University of Colorado Anschutz Medical Campus

Department of Pediatrics | Section of Genetics & Metabolism

Job Title: Research Services Information Sciences Entry Professional

Position #: '00824589 - Requisition #: 34099

Job Summary:

The Breuss laboratory (breusslab.org) at the University of Colorado Anschutz Medical Campus welcomes applications for a part-time (50%) Bioinformatician (or Computational Biologist). The Breuss laboratory is focused on employing and developing statistical machine learning, bioinformatic algorithms, and related approaches for the detection of genomic mosaicism and the assessment of cellular states. We aim to use large-scale genomics of individuals or populations to discover general principles of genomic mosaicism and its impact on human health. The hired talented Bioinformatician will employ and develop approaches to further the research of the laboratory under the guidance of the principal investigator.

Key Responsibilities:

70% - Develop, retrain, and apply advanced computational pipelines, including machine learning and convolutional neural networks, to further innovative genomic research

• Develop, retrain, and implement machine-learning-based (e.g., MosaicForecast) and convolutional neural network-based (e.g., DeepMosaic) classifiers on genomic data in an HPC environment.
• Write (i.e., code) and optimize high-performance computing (HPC) pipelines (e.g., Slurm scripts, Snakemake processes) to enable large-scale data processing and integrate the developed tools with toolkits to process genomic data.
• Write and apply customized scripts (e.g., shell scripts, python algorithms) to support the aforementioned work.

20%- Manage/maintain the laboratories raw and processed data, documentation of pipelines (internally and externally, e.g., GitHub), and access to these resources

• Maintain the internal and external computational pipeline repositories (e.g., GitHub) and SOPs related to HPC usage and data processing.
• Develop data management strategies for all projects that are run within the HPC environment.
• Perform regular checks of the HPC infrastructure (e.g., PetaLibrary storage, Blanca nodes) to ensure that adequate resources are available for the laboratory's current and projected needs.

5% - Contribute to manuscripts for publication and participate in regular lab meetings and scientific activities

• Provide overview and quality control figures, data tables, and publishable pipelines for scientific manuscripts.
• Present updates on the computational pipelines and data processing progress to the lab members in lab meetings.

5% - Communicate with the investigator, other team members, and external collaborator

• Participate in meetings that discuss data processing and pipeline development with the principal investigator and team members.
• Communicate with external collaborators (and service providers) about issues regarding the HPC infrastructure and collaborations that employ it.

Work Location:

Hybrid - at 0.5 FTE this role is eligible for a hybrid schedule of 1-2 days per week on campus and as needed for in-person meetings.

Why Join Us:

The Breuss laboratory is located in the Department of Pediatrics in the Section of Genetic and Metabolism on the Anschutz Medical Campus. We are part of a thriving research environment and are working at the cutting edge of genome biology and genetic mosaicism.

The University of Colorado offers a comprehensive benefits package that includes health insurance, life insurance, retirement plans, tuition benefits, ECO pass, paid time off - vacation, sick, and holidays and more. To see what benefits are available, please visit: https://www.cu.edu/employee-services/benefits-wellness.

The University of Colorado offers a comprehensive benefits package that includes health insurance, life insurance, retirement plans, tuition benefits, ECO pass, paid time off - vacation, sick, and holidays and more. To see what benefits are available, please visit: https://www.cu.edu/employee-services/benefits-wellness.

Diversity and Equity:

The University of Colorado Anschutz Medical Campus is committed to recruiting and supporting a diverse student body, faculty and administrative staff. The university strives to promote a culture of inclusiveness, respect, communication and understanding. We encourage applications from women, ethnic minorities, persons with disabilities, persons within the LGBTQ+ community and all veterans. The University of Colorado is committed to diversity and equality in education and employment.

Qualifications:

Minimum Qualifications:

• Bachelor's degree in Bioinformatics, Biostatistics, Computational Biology, Data Science, Computer Science, or related field

Applicants must meet minimum qualifications at the time of hire.

Preferred Qualifications:

• Demonstrated experience employing Python packages
• Demonstrated experience working with Linux, including shell scripting.
• Demonstrated experience using an HPC environment.
• Demonstrated experience working with bioinformatic data
• Demonstrated experience with genomic mosaicism analysis.
• Demonstrated experience with genomic data processing at scale.

Knowledge, Skills and Abilities:

• Understanding of basic and advanced concepts in genetics and genomics.
• Demonstrated fluency in one or more programming languages (e.g., R, Python, C++) and willingness to learn new ones as necessary.
• Ability to communicate effectively, both in writing and orally.
• Ability to establish and maintain effective working relationships with employees at all levels throughout the institution.
• Demonstrated commitment and leadership ability to advance diversity and inclusion.

How to Apply:

For full consideration, please submit the following document(s):

1. A letter of interest describing relevant job experiences as they relate to listed job qualifications and interest in the position
2. Curriculum vitae / Resume
3. Three to five professional references, including name, address, phone number (mobile number if appropriate), and email address

Questions should be directed to: Martin Breuss, martin.breuss@cuanschutz.edu

Screening of Applications Begins:

Immediately and closes 5 days after posting

Anticipated Pay Range:

The starting salary range (or hiring range) for this position has been established as $25,432 - $32,349

The above salary range (or hiring range) represents the University's good faith and reasonable estimate of the range of possible compensation at the time of posting. This position may be eligible for overtime compensation, depending on the level.

Your total compensation goes beyond the number on your paycheck. The University of Colorado provides generous leave, health plans and retirement contributions that add to your bottom line.

Total Compensation Calculator: http://www.cu.edu/node/153125

ADA Statement:

The University will provide reasonable accommodations to applicants with disabilities throughout the employment application process. To request an accommodation pursuant to the Americans with Disabilities Act, please contact the Human Resources ADA Coordinator at hr.adacoordinator@cuanschutz.edu.

Background Check Statement:

The University of Colorado Anschutz Medical Campus is dedicated to ensuring a safe and secure environment for our faculty, staff, students and visitors. To assist in achieving that goal, we conduct background investigations for all prospective employees.

Vaccination Statement:

CU Anschutz strongly encourages vaccination against the COVID-19 virus and other vaccine preventable diseases. If you work, visit, or volunteer in healthcare facilities or clinics operated by our affiliated hospital or clinical partners or by CU Anschutz, you will be required to comply with the vaccination and medical surveillance policies of the facilities or clinics where you work, visit, or volunteer, respectively. In addition, if you work in certain research areas or perform certain safety sensitive job duties, you must enroll in the occupational health medical surveillance program.