Responsibilities:

  • Develop analysis workflows from existing algorithms or modify existing methods to analyze NGS data in Research, Analytical Genomics, Translational/Clinical Science, and Technical Operations. This includes development of novel Bioinformatics methods as needed to answer platform and biological questions to meet company objectives. Demonstrate validity of methods through prototypes and benchmarking using appropriate controls
  • Partner with internal stakeholders to design and analyze NGS experiments to provide quantitative information in cell and gene therapy and immunology
  • Identify, integrate, and analyze public datasets and databases (e.g. NGS, single cell, genetics) within the provided Sana infrastructure to answer critical questions to meet the goals of the Analytical Genomics & Translational Bioinformatics group; this will be performed in collaboration with the Computational Biology team in Cambridge
  • Proper documentation of code, workflows, and analyses including study reports for nonclinical and clinical studies
  • Work within the Bioinformatics/Computational Biology groups to review and test code, and refactor prototype workflows to production grade as necessary
  • Work cross functionally with scientists to design studies that are appropriately powered with the proper controls to meet experimental and business objectives
  • Closely collaborate with the Computational Biology group in Cambridge to share analysis workflows
  • Communicate to a broad audience with a range of technical, analytical, and biological expertise and present results on a regular basis at various group meetings

Requirements

  • Industry experience or PhD in computational biology, bioinformatics, or related discipline
  • 3+ years of hands-on experience with all steps of large-scale DNA- and RNA-Seq data analysis (FASTQ through variant calling and/or differential expression including QC) on an Illumina platform
  • Demonstrated proficiency in Python and R
  • 3+ years of experience with current bioinformatics tools such as STAR, SAMtools, Voom, edgeR/DESeq2, and kallisto/salmon
  • Experience with high performance computing (local or cloud) and proficiency in *ix
  • Routine use of version control (e.g. git, svn)
  • Strong prior experience with analyses of various library prep protocols for the Illumina platform
  • Demonstrated strong problem solving abilities and organizational skills
  • Must be detail oriented, self-motivated, flexible, and able to prioritize and manage several fast-paced projects concurrently
  • Outstanding verbal and written communication skills for technical and non-technical audiences
  • Demonstrated ability to work in cross-functional teams as a strong team player as well as independently

Other Qualifications

  • Prior experience with single-cell sequencing analysis (e.g. Cell Ranger, Seurat, bustools plus kallisto) is a significant plus
  • Background in gene or cell therapy, immunology and/or cell biology
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