Bioinformatics Analyst II - Seibold Lab - National Jewish Health

The Seibold Laboratory is a cutting-edge, NIH funded, laboratory focused on elucidating the pathobiological basis of asthma and other complex lung and allergic diseases. Our goal is to discover pathobiological subgroups of disease (termed disease endotypes) and the genetic, environmental, and immune factors driving their development. We are accomplishing these goals through the integration of genomic endotyping studies of large patient cohorts with in vitro mechanistic studies of human organoid culture models. Ultimately, we will leverage the information gained from our research to develop precision medicine approaches for the diagnosis, management, and treatment of these diseases. The Seibold Laboratory is composed of a multi-disciplinary team of "wet lab" cell, airway, and molecular biologists integrated with "dry lab" computational biologists, bioinformaticians, and statistical geneticists.

To learn more about the lab, please visit: https://www.seibold-lab.com.

We are seeking a Bioinformatics Analyst II to join the Seibold Lab team, with a background in bioinformatics, computer science, computational biology, biostatistics, or statistical genetics to join our team. The successful candidate will participate in studies that use high-throughput bulk and single-cell expression data to explore the molecular pathways of disease as well as eQTL and other omics data to elucidate the genetic and functional basis of these disease pathways. Working on these projects will involve the coding and implementation of pipelines and workflows, data management, statistical analysis, data visualization and communication, and method exploration and development, as the projects demand. The candidate will also contribute to the construction and writing of manuscripts for publication. As such, the applicant should have prior experience in the programming of high-throughput data analysis, strong communication skills, and an ability to collaborate with a broad and diverse team of reseearchers

Successful candidates in the Bioinformatics Analyst II position will have:

• Bachelor of Arts (BA) or Bachelor of Science (BS) required in bioinformatics, biostatistics or computer science or related field
• Proven experience writing custom scripts and using standard bioinformatics tools, packages, algorithms, and databases to analyze high-throughput genetic and genomic data
• Experience in shell scripting and in working in UNIX/LINUX environments
• Experience analyzing data using high-performance computing
• Demonstrated fluency in one or more programming languages (e.g., R, Python, Perl, Java, C++) and willingness to learn new programming languages as necessary
• Familiarity with statistical analytical concepts and methods
• Proven track-record in project development/management and ability to work on multiple projects concurrently, both in a collaborative team and independently
• Excellent written and verbal communication
• Effective judgment and problem solving with little supervision
• Motivation and commitment to biomedical research

Preferred Skills:

• Masters or Ph.D. in Bioinformatics, Computer Science, Statistical Genetics, Computational Biology, or a related field
• Experience processing and analyzing bulk RNA-sequencing data (e.g., HISAT2, HTSeq, Samtools, DESeq2)
• Experience processing and analyzing single-cell RNA-sequencing data (e.g., Cell Ranger, Seurat, Monocle)
• Experience in eQTL mapping (e.g, FastQTL, Matrix eQTL)
• Experience in dimensionality reduction, clustering, and network analysis (PCA, hierarchical clustering, WGCNA, topic modeling)
• Experience with pathway analysis (e.g., IPA, Enrichr, GAGE)
• Experience working in the field of airway disease, particularly asthma

For questions please contact Dr. Max A. Seibold, seiboldm@njhealth.org.

Position Summary
Provides advanced bioinformatics support to scientists.

Essential Duties

1. Collaborates with and supports scientists in the area of bioinformatics analysis.
2. Assists with the design and development of major bioinformatics-related programming projects.
3. Writes custom scripts to access databases and analyze data.
4. Writes custom web tools for scientists.
5. Assists with the preparation and teaching of courses and/or demonstrations on the use of bioinformatics tools.
6. Interprets complex biological information. Performs tasks to reduce and consolidate output from software. Prepares data for utilization by other scientists.
7. Develops and uses gene/protein functional annotation tools and programs.
8. May develop and maintain searchable databases.
9. May direct and guide DNA, RNA, small molecule, and protein sequence database searches and the computational analysis of resulting data.
10. Uses version control and other reproducible research practices.
11. Writes sections for reports and other dissemination of research methods and findings.

Competencies

1. Accountability: Accepts full responsibility for self and contribution as a team member; displays honesty and truthfulness; confronts problems quickly; displays a strong commitment to organizational success and inspires others to commit to goals; demonstrates a commitment to National Jewish Health.
2. Attention to Detail: Accomplishing tasks by considering all areas involved, no matter how small; showing concern for all aspects of the job; accurately checking processes and tasks; being watchful over a period of time. Setting high standards of performance for self and others; assuming responsibility and accountability for successfully completing assignments or tasks; self-imposing standards of excellence rather than having standards imposed.
3. Collaboration/Teamwork: Cooperates with others to accomplish common goals; works with employees within and across his/her department to achieve shared goals; treats others with dignity and respect and maintains a friendly demeanor; values the contributions of others.
4. Informing and Communicating: Clearly conveying information and ideas through a variety of media to individuals or groups in a manner that engages the audience and helps them understand and retain the message.
5. Initiative: Taking prompt action to accomplish objectives; taking action to achieve goals beyond what is required; being proactive.
6. Managing Work and Time/Project Management: Effectively managing one’s time and resources to ensure that work is completed efficiently. Effectively manages project(s) by appropriately focusing attention on the critical few priorities; effectively creates and executes against project timelines based on priorities, resource availability, and other project requirements (i.e., budget); effectively evaluates planned approaches, determines feasibility, and makes adjustments when needed.
7. Problem Solving: Uses issue identification, data relation and comparison, pattern recognition and information gathering to create analyses and make recommendations.

Minimum Qualifications

1. Education:Bachelor of Arts (BA) or Bachelor of Science (BS) required in bioinformatics, biostatistics or computer science or related field required. Masters or PhD in computational field preferred.
2. Work Experience:A minimum of 3 years of applied experience required.
3. Special Training, Certification or Licensure: Must be proficient in at least 2 programming languages (e.g. python, C++ , JAVA, Etc.) and have a background in utility programming (Bash, AWK, Perl, BioPerl, R, Matlab and other languages) in a Linux environment.

Salary Range: $65,000 - $73,000

Benefits
At National Jewish Health, we recognize that our outstanding faculty and staff are the essence of our organization. For every aspect of health care, our employees are our greatest asset. With that in mind, we have designed a valuable, comprehensive benefits package to meet the needs of our employees and their families.

• Comprehensive Medical Coverage: Multiple Cigna health plans for Colorado, regional office and remote employees. Health Savings Accounts (HSA) and Flexible Spending Accounts (FSA) available to pair with some plans.
• Paid Time Off: Generous PTO accruals to use for vacation and sick days, and six paid holidays, all compliant with Colorado state sick leave regulations.
• Dental & Vision Plans: Coverage effective the first of the month after hire.
• Retirement Savings: 403(b) plan with employer contributions after two years.
• Wellness Incentives: Earn up to $200 annually for preventive health activities.
• Tuition Reimbursement: Up to $5,250 annually for full-time and part-time employees.
• Child Care Assistance: Childcare Flex Spending Account (FSA) with annual employer contribution.
• Loan Forgiveness: Public Service Loan Forgiveness (PSLF) eligible employer.
• Disability & Life Insurance: Employer-paid plans and optional buy-up choices.
• Voluntary Benefits: Full suite of coverage options such as Accident, Hospital Indemnity and Legal Plan
• Exclusive Discounts: Savings on local services, insurance, and RTD bus passes.
  

Application Deadline: This position will be open for a minimum of three days and until a top applicant is identified.

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