Job ID: 48278BR
Job date: 2017-11-02
End Date:
Company : University of California Country : Role : Programmer
Job date: 2017-11-02
End Date:
Company : University of California Country : Role : Programmer
Job Description:
Under general supervision of the Institute for Computational Health Sciences (ICHS) Bioinformatics manger, the Bioinformatics Programmer I 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. Assist in Creating 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, semi-structured 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. The Bioinformatics Programmer will also evaluate third party tools for adaptation into our system, under guidance from the Bioinformatics manager. Further the candidate will work towards ensuring 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 and/or combination of education and experience • Up to one year of relevant work experience • General understanding of relational databases, NoSQL and document stores, web interfaces and operating systems • Experience writing queries, functions, scripts and procedures with SQL and PL/SQL • Basic knowledge of modern biology at the college level Preferred Qualifications: • AWS, Unix/Linux OS and shell scripting, Python, java, C++, Rstudio, Zepplin, Jupyter, iPython, Hadoop, Spark, Hive, AWS Redshift, RedHat, CentOS, Obuntu Linux • Basic knowledge of applications programming, web development and data structures • Ability to communicate technical information in a clear and concise manner • Ability to communicate technical information in a clear and concise manner • Experience with ETL tools, data mapping, and validation (informatica or equivalent) • Ability to investigate ETL pipeline and data querying performance and process failures and work to improve them • Experience with database management systems; Demonstrated ability to work on multiple tasks • Experience analyzing data on the order of tens of thousands of records. Strong database and big data structure design and querying
Additional Info:
INSTITUTE FOR COMPUTATIONAL HEALTH SCIENCES The Institute for Computational Health Sciences (ICHS) 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.[Click Here to Access the Original Job Post]
Under general supervision of the Institute for Computational Health Sciences (ICHS) Bioinformatics manger, the Bioinformatics Programmer I 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. Assist in Creating 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, semi-structured 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. The Bioinformatics Programmer will also evaluate third party tools for adaptation into our system, under guidance from the Bioinformatics manager. Further the candidate will work towards ensuring 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 and/or combination of education and experience • Up to one year of relevant work experience • General understanding of relational databases, NoSQL and document stores, web interfaces and operating systems • Experience writing queries, functions, scripts and procedures with SQL and PL/SQL • Basic knowledge of modern biology at the college level Preferred Qualifications: • AWS, Unix/Linux OS and shell scripting, Python, java, C++, Rstudio, Zepplin, Jupyter, iPython, Hadoop, Spark, Hive, AWS Redshift, RedHat, CentOS, Obuntu Linux • Basic knowledge of applications programming, web development and data structures • Ability to communicate technical information in a clear and concise manner • Ability to communicate technical information in a clear and concise manner • Experience with ETL tools, data mapping, and validation (informatica or equivalent) • Ability to investigate ETL pipeline and data querying performance and process failures and work to improve them • Experience with database management systems; Demonstrated ability to work on multiple tasks • Experience analyzing data on the order of tens of thousands of records. Strong database and big data structure design and querying
Requeriments :
Skills :
- Biology
- Lunix/Unix
- NoSQL
- Programing in C++
- Programing in Python
- Programing Skills
- Programming in Java
- Shell scripting
- SQL
Areas :
Additional Info:
INSTITUTE FOR COMPUTATIONAL HEALTH SCIENCES The Institute for Computational Health Sciences (ICHS) 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.[Click Here to Access the Original Job Post]