Job ID: 48258BR
Job date: 2017-10-29
End Date:
Company : University of California Country : Role : Programmer
Job date: 2017-10-29
End Date:
Company : University of California Country : Role : Programmer
Job Description:
The Bioinformatics Programmer’s job involves developing and utilizing computational tools to analyze and interpret biological or other research data. Utilizes and develops algorithms, computational techniques, and statistical methodologies. Helps in the design of new experiments. Implements end-user needs in database searching and integration. Maintains the computational infrastructure and tracks the flow of samples and information for large-scale studies. Provides web-based bioinformatics and access to public and proprietary databases. The Bioinformatics Programmer uses professional bioinformatics concepts. He/she applies computational procedures to resolve a variety of analysis and research issues. Works on assignments of moderate scope where analysis of data requires a review of a variety of factors. He/she assists in additional analyses as needed to achieve research objectives. He/she will be required to utilize the elasticity of the AWS Cloud for Big Data Intensive (e.g. Hadoop/Spark) compute infrastructure and parallel system environment. He/she creates pipelines and configurations on a Linux-based distributed file system for Very Large health data, premise-hosted as well as public cloud based. Such data will be clinical, phenotypic and population level data of several categories, structured, semistructured and unstructured data. Non-structured data includes text, images, and “messy” alphanumeric data. Strong AWS and Linux system administration skills will be needed to build scalable general-purpose computational and inferential software tools to work with the data. A successful hire will also evaluate third party tools for adaptation into our system. He/she will work to ensure system compliance with the university’s policies with respect to privacy and security. Required Qualifications: • Bachelor’s degree in Computer Science or biomedical computation or related area or an equivalent combination of education and experience • 2-4 years relevant work experience • Experience writing queries, functions, scripts and procedures with SQL and PL/SQL • Working knowledge of bioinformatics methods, applications programming, web development and data structures. • Understanding of relational databases, NoSQL and document stores, web interfaces and operating systems. Note: Fingerprinting and background check required. Effective March 13, 2017, all final candidate(s) for employment are required to undergo a back ground check. Preferred Qualifications • Strong knowledge of modern biology at the college level. Ability to communicate technical information in a clear and concise manner. • Experience with ETL tools, data mapping, and validation preferred (informatica or equivalent) • Ability to investigate ETL pipeline and data querying performance and process failures and work to improve them • Experience with multiple database management systems; Demonstrated ability to work on multiple tasks • Experience analyzing data on the order of tens of billions of records. Strong database and big data structure design and querying. • AWS, Unix/Linux OS and shell scripting, Python, java, c++, Rstudio, Zepplin, Jupyter, iPython, Hadoop, Spark, Hive, AWS Redshift, RedHat, CentOS, Obuntu Linux
Additional Info:
INSTITUTE FOR COMPUTATIONAL HEALTH SCIENCES The Institute for Computational Health Sciences is a critical component of a global UCSF initiative in Precision Medicine, which seeks to aggregate and integrate vast, disparate datasets to advance understanding of biological processes, determine mechanisms of disease, and inform diagnosis and treatment of patients. Beginning with a base of excellent computational faculty dispersed among our four top-ranked professional schools (Dentistry, Medicine, Nursing and Pharmacy) and Graduate Division, superb research programs and outstanding Medical Center, ICHS will establish a central convening center, hire additional faculty, and build programs for research and education. ICHS will develop and enhance UCSF’s computational approaches and strategies in basic, translational, clinical and population-based biomedical research, working with partners in industry and academia where appropriate. It will be a campus hub for computer scientists and for researchers who employ computation as a primary tool in their biomedical research. 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. 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]
The Bioinformatics Programmer’s job involves developing and utilizing computational tools to analyze and interpret biological or other research data. Utilizes and develops algorithms, computational techniques, and statistical methodologies. Helps in the design of new experiments. Implements end-user needs in database searching and integration. Maintains the computational infrastructure and tracks the flow of samples and information for large-scale studies. Provides web-based bioinformatics and access to public and proprietary databases. The Bioinformatics Programmer uses professional bioinformatics concepts. He/she applies computational procedures to resolve a variety of analysis and research issues. Works on assignments of moderate scope where analysis of data requires a review of a variety of factors. He/she assists in additional analyses as needed to achieve research objectives. He/she will be required to utilize the elasticity of the AWS Cloud for Big Data Intensive (e.g. Hadoop/Spark) compute infrastructure and parallel system environment. He/she creates pipelines and configurations on a Linux-based distributed file system for Very Large health data, premise-hosted as well as public cloud based. Such data will be clinical, phenotypic and population level data of several categories, structured, semistructured and unstructured data. Non-structured data includes text, images, and “messy” alphanumeric data. Strong AWS and Linux system administration skills will be needed to build scalable general-purpose computational and inferential software tools to work with the data. A successful hire will also evaluate third party tools for adaptation into our system. He/she will work to ensure system compliance with the university’s policies with respect to privacy and security. Required Qualifications: • Bachelor’s degree in Computer Science or biomedical computation or related area or an equivalent combination of education and experience • 2-4 years relevant work experience • Experience writing queries, functions, scripts and procedures with SQL and PL/SQL • Working knowledge of bioinformatics methods, applications programming, web development and data structures. • Understanding of relational databases, NoSQL and document stores, web interfaces and operating systems. Note: Fingerprinting and background check required. Effective March 13, 2017, all final candidate(s) for employment are required to undergo a back ground check. Preferred Qualifications • Strong knowledge of modern biology at the college level. Ability to communicate technical information in a clear and concise manner. • Experience with ETL tools, data mapping, and validation preferred (informatica or equivalent) • Ability to investigate ETL pipeline and data querying performance and process failures and work to improve them • Experience with multiple database management systems; Demonstrated ability to work on multiple tasks • Experience analyzing data on the order of tens of billions of records. Strong database and big data structure design and querying. • AWS, Unix/Linux OS and shell scripting, Python, java, c++, Rstudio, Zepplin, Jupyter, iPython, Hadoop, Spark, Hive, AWS Redshift, RedHat, CentOS, Obuntu Linux
Requeriments :
Skills :
- Bioinformatics
- Biology
- Lunix/Unix
- NoSQL
- Programing in C++
- Programing in Python
- Programing Skills
- Programming in Java
- Shell scripting
- SQL
- Statistics
Areas :
Additional Info:
INSTITUTE FOR COMPUTATIONAL HEALTH SCIENCES The Institute for Computational Health Sciences is a critical component of a global UCSF initiative in Precision Medicine, which seeks to aggregate and integrate vast, disparate datasets to advance understanding of biological processes, determine mechanisms of disease, and inform diagnosis and treatment of patients. Beginning with a base of excellent computational faculty dispersed among our four top-ranked professional schools (Dentistry, Medicine, Nursing and Pharmacy) and Graduate Division, superb research programs and outstanding Medical Center, ICHS will establish a central convening center, hire additional faculty, and build programs for research and education. ICHS will develop and enhance UCSF’s computational approaches and strategies in basic, translational, clinical and population-based biomedical research, working with partners in industry and academia where appropriate. It will be a campus hub for computer scientists and for researchers who employ computation as a primary tool in their biomedical research. 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. 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]