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The Dana Tsui Laboratory currently has an opportunity for a Bioinformatics Technician or Computational Biologist to take part in state-of-the-art cancer research and work as an integral part of a dynamic cancer research team studying important translational questions.
The successful candidate will participate in projects to: (1) develop analysis pipeline for next-generation sequencing (NGS) assays to profile circulating tumor DNA (ctDNA) from body fluids and (2) evaluate its utility in different solid cancer types across adult and pediatric cancers (3) study the biological characteristics of circulating tumor DNA in body fluids.
For (1), the types of assays we develop include targeted DNA sequencing, exome sequencing, whole genome sequencing, or DNA methylation, depending on tumor types and the genomic coverage/detection sensitivity required for different clinical questions. Prior experience on analysis of NGS assays is necessary, preferably on data generated from FFPE or body fluids (plasma, urine, saliva, cerebrospinal fluid CSF) in pregnancy or pathological conditions (not limited to cancer). Basic understanding of the sequencing library preparation workflow (different molecular strategies, such as capture, targeted etc) is preferable.
For (2 and 3), we work with clinical trial teams and research groups specialized in a variety of solid tumors across MSKCC to address different questions (examples here – we collect longitudinal samples and aim to compare ctDNA dynamics with clinical responses to evaluate its utility in guiding treatment decision. Experience on data analysis related to calling variants (point mutations / indel / structural rearrangement / copy number changes) or bisulfite DNA methylation (any of the above) will be necessary. Basic understanding of cancer genomics will be preferable.
The development of analysis pipeline will be a jointed effort with the computational team(s) of the Innovation Laboratory of the Center for Molecular Oncology and the Diagnostic Molecular Pathology Laboratory. Clinical evaluation will be done in close collaboration with individual research groups and clinical trials teams. The ideal candidate will be a team-player with excellent communication and interpersonal skills.
Experience with one or some of the following would be helpful: fluency with UNIX, next generation (Next-gen) sequencing data analysis using, GATK, BWA, Picard, and Bio-conductor.
MSK is an equal opportunity and affirmative action employer committed to diversity and inclusion in all aspects of recruiting and employment. All qualified individuals are encouraged to apply and will receive consideration without regard to race, color, gender, gender identity or expression, sexual orientation, national origin, age, religion, creed, disability, veteran status or any other factor which cannot lawfully be used as a basis for an employment decision.
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