Sr. Clinical Bioinformatics Engineer

Sr. Clinical Bioinformatics Engineer

Los Angeles, California

Schedule:

Monday–Friday, 9:00 AM–5:00 PM.

This position offers a hybrid work arrangement, with the opportunity to work remotely up to 2 days per week.

The Sr. Clinical Bioinformatics Engineer serves as an expert who will lead the work on developing and utilizing new and existing computational tools and systems to assist with the analysis and interpretation of clinical data from various next generation sequencing based assays and other laboratory developed tests. The engineer will be able to use established workflows and software packages, develop customized pipelines, databases, and novel methodologies.

The role includes managing and mentoring junior bioinformatics engineers, leading and managing diverse cross-disciplinary teams, and providing research support to investigators, including training new users to use bioinformatics applications and databases.

• Demonstrated ability to manage multiple large-scale projects and overlapping deadlines and dependencies.
• Excellent communication skills, both written and verbal.
• Familiarity with publicly available databases such as HGMD, Clin Var, TCGA, ICGC, Ensembl, Refseq, UCSC, 1000 Genomes and ExAC.
• Capable of designing and executing large-scale projects and programs.
• Demonstrated ability to implement and understand complex algorithms.
• Ability to develop and implement methods/algorithms and integrate multiple tools and software resources into software solutions/pipelines.
• Familiarity with laboratory testing methods and genomic data is desired.
• Proficiency in various open source and commercially available bioinformatics resources, platforms and software.
• Ability to organize data and implement algorithms for the analysis of large-scale complex data sets including statistical tests, quality analysis, and machine learning, artificial intelligence, blockchain or natural language processing.

• Intermediate to advanced Linux background and bash scripting experience.
• Intermediate to advanced object-oriented programming and scripting language experience.
• Intermediate to advanced database development experience.
• Beginner to intermediate level experience with developing and deploying CI/CD pipelines.
• Intermediate to advanced experience with AWS services such as Code Pipeline, Code Commit, Fargate and Lambda.
• Intermediate to advanced HPC cluster experience and working with schedulers such as Slurm or LSF.
• Intermediate to advanced experience with a workflow definition language such as Nextflow.
• Intermediate to advanced containerization experience such as Docker or Singularity.
• Experience developing custom data processing pipelines for production environments.
• Experience developing web applications and dashboards desired.

Bachelor’s degree highly desired with 7+ years of related work experience, or master’s degree with 5+ years of related work experience. Advanced degree preferred.

USD $ – USD $.

CHLA is an Equal Opportunity Employer. We consider qualified applicants for all positions without regard to race, color, religion, creed, national origin, sex, gender identity, age, physical or mental disability, sexual orientation, marital status, veteran or military status, genetic information or any other legally protected basis under federal, state or local laws, regulations or ordinances. We will also consider for employment qualified applicants with criminal history, in a manner consistent with the requirements of state and local laws, including the LA City Fair Chance Ordinance and SF Fair Chance Ordinance.

Qualified applicants with disabilities are entitled to reasonable accommodation under the California Fair Employment and Housing Act and the Americans with Disabilities Act. Please contact CHLA Human Resources if you need assistance completing the application process.