Posted: Dec 2, 2021

Bioinformatics Scientist-Computational Metabolomics/Exposomics

Biomarkers Core, Columbia University Irving Medical Center - New York, NY
Full-time
Application Deadline: N/A
Academic

Summary Description

The Biomarkers Core Laboratory at the Irving Institute for Clinical and Translational Research seeks a highly motivated bioinformatics scientist to join the untargeted metabolomics/exposomics team. This position will provide computational support to GC and LC-HRMS based profiling of endogenous and exogenous metabolites in support of precision medicine metabolomics and exposomics initiatives. This position focuses  on developing and implementing high-performance computational workflows, software platforms, and statistical data mining techniques for the multi-omic integration of metabolomics and exposomics to advance our understanding of environmental drivers of human health and disease. After an initial set-up period, this position will be eligible for hybrid work.

Job Responsibilities:

  • To develop and implement high throughput and efficient data processing pipelines and workflows using open source and commercial platforms to perform spectral processing, feature annotation, statistical analysis, data interpretation, and visualization.
  • Perform QC monitoring and routine bioinformatics analysis of large-scale, longitudinal LCMS and GCMS-based untargeted metabolomics datasets.
  • Design, develop and implement automation pipelines by integration of packages (R/Python/Java) to improve the analytical infrastructure for high throughput OMICS data analysis
  • Develop novel tools and bioinformatic strategies to address project-specific analytical challenges and provide custom solutions for metabolomics analysis.
  • Perform upgrades, maintenance, and troubleshooting of the R-based, in-house analytical platform, and the commercial software; Maintenance and upgrades of servers.
  • Perform data handling, record keeping, and archiving; prepare SOPs, documentation, reports, and Presentations.

Minimum Qualifications:

  • Bachelor's degree in specific in computational biology, bioinformatics, metabolomics, analytical chemistry, biochemistry, mass spectrometry or other related field.
  • 4-6 years of professional experience in bioinformatics and computational metabolomics is required.

Preferred qualifications:

  • Demonstrated experience in data analysis of large scale unbiased metabolomics studies (spectral pre-processing, QC monitoring, feature extraction, statistical analysis, and reporting)
  • Documented knowledge and experience with programming, machine learning, and multi-OMICS data processing.
  • Strong background in biological mass spectrometry, HRAM-LCMS and GCMS data handling, and spectral database construction.
  • Proficiency in one or more programming languages: Perl, Python, R, Java, C++;  experience in working with high-performance computing environments (AWS preferred)
  • Expertise in statistical and data mining techniques such as PCA, hierarchical clustering, ANOVA, SVM, and PLS; familiarity with pathway enrichment and network analysis
  • Excellent communication and presentation skills, as well as the ability to work in cross-functional teams
  • Ability to maintain effective working relationships with supervisors, researchers, staff, and other personnel.