Goldbelt C6, LLC is seeking a Bioinformatics III to support the Surveillance Branch. This opportunity is in the Division of Healthcare Quality Promotion (DHQP) of the National Center for Emerging and Zoonotic Infectious Diseases (NCEZID).
ESSENTIAL JOB FUNCTIONS:
Maintain, de-bug, execute and improve bioinformatics tools and pipelines used in-house, including implementation of workflow manager programs (e.g., nextflow)
Build new bioinformatics tools and pipelines as appropriate, including creating containers for applications (e.g., docker, singularity)
Maintain updated git account documenting scripts and programs.
Analyze sequence data from scientific projects and programs of bacterial isolates using appropriate programs and bioinformatics tools and pipelines, including:
Quality assessment of next generation sequence data
Analyses for identification and subtyping of healthcare-associated and emerging bacterial pathogens
Identify, validate, and implement methods and procedures to analyze next generation sequencing data, including methods for characterization and phylogenetic analyses and adjustments in methods and procedures as appropriate.
Coordinate sequence data sharing with requestors and collaborating laboratories.
Manage incoming sequence data for processing, documentation, tracking, and inventory as needed.
Integrate laboratory (conventional and next generation), clinical, and epidemiologic data generated to provide analyses of data from healthcare-associated infection and other emerging pathogen studies and investigation.
Upload sequence data (raw reads and/or assemblies, as appropriate) to public databases (e.g., NCBI) under timelines established by the SME/project leads or Team Leads.
Develop new and improved concepts, principles, and techniques that will advance the body of knowledge of information management.
Apply advanced computer science methods and techniques to solve complex computer processing requirements for data analysis, inventory management and clinical system interface.
Enhance existing data systems; edit, proofread, and critique team members in a professional manner.
NECESSARY SKILLS & EXPERIENCE:
Highly proficient or possess extensive experience with Bash (no exceptions)
Highly proficient or possess extensive with Python (no exceptions)
Must be proficient with common bioinformatics open-source tools (e.g., samtools, bcftools, bwa-mem), HPC (high performance computing), and NCBI.
Proficient with tools to elucidate mobile genetic elements from short read data (e.g., PlasFlow).
Self-motivated with a strong attention to detail and accuracy.
Fluent English in written, verbal, and interpersonal exchanges.
Bachelor’s degree in Biostatistics, Statistics, Epidemiology, Public Health, or related field.
3 – 8 years’ relevant experience in a Bioinformatics role.
Master’s degree in Biostatistics, Statistics, Epidemiology, Public Health, or related field.
Experience with Oxford Nanopore technology (e.g., MinION) platform bioinformatics analyses.
Experience with nextflow or other workflow manager programs, creating containers for applications (e.g., docker, singularity), Git (i.e., GitLab, GitHub), frameworks for storing and processing large data sets (e.g., Hadoop).
Experience with tools to elucidate mobile genetic elements from short read data (e.g., PlasFlow).