Bioinformatician, Sr. Analyst – Duchossois Family Institute

Department
 

BSD DFI - Bioinformatics

About the Department
 

The Duchossois Family Institute (DFI) focuses on the role of commensal bacteria in enhancing disease resistance and is using genomic and metabolomic platforms to characterize the microbiome and its metabolites. Computational and bioinformatic expertise is required to understand how commensal bacteria impact human health. Bioinformaticians in the DFI perform genomic analyses including genome assembly and annotation and working with computation software programs to analyze microbial genome sequences and characterizing their metabolite utilization and secretion.

Job Summary
 

At the DFI, we rely on a dynamic team of bioinformaticians, data scientists, and programmers to handle our rapidly growing biomedical data and its analysis. The Bioinformatician, Sr. Analyst will work as part of the translational informatics team improving existing 16S rRNA, whole genome sequencing and Shotgun metagenomics/transcriptome pipelines, analyzing genomics and developing Web applications. The ideal candidate will work closely with clinical and laboratory investigators to analyze 16S rRNA and shotgun metagenomic sequences and use a range of statistical tests to compare microbiota and microbiome compositions in longitudinal and cross-sectional studies. In addition, the ideal candidate will also work closely with investigators to customize and perfect analytical Web applications being developed at the DFI.

Responsibilities

• Develop and maintain existing Web application to facilitate genomics data accessing and sharing.

• Plans own resources to implement or modify existing web-based bioinformatics tools.

• Participate in agile software development including design, implementation, and deployment.

• Works with the sequencing core at the DFI to understand the protocols and handle analysis of sequence data.

• Participate in the design and implementation process through sequencing data analysis and taxonomy classification.

• Data analysis of high throughput genomics, transcriptomics and genetic data.

• Implement and integrate existing suitable bioinformatics tools to current pipeline.

• Transfer abstract workflows into production level software by automating them using workflow orchestration tools such as Nextflow.

• Use existing HPC resources to run the analytical workflows at scaleSupport all phases of bioinformatics activities by helping devise or modify procedures to solve complex problems.

• Develop Python and JavaScript libraries for the visualization of microbiome/metagenome, metabolome and other biomedical datatypes generated at the DFI.

• Assist with the executions, tests and actively seeks project specific solutions.

• Work in collaboration with others working to complete projects in a timely and efficient manner.

• Assist in creating data algorithms and specialized computer software to identify and classify components of a biological system (e.g. DNA and protein sequences).

• Support the development of data models, databases or software applications.

• Produce, present and discuss high quality data analysis reports.

• Participate in the communication of results through scientific publications.

• Participates in creating data algorithms and specialized computer software to identify and classify components of a biological system (i.e. DNA and protein sequences).

• Applies basic application of computational tools and information technology to gather, analyze and visualize data in biology and biomedical research.

• Interprets data analysis of high throughput genomics, proteomics and genetic data.

• Plans own resources to implement or modify existing web-based bioinformatics tools.

• Performs other related work as needed.

Minimum Qualifications
 

Education:

Minimum requirements include a college or university degree in related field.

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Work Experience:

Minimum requirements include knowledge and skills developed through 2-5 years of work experience in a related job discipline.

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Certifications:

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Preferred Qualifications
 

Education:

• Degree in Biomedical Informatics, Bioinformatics, or Computational Biology.

• Master’s degree.

Experience:

• Experience working on the analysis of the microbiota and microbiome associated data sets with a range of different experimental and clinical samples.

• Extensive experience with bioinformatics tools/packages such as Mothur, QIIME, DADA2, Phyloseq, MEGAHIT, metaSPAdes, Metaphlan2, MG-RAST, HUMAaN2, Kraken, Bracken, and other