Clinical Data Wrangler

Location
California, United States
Posted
08 Jun 2019
End of advertisement period
08 Aug 2019
Ref
83435
Contract Type
Permanent
Hours
Full Time

Stanford School of Medicine, Information, Resources and Technology (IRT) is seeking a Clinical Data Wrangler to participate in the ongoing development of clinical data warehouse (CDW). The CDW was created in 2008 and is used by thousands of researchers in a variety of scientific endeavors including population health research, basic science research, translational research and conduction of clinical trials. The CDW has resulted in hundreds of peer reviewed publications. The ongoing development of CDW is in support of Stanford’s precision health focus, a fundamental shift to a more proactive and personalized health care that empowers people to lead healthy lives. Our CDW is combining various streams of complex data, such as imaging, pathology, genomics, bedside monitoring, real time device locations, into a single mineable database with interoperable data.

This position reports into the Research IT (https://med.stanford.edu/researchit/) department responsible for supporting a number of centralized infrastructure, tools and services for Stanford Medicine research community. Our environment is learning and collaboration oriented. We work with modern technologies, petascale distributed/cloud computing paradigm and agile methodologies. Our collaborators include faculty, postdocs, research coordinators, University and School of Medicine IT, Information Security Office, University Privacy Office, Hospital IT, industry, and other academic institutes.

In this particular position, the Clinical Data Wrangler will help Research IT build its next generation of the CDW. Your day to day duties will primarily focus on data engineering, curation, quality analysis, and documentation so that the data is highest quality for research. Duties include but are not limited to:

  • Identify and acquire new data for inclusion in the CDW; collaborate with research labs at Stanford and elsewhere and consortiums for the purpose of gathering more information to be included in the database.
  • Review CDW data content for quality and relevancy. Develop for completeness (e.g. metadata), interoperability (e.g. standards) and data provenance (e.g. is the workflow and analysis reproducible).
  • Write papers drawing from information in the CDW. This could be posters, white papers, bioRxiv or peer reviewed.
  • Work with researchers to determine ways of using the information in the CDW, which may include the development of new user interfaces; work with developers and product manager to translate the needs of the users into new functionality.
  • Participate in presentations and demonstrations of the CDW at conferences or other institutions.

While we are a diverse (http://med.stanford.edu/connected/announcements/ResearchIT.html) and collaborative group, we also own a number of complex projects. While existing knowledge is important, a desire and ability to learn new concepts is critical. Our pace of development is rapid and we work with a community that thrives on the bleeding edge of research.  To be a successful part of Stanford community, you will need to share a passion for learning, and translating the knowledge to improving health care.

Demonstration of one or more of the following skill sets are desired:

  • Experience with research and scientific methodologies, in particular publications related to data analysis, software or method development.
  • Experience with writing data processing pipelines using modern programming methods such as Python, R and Jupyter Notebooks. Familiarity with code management via repositories such as github is expected.
  • Experience with taking a complex problem and delivering in a timely fashion without significant micro management.
  • Experience with clinical data including Electronic Medical Records, data types such as imaging, genomics, bedside monitoring, real time location devices, and mobile health application data.
  • Experience with standards such as FHIR, HL7, DICOM, etc.
  • Experience with open source projects or other consortium efforts such as OMOP, and GA4GH.
  • Experience with technical or scientific content communication - conference talks, posters, blogs etc.

Research IT’s new office is located at the Stanford Redwood City Campus. We support a flexible work environment.

* Other duties may also be assigned

DESIRED QUALIFICATIONS:

  • Experience with research and scientific methodologies, in particular publications related to data analysis, software or method development.
  • Experience with writing data processing pipelines using modern programming methods such as Python, R and Jupyter Notebooks. Familiarity with code management via repositories such as github is expected.
  • Experience with taking a complex problem and delivering in a timely fashion without significant micro management.
  • Experience with clinical data including Electronic Medical Records, data types such as imaging, genomics, bedside monitoring, real time location devices, and mobile health application data.
  • Experience with standards such as FHIR, HL7, DICOM, etc.
  • Experience with open source projects or other consortium efforts such as OMOP, and GA4GH.
  • Experience with technical or scientific content communication - conference talks, posters, blogs etc.

EDUCATION & EXPERIENCE (REQUIRED):

Master's degree in scientific field and three years of relevant experience or combination of relevant experience.

KNOWLEDGE, SKILLS AND ABILITIES (REQUIRED):

  • Strong analytical skills.
  • Ability to learn and utilize 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.

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.

WORK STANDARDS:

  • Interpersonal Skills: Demonstrates the ability to work well with Stanford colleagues and clients and with external organizations.
  • Promote Culture of Safety: Demonstrates commitment to personal responsibility and value for safety; communicates safety concerns; uses and promotes safe behaviors based on training and lessons learned.
  • Subject to and expected to comply with all applicable University policies and procedures, including but not limited to the personnel policies and other policies found in the University's Administrative Guide, http://adminguide.stanford.edu.

Additional Information

  • Schedule: Full-time
  • Job Code: 4182
  • Employee Status: Regular
  • Grade: H
  • Requisition ID: 83435