Department
About the Department
Job Summary
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.---
Work Experience:
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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 others that are used in the analysis of metagenomic sequence data.
Experience with sequencing technologies used for metagenome sequencing and familiarity with metabolomics concepts.
Experience with microbial genomics and familiarity with microbial metabolic pathways.
Technical Skills or Knowledge:
Fluency with multiple programming languages with Python, R-script, SQL, JavaScript strongly preferred.
Experience with design and development of relational databases and RDBMS such as PostgreSQL, MySQL.
Experience working on Linux and/or Unix systems, bash scripting.
Experience with website development and administration is strongly preferred.
Working knowledge of container technologies/platforms such as Docker and Singularity.
Experience using HPC resources and technologies such as Slurm, PBS, Condor, etc., for high-throughput analysis of sequence data.
Experience with workflow technologies such as Nextflow, CWL, Galaxy and running pipelines at scale.
Knowledge of Cloud computing using AWS, Azure or Google Cloud a plus.
Proficiency with Git/Github.
Preferred Competencies
Must work closely with students, postdoctoral fellows, and faculty members.
Must pay great attention to detail and help investigators design studies that will provide useful and ultimately publishable data.
Must have flexibility in order to provide analyses that, in some circumstances, are required for grant or presentation deadlines.
Working Conditions
Office environment.
Application Documents
Resume (required)
Cover Letter (preferred)
When applying, the document(s) MUST be uploaded via the My Experience page, in the section titled Application Documents of the application.
Job Family
Role Impact
FLSA Status
Pay Frequency
Scheduled Weekly Hours
Benefits Eligible
Drug Test Required
Health Screen Required
Motor Vehicle Record Inquiry Required
Posting Statement
The University of Chicago is an Affirmative Action/Equal Opportunity/Disabled/Veterans and does not discriminate on the basis of race, color, religion, sex, sexual orientation, gender, gender identity, national or ethnic origin, age, status as an individual with a disability, military or veteran status, genetic information, or other protected classes under the law. For additional information please see the University's Notice of Nondiscrimination.
Staff Job seekers in need of a reasonable accommodation to complete the application process should call 773-702-5800 or submit a request via Applicant Inquiry Form.
We seek a diverse pool of applicants who wish to join an academic community that places the highest value on rigorous inquiry and encourages a diversity of perspectives, experiences, groups of individuals, and ideas to inform and stimulate intellectual challenge, engagement, and exchange.
All offers of employment are contingent upon a background check that includes a review of conviction history. A conviction does not automatically preclude University employment. Rather, the University considers conviction information on a case-by-case basis and assesses the nature of the offense, the circumstances surrounding it, the proximity in time of the conviction, and its relevance to the position.
The University of Chicago's Annual Security & Fire Safety Report (Report) provides information about University offices and programs that provide safety support, crime and fire statistics, emergency response and communications plans, and other policies and information. The Report can be accessed online at: http://securityreport.uchicago.edu . Paper copies of the Report are available, upon request, from the University of Chicago Police Department, 850 E. 61st Street, Chicago, IL 60637.
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