PDF will build upon our recently developed computational framework to derive dozens of GI scores and copy number signatures from tens of thousands of malignant samples. Using a multi-omic approach these scores will be associated with clinical genomic and cell-type specific features. Candidate genes/variants will be investigated experimentally using CRISPR-mediated isogenic cell lines.
ROLES AND RESPONSIBILITIES
Processing and management of public genomic data (WES RNAseq SNP array etc.)
Develop methods to estimate CN-based GI scores and signatures
Use innovative approaches to associate inherited variation with GI patterns
Determine the relationship between GI patterns and phenotypic features
Lead manuscript writing and software documentation
This position is for 2-3 years with the possibility of extension
PREFERENCES
Familiarity with copy number and mutation signature analysis
Experience using Amazon Web Services or high-performance computing
Proficiency with Unix-based systems
Experience with collaborative software development via github/gitlab
