Position Summary: Our engineering team specializes in developing a fast and accurate FPGA-accelerated platform called DRAGEN, for the secondary analysis of NGS genomic data. The platform covers a wide range of pipelines, WGS and targeted (enriched/amplicon) germline, WGS and targeted somatic (T/N and tumor-only), DNA/RNA, small variants, CNV and structural variants. As DRAGEN is increasingly adopted as the pipeline of choice for clinical studies and oncology routine tests, we are looking to expand the team with candidates with extensive knowledge in cancer bioinformatics and how to utilize genomics data for cancer patient diagnostics, prognosis and treatment selection. Activities are multi-fold: 1) algorithm design of analysis methods to discover variants and biomarkers, 2) lead reproducibility studies and other analysis to assist in regulatory applications, 3) product development related activities (product-grade code development, testing). The ideal candidate will be able to contribute both to the algorithm design based on statistics background, and contribute to the software code base, based on proficient C/C++ programming skills. Knowledge of the regulatory application process is a plus. Our team develops DNA/RNA analysis solutions for use by researchers and clinicians worldwide, which provide sample-to-answer pipelines with high reliability, speed, and completeness of results. The applications are many, from rare and undiagnosed inherited diseases, to population-scale genetics, to cancer. Responsibilities: Algorithm development – Design, prototype and implement computational algorithms for analysis of vast amount of studies (e.g. detection of genomic variants) across various data types and platforms for translational research and clinical applications. Data analysis – apply best practice statistical/computational methods to analyze large-scale biological data, such as gene expression, copy-number, mutation, methylation, next-generation sequencing, cancer biomarkers, etc. in a fast-paced product development environment. Product development – Implement algorithms in production-grade C/C++ software. Collaborate deeply with inter-disciplinary teams (QC/QA test teams, FPGA teams, SW teams, clinical genomics teams) as the platform has many different end-users with different requirements and applications to ensure a smooth, end-to-end workflow with external organizations. Required Skills and Experience: PhD in Bioinformatics, Computational Biology, Biostatistics, Computer Science Expert knowledge on current bioinformatics/genomics/proteomics resources available at NCBI, Ensembl, UCSC, Broad Institute, etc. Deep knowledge in cancer biology, immuno-oncology and NGS assay development Expert in C/C++/C#, and/or Python, R, high performance computing Strong experience in statistics, data analysis and pipeline development Ability to contribute independently and collaboratively, and to excel in a fast-paced environment Superior written and verbal communication skills Desired Skills and Experience: Background in oncology or clinical experience Experience with secondary analysis of human whole-genome sequencing data. Experience with using version control systems such as git Experience with cloud computing, parallel computing, and big data. When you join the high-performing team at Illumina, your work takes on new meaning. Our growth, our positive culture, and the impact our products are having in the world ignite a passion that drives our people forward. And together, we accomplish beyond expectations. At Illumina, we strive to foster a diverse and inclusive workplace by cultivating an environment in which everyone contributes to our mission. Built on a strong foundation, Illumina has always been rooted in openness, collaboration, and seeking alternative views and perspectives to propel innovation in genomics. We are proud to confirm a zero-net gap in pay, regardless of gender, ethnicity, or race. We also have several Employee Resource Groups (ERG) that deliver career development experiences, increase cultural awareness, and demonstrate our collective commitment to diversity and inclusion in the communities we live and work. We are proud to be an equal opportunity employer committed to providing employment opportunity regardless of sex, race, creed, color, gender, religion, marital status, domestic partner status, age, national origin or ancestry, physical or mental disability, medical condition, sexual orientation, pregnancy, military or veteran status, citizenship status, and genetic information. If you require accommodation to complete the application or interview process, please contact accommodations@illumina.com. To learn more, visit: https://www.dol.gov/ofccp/regs/compliance/posters/pdf/eeopost.pdf
