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A cover letter is required for consideration for this position and should be attached as the first page of your resume. The cover letter should address your specific interest in the position and outline skills and experience that directly relate to this position.

Job Summary

The bioinformatician is primarily responsible for the development, implementation, validation, continual improvement, and maintenance of the clinical Next-Generation Sequencing (NGS) data analysis pipeline for analyzing targeted gene panels, whole exomes, and whole genomes. Additionally, the individual uses a variety of clinical databases for internal data archiving, retrieving, querying, categorizing and storage functionality.  

Mission Statement

Michigan Medicine improves the health of patients, populations and communities through excellence in education, patient care, community service, research and technology development, and through leadership activities in Michigan, nationally and internationally.  Our mission is guided by our Strategic Principles and has three critical components; patient care, education and research that together enhance our contribution to society.

Why Join Michigan Medicine?

Michigan Medicine is one of the largest health care complexes in the world and has been the site of many groundbreaking medical and technological advancements since the opening of the U-M Medical School in 1850. Michigan Medicine is comprised of over 30,000 employees and our vision is to attract, inspire, and develop outstanding people in medicine, sciences, and healthcare to become one of the world’s most distinguished academic health systems.  In some way, great or small, every person here helps to advance this world-class institution. Work at Michigan Medicine and become a victor for the greater good.

What Benefits can you Look Forward to?

  • Excellent medical, dental and vision coverage effective on your very first day
  • 2:1 Match on retirement savings

Responsibilities*

  • Writes code and scrips for NGS analysis or other programs and databases as needed.
  • Installs, tests, and validates various bioinformatics tools, both open source (BWA, GATK, Pindel, Scalpel, Conifer, Viscap, etc.) and commercial (CLC genomics workbench from Qiagen, varSEQ from Golden Helix, etc.) and integrates bioinformatic tools into our clinical NGS analysis pipeline.
  • Automates the clinical NGS analysis pipeline to 1) perform quality control, mapping of reads to reference genome, local realignment and variants calling (SNPs, Indels and CNVs) 2) report annotations for variants from public variant databases: ANNOVAR, HGMD, OMIM, ClinVar, ExAC, gnomAD, CADD, dbSNP, UCSC, etc. and 3) filter the variants to report clinically relevant variants for review.
  • Improves the NGS pipeline in consultation with the laboratory director and lab members. Organizes and documents version control changes with each new version release.
  • Write protocols, validations, and documentation for NGS pipeline. 
  • Organizes and accurately documents each script, program, or database.
  • Uses Linux command line, Bash and Perl programming methods to analyze NGS data when needed.
  • Changes file formats (awk), gets specific information from data (grep), modifies data (sed), visualizes data (IGV, R, UCSC genome browser, CLC genomics workbench), etc.
  • Maintains MMGL’s website
  • Runs clinical NGS pipeline analysis when needed.
  • Performing custom research NGS analysis when required.
  • Able to work in a clinical laboratory environment and adhere to all clinical laboratory guidelines and regulations.
  • Works independently and coordinate multiple projects.
  • Maintains the validated version of the pipeline on each NGS analysis computer in production.
  • Maintains software and hardware inventories that are part of the NGS pipeline.
  • Trains staff, residents, and directors on how to run the NGS pipeline.
  • Attends weekly laboratory meetings and presents topics when needed.

Required Qualifications*

Qualifications Required:

  • Minimum of a Bachelor degree in Bioinformatics, Computer Science, Computational Biology, or related specialty. A Master’s degree is weighed more heavily.
  • Minimum one-year programing experience or a Master’s degree; additional experience and/or clinical experience will be weighed more heavily.
  • Proficient in extracting and analyzing data from GenBank and/or other relevant DNA sequencing databases.
  • Proficient with the use of the following programming languages: Python, Perl, Snakemake, Java, SQL, or other relevant programming languages.
  • Experience with NextGen sequencing analysis. Clinical analysis experience is weighed more heavily.
  • Excellent professional and interpersonal communication skills demonstrated through describing your scientific experiences and achievements.
  • Excellent organizational skills and a strong work ethics.
  • Ability to work independently or as a member of our team.
  • Excellent attendance, ability to prioritize effectively and exercise good judgment.  

Background Screening

Michigan Medicine conducts background screening and pre-employment drug testing on job candidates upon acceptance of a contingent job offer and may use a third party administrator to conduct background screenings.  Background screenings are performed in compliance with the Fair Credit Report Act. Pre-employment drug testing applies to all selected candidates, including new or additional faculty and staff appointments, as well as transfers from other U-M campuses.

Application Deadline

Job openings are posted for a minimum of seven calendar days.  The review and selection process may begin as early as the eighth day after posting. This opening may be removed from posting boards and filled anytime after the minimum posting period has ended.

U-M EEO/AA Statement

The University of Michigan is an equal opportunity/affirmative action employer.

 

U-M COVID-19 Vaccination Policy

COVID-19 vaccinations are now required for all University of Michigan students, faculty and staff across all three campuses, including Michigan Medicine.  This includes those working or learning remotely.  More information on this policy is available on the Campus Blueprint website or the U-M Dearborn and U-M Flint websites.