Job ID: 46704BR
Job date: 2017-03-10
End Date:
Company : University of California Country : Role : Programmer
Job date: 2017-03-10
End Date:
Company : University of California Country : Role : Programmer
Job Description:
Based on CLARITY-OMOP data conversion specifications, the Bioinformatics Programmer will design and develop queries against source database, CLARITY, and target database, OMOP, for comparison and verification of correct data conversion. Where possible, the individual will be expected to automate and streamline the data comparison process, perform manual data comparison as needed, report discrepancies in the issue tracking system. Analyze potential reasons for data issues and suggest ways to resolve them, based on understanding of both source and target data models, develop data verification plans to ensure that every data entry in the target database can be mapped back to its source, and, if necessary, trace the data elements from APeX front-end (Epic Hyperspace) to APeX analytics back-end, CLARITY, to OMOP data model to ensure the data is transformed and converted correctly without loss of clinical meaning and accuracy. The Bioinformatics Programmer will help with OMOP data usability assessments. Based on research and research infrastructure use cases for the OMOP data, develop queries to extract needed data variables from the OMOP data source. This may require working with clinical domain experts and use case owners to understand the “business need” and wider context in which the data is going to be used. Ensure that the data is delivered in a format that is usable and accessible by the end user/use case owner. Work with the end user/use case owner to receive data assessment feedback and iterate as needed to fulfill the requirements. Document and communicate in-progress and final assessments. This may require manual data validation and spot checking with selected subsets of data. The Bioinformatics Programmer will help with data characterization and aggregate-level data testing to ensure completeness, currency and integrity of the target OMOP data and robustness of the CLARITY-OMOP data conversion process. This includes help in designing and implementing regression testing of ongoing data refreshes. Please note: This is a 50% contract position that will end on May 31, 2017. Required Qualifications: • Bachelor's degree in related area and / or equivalent experience / training. • Ability to prepare data models unassisted. • Familiarity with data model patterns in one or more common business or academic domains. • Familiarity with logical data design and data mapping or data conversion. • Thorough knowledge of data management systems, practices and standards. • Demonstrated ability to communicate technical information to technical and non-technical personnel at various levels in the organization. • Strong analytical and design skills, including the ability to abstract information requirements from real-world processes to understand information flows in computer systems. • Demonstrated ability to work with others from diverse backgrounds. Demonstrated effective communication and interpersonal skills. Demonstrated service orientation skills. • Self-motivated and works independently and as part of a team. • Demonstrated strong problem-solving skills. Able to learn effectively and meet deadlines. • Strong organizational skills. Preferred Qualifications: • MS degree in quantitative discipline. • Familiarity with data quality and governance issues and requirements. • Ability to represent relevant information in abstract models. • Thorough knowledge of relevant rules and regulations.
Additional Info:
CLINICAL AND TRANSLATIONAL SCIENCE INSTITUTE : The Clinical and Translational Science Institute (CTSI) at UCSF is charged with improving the conduct of research and transforming both the university and the national environment to more effectively bridge the gap between research and better health in our communities. The Institute accomplishes its mission by providing infrastructure and training for clinical and translational research and advocating for and implementing large-scale change at the University and nationally. This work happens in collaboration with a range of academic, industry and community partners. CTSI is a member of the Clinical & Translational Science Awards (CTSA) Consortium, a 60+member consortium made up of the nation’s leading biomedical research institutions. The CTSA consortium is funded by National Center for Advancing Translational Sciences (NCATS) at the National Institutes of Health (NIH). ABOUT UCSF: The University of California, San Francisco (UCSF) is a leading university dedicated to promoting health worldwide through advanced biomedical research, graduate-level education in the life sciences and health professions, and excellence in patient care. It is the only campus in the 10-campus UC system dedicated exclusively to the health sciences. Note: Fingerprinting and background check required. Effective March 13, 2017, all final candidate(s) for employment will be required to undergo a background check. Equal Employment Opportunity: The University of California San Francisco is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, age, protected veteran or disabled status, or genetic information.[Click Here to Access the Original Job Post]
Based on CLARITY-OMOP data conversion specifications, the Bioinformatics Programmer will design and develop queries against source database, CLARITY, and target database, OMOP, for comparison and verification of correct data conversion. Where possible, the individual will be expected to automate and streamline the data comparison process, perform manual data comparison as needed, report discrepancies in the issue tracking system. Analyze potential reasons for data issues and suggest ways to resolve them, based on understanding of both source and target data models, develop data verification plans to ensure that every data entry in the target database can be mapped back to its source, and, if necessary, trace the data elements from APeX front-end (Epic Hyperspace) to APeX analytics back-end, CLARITY, to OMOP data model to ensure the data is transformed and converted correctly without loss of clinical meaning and accuracy. The Bioinformatics Programmer will help with OMOP data usability assessments. Based on research and research infrastructure use cases for the OMOP data, develop queries to extract needed data variables from the OMOP data source. This may require working with clinical domain experts and use case owners to understand the “business need” and wider context in which the data is going to be used. Ensure that the data is delivered in a format that is usable and accessible by the end user/use case owner. Work with the end user/use case owner to receive data assessment feedback and iterate as needed to fulfill the requirements. Document and communicate in-progress and final assessments. This may require manual data validation and spot checking with selected subsets of data. The Bioinformatics Programmer will help with data characterization and aggregate-level data testing to ensure completeness, currency and integrity of the target OMOP data and robustness of the CLARITY-OMOP data conversion process. This includes help in designing and implementing regression testing of ongoing data refreshes. Please note: This is a 50% contract position that will end on May 31, 2017. Required Qualifications: • Bachelor's degree in related area and / or equivalent experience / training. • Ability to prepare data models unassisted. • Familiarity with data model patterns in one or more common business or academic domains. • Familiarity with logical data design and data mapping or data conversion. • Thorough knowledge of data management systems, practices and standards. • Demonstrated ability to communicate technical information to technical and non-technical personnel at various levels in the organization. • Strong analytical and design skills, including the ability to abstract information requirements from real-world processes to understand information flows in computer systems. • Demonstrated ability to work with others from diverse backgrounds. Demonstrated effective communication and interpersonal skills. Demonstrated service orientation skills. • Self-motivated and works independently and as part of a team. • Demonstrated strong problem-solving skills. Able to learn effectively and meet deadlines. • Strong organizational skills. Preferred Qualifications: • MS degree in quantitative discipline. • Familiarity with data quality and governance issues and requirements. • Ability to represent relevant information in abstract models. • Thorough knowledge of relevant rules and regulations.
Requeriments :
Areas :
Additional Info:
CLINICAL AND TRANSLATIONAL SCIENCE INSTITUTE : The Clinical and Translational Science Institute (CTSI) at UCSF is charged with improving the conduct of research and transforming both the university and the national environment to more effectively bridge the gap between research and better health in our communities. The Institute accomplishes its mission by providing infrastructure and training for clinical and translational research and advocating for and implementing large-scale change at the University and nationally. This work happens in collaboration with a range of academic, industry and community partners. CTSI is a member of the Clinical & Translational Science Awards (CTSA) Consortium, a 60+member consortium made up of the nation’s leading biomedical research institutions. The CTSA consortium is funded by National Center for Advancing Translational Sciences (NCATS) at the National Institutes of Health (NIH). ABOUT UCSF: The University of California, San Francisco (UCSF) is a leading university dedicated to promoting health worldwide through advanced biomedical research, graduate-level education in the life sciences and health professions, and excellence in patient care. It is the only campus in the 10-campus UC system dedicated exclusively to the health sciences. Note: Fingerprinting and background check required. Effective March 13, 2017, all final candidate(s) for employment will be required to undergo a background check. Equal Employment Opportunity: The University of California San Francisco is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, age, protected veteran or disabled status, or genetic information.[Click Here to Access the Original Job Post]