Ambys Medicines is a cell and gene therapy company focused on discovering and developing regenerative and restorative therapies for patients with advanced liver disease. Ambys is pioneering the application of cell and gene therapy to meet the urgent need for novel treatments for those suffering from severe acute and chronic liver diseases. Ambys was launched in 2018 by Third Rock Ventures and Takeda Pharmaceuticals and is headquartered in South San Francisco, California.
We are seeking a highly motivated and accomplished scientist to lead our Bioinformatics initiatives to build and sustain custom software in the Computational Biology group; apply computational tools to mine both public and proprietary databases; and utilize molecular, clinical, and genetic data to identify pathways relevant to liver disease and/or discover novel biomarkers. In this position, you will be responsible for leading a small team and for establishing and maintaining the appropriate infrastructure to facilitate the acquisition and analysis of next generation sequencing such as whole genome, RNA-seq, and scRNA-seq data.
What you will do:
- Curate, process, and analyze massive multi-omic datasets in the cloud
- Develop and deploy robust and reproducible data processing and analysis workflows
- Provide expertise and guidance for data analysis and experiments
- Play a key role in developing a robust target discovery platform
- Work closely with the research and development groups to provide bioinformatics, clinical informatics, and statistical support to the biology discovery and translational medicine research
- Ph.D. in Bioinformatics or Statistics and a strong background and interest in data science, software engineering, genomics and genetics and a world-class publication record and significant experience with next-generation sequence analysis, multi-omics data analysis, algorithm development and clinical data analysis
- More than 5 years’ experience in computational biology and bioinformatics focused on NGS applications including RNA-Seq, transcriptomics, single cell analysis, genome variation, etc.
- In-depth knowledge of NGS genomic data analysis and bioinformatics tools (BWA, SamTools, GATK, FreeBayes, MuTect, VarScan etc.) and current data formats (e.g. VCF, BAM/SAM); deep understanding of data QC metrics
- Experience with relational/noSQL databases and AWS compute environment and data products
- Significant programming experience for data-intensive tasks (Python, R, Unix, Julia, Java, Git, Docker)
- Workflow management experience (Cromwell, Nextflow, Luigi)
- Excellent communication skills and ability to present and interpret results to the scientific and clinical teams and document the impact of bioinformatics work on company decisions in order to prioritize future work using digital notebooks (RMarkdown or Jupyter)
- Experience in library-based human genome screening studies and have a good understanding of the procedures involved in generating samples for NGS-based sequencing analyses
- Capable of querying public and proprietary databases to evaluate potential gene targets and identify genetic modifiers of disease
- Cell or gene therapy experience is desirable, particularly, expertise in early phase non-clinical study design
- Extensive management experience with a proven ability to promote collaborations with scientists in discovery, pre-clinical, and translational programs to design experiments and analyses