Scientific Data Curator

Location
California, United States
Posted
19 Oct 2018
End of advertisement period
19 Dec 2018
Ref
80591
Contract Type
Permanent
Hours
Full Time

The Department of Biomedical Data Science (DBDS) at Stanford University is looking for an experienced Scientific Data Curator 3 to plan, develop, and implement the creation and advancement of web-based databases used to solve formal and practical problems arising from the management and analysis of scientific and clinical data. ClinGen, the Clinical Genome Resource (ClinGen, www.clinicalgenome.org) is a project of national importance and is dedicated to building an authoritative central resource that defines the clinical relevance of genes and variants for use in precision medicine. Our team at Stanford has been tasked by the National Institutes of Health (NIH) to build the informatics infrastructure for this project. The work has high visibility and massive real-world impact on patient care through the expansion of cutting-edge software technologies.

This individual will be responsible for working with other curation and software engineering staff in the specification, design, and implementation of tools that integrate, search, and display scientific and clinical data. In addition, this individual must become expert in the specialized tools that are required for data collection, analysis, and visualization. The successful candidate will define and maintain processes that evaluate and verify the accuracy of these data. Therefore, the successful candidate should understand experimental methods, data analysis methods and inferences that can be applied to both single-gene experimentation and high-throughput analyses. Familiarity with the use of controlled vocabularies and ontologies to describe biological concepts is a plus.

Knowledge of variant detection, molecular mechanisms of disease, functional assays and computational analysis is needed in order to successfully define the use of these data. An understanding of bioinformatics analysis to identify variants within genomic datasets, and variant effect prediction algorithms is desirable. An advanced education in biology or medicine is required to facilitate the assessment of experimental details and to successfully evaluate quality control of novel experimental data. The successful candidate must apply judgment and evaluate the experiment data, not as a peer-reviewer, but to determine if the results reported are appropriate for the database. 

The successful candidate must be able to learn and work independently, yet collaborate effectively with co-workers. Previous experience working in an academic environment is a plus. In addition, this individual will be responsible for describing and designing educational material for the project’s users. Excellent verbal and written communication skills are essential in order to (1) interact effectively with members of the scientific community, (2) facilitate the acquisition and description of scientific data, (3) effectively provide documentation and specifications to coworkers during tool development, and (4) contribute to publications. The successful candidate will work at Stanford University in Palo Alto, California. Compliance with and support of University and government health & safety regulations & policies is required. 

Duties include:

  • Define novel computational approaches and analytical tools as required by research goals.
  • Participate in collaborations with other labs. 
  • Work with users to answer questions about the contents of the database and provide assistance for submission of information.
  • Participate in presentations and demonstrations of the database at conferences or other institutions.
  • Create a variety of reports and user demonstration; collaborate with the users in the discovery of new knowledge.
  • Collect and analyze information from peer-reviewed scientific journals and through direct submissions; abstract data into the required format, and verify them for accuracy. 
  • Supervise or guide staff, as needed; schedule and assign workload; set appropriate deadlines; review work for quality and timeliness.

* - Other duties may also be assigned

DESIRED QUALIFICATIONS:

  • Experience working within a software development environment.
  • Familiarity with controlled vocabularies and ontologies. 
  • Technical expertise in genetics, molecular biology, bioinformatics, or clinical research.
  • Some proficiency in using genome databases, protein databases, clinical resources (e.g. ClinVar), and variation databases.
  • Experience with modern genomics and proteomics experiments and their data types. 
  • Experience with both independent and collaborative work environments

EDUCATION & EXPERIENCE (REQUIRED):

  • Doctor of Medicine, Pharmacy, or Doctor of Philosophy in scientific field and three years of relevant experience, or combination of relevant experience.

KNOWLEDGE, SKILLS AND ABILITIES (REQUIRED):

  • Strong analytical skills.
  • Demonstrated experience with relational databases, data integration, and statistics.
  • Strong written and oral English communication skills.
  • Computer skills, including word processing and spreadsheet applications.
  • Ability to understand scientific literature, experimental procedures and their limitations, and current needs of the research community.

CERTIFICATIONS & LICENSES:

None

PHYSICAL REQUIREMENTS*:

  • Frequently perform desk based computer tasks, seated work and use light/ fine grasping. Occasionally stand, walk, and write by hand, lift, carry, push pull objects that weigh up to 10 pounds.

* - Consistent with its obligations under the law, the University will provide reasonable accommodation to any employee with a disability who requires accommodation to perform the essential functions of his or her job.

WORKING CONDITIONS:

  • May work extended or non-standard hours based on project or business needs
  • Occasional local travel may be required.
  • Some work may be performed in a laboratory setting.