Bioinformatics Associate Scientist

Overview:

WiredPeople is seeking to hire a Bioinformatics Associate Scientist to help support surveillance activities for pathogens of public health concern in Florida.

The Bioinformatics Associate Scientist will work directly with the Lead Bioinformatician to expand and support bioinformatics capacity in Florida and for the CDC AMD Southeast Region. 

Responsibilities: 

• Support next-generation sequencing (NGS) analysis and molecular surveillance of bacterial and viral pathogens of public health interest in Florida.
• Develop, maintain, and update bioinformatics pipelines for NGS analysis.
• Review and submit genomic data to the relevant public genomic databases.
• Develop customized data visualizations for genomic surveillance activities (e.g., using tools such as Nextstrain or other dashboards).
• Share and present genomic surveillance data to public health laboratory leadership, epidemiologists, and other state and national public health officials.
• Provide analytical support to research projects with government and academic partners.
• Provide training support to other state partners in the AMD Southeast Region related to WGS data analysis. This may include providing training through virtual office hours or webinars.
• Work directly with epidemiologists to provide molecular epidemiology support for NGS surveillance activities for bacterial and viral pathogens.
• Provide training to epidemiologists and other non-laboratory public health officials for NGS-related surveillance activities.
• Develop all training materials, including written protocols, recorded training videos, and webinars over various bioinformatics topics.
• Plan, organize and lead an annual bioinformatics workforce development training workshop provided to AMD Southeast Region jurisdictions.

Qualifications and Experience:

Required:

• Masters or PhD in bioinformatics, genetics, microbiology, molecular biology, computer science, or related field.
• Bioinformatics experience with microbiology and/or public health applications.
• Experience working in a UNIX/LINUX environment and writing shell scripts.
• Experience developing custom scripts and pipelines using standard bioinformatics tools for microbial genomics.
• Proficiency in at least one scripting/programming language (e.g., Python, Perl, R, C , Java) and willingness to learn new languages, if necessary.
• Experience using and submitting genomic data to NCBI databases.
• Excellent written and verbal communication and experience publishing relevant scientific literature.

Preferred:

• Experience with high-performance computing (HPC).
• Experience with or knowledge of Singularity or Docker.
• Experience using git/github.
• Experience developing workflows using a workflow language (such as Snakemake or Nextflow).
• Experience with pathogen genomics, including SARS-CoV-2 genomics.
• Experience (or interest in) building dashboards for displaying sequencing data.
• Experience teaching or tutoring genetics, bioinformatics, molecular biology, or related subject area.

WiredPeople provides equal employment opportunities (EEO) to all employees and applicants for employment without regard to race, color, religion, sex, national origin, age, disability, or genetics. In addition to federal law requirements, WiredPeople complies with applicable state and local laws governing nondiscrimination in employment in every location in which the company has facilities. This policy applies to all terms and conditions of employment, including recruiting, hiring, placement, promotion, termination, layoff, recall, transfer, leaves of absence, compensation, and training.