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BACKGROUND:
Organization: NE-NERSC
NERSC and the Joint Genome Institute (JGI) are searching for an individual who can help biologists exploit advanced computing platforms. JGI provides production sequencing and genomics for the Department of Energy. These activities are critical to the DOE missions in areas related to clean energy generation and environmental characterization and cleanup. JGI has recently partnered with NERSC, the DOE Office of Science's flagship computing center, a world leader in providing high-performance computing tools and expertise that enable computational science of scale. This partnership gives JGI staff access to supercomputer class systems, advanced architectures, and large-scale storage systems enabling JGI to address the most demanding genomic problems. This position will help bridge the gap from biology to computational science. The position will support the JGI mission by directly engaging with biologists to assist them with effectively using the range of computational resources at their disposal.
RESPONSIBILITIES:
Computer Systems Engineer 2:
The individual is expected to provide assistance on how to architect and implement genomic applications that would include porting or modifying existing pipelines to run on new architectures and platforms including HPC systems and Cloud computing systems. This includes investigating and developing new more efficient and scalable algorithms that can handle the growing volume of genomic data. In addition, the individual will have the opportunity to explore new computing models such as Hadoop, HBase, and accelerators to understand how they can be used to address challenges for the JGI. The individual will serve as the main point of contact between JGI and NERSC, assessing user requirements and communicating user scientific and computing needs to both organizations. The successful candidate will help educate and train users by creating content for the NERSC website with online tutorials and documentation, giving presentations, and attending conferences and will communicate with users about new opportunities and capabilities in software and systems and advise them in effectively transitioning to new technologies.
Computer Systems Engineer 3:
In addition to the duties of the CSE 2, the CSE 3 will take a lead role in at least one of the activities described above, take responsibility for managing and solving complex problems, have frequent interactions with users to provide technical guidance, participate in setting direction for future user activities and participate in collaborations with research scientists.
REQUIREMENTS:
Computer Systems Engineer 2:
* Bachelor's degree in a science or a computer science discipline or equivalent experience and a minimum of 4 years related experience
* Demonstrated ability to work independently, work collaboratively in an interdisciplinary team, and contribute to an active intellectual environment
* Experience with a variety of bioinformatics tools (assemblers, comparative analysis tools, phylo-genetic, etc.)
* Broad computational background including knowledge of Linux, C, C++, Perl, and Python
* Ability to work effectively with scientists understanding user needs, showing initiative, tact and judgment developing solutions
* Excellent written and oral communication skills
Computer Systems Engineer 3:
In addition to the above requirements for a CSE 2, the CSE 3 must have a minimum of 8 years related experience. The CSE 3 must have a demonstrated ability to assume a leadership role, ability to grasp complex problems and develop solutions, and possess in-depth background in bioinformatics tools.
PREFERENCES:
* An advanced degree in computational science, computer science, or bioinformatics
* Familiarity with high-performance computing (including MPI , novel architectures (accelerator, FPGA, etc) or cloud computing
* Familiarity with emerging distributed computing models such as Hadoop
* Experience supporting and deploying bioinformatics pipelines
TERMS:
Note: This is a one year term, renewable each year, with the possibility for conversion to an indefinite (career) appointment based on satisfactory job performance, availability of funds and ongoing operational needs.
HOW TO APPLY:
Apply directly online at http://bit.ly/lbl73194Bioinformatics and follow the instructions to complete the application process.
POLICY:
Berkeley Lab is an affirmative action/equal opportunity employer committed to the development of a diverse workforce.
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BACKGROUND:
Social & Scientific Systems (SSS) is an employee-owned company dedicated to improving public health around the world. SSS offers an excellent total compensation package, including medical, life, and disability insurance, annual leave, stock ownership, 401(k) plan, education assistance, casual work environment, commuter benefits, flexible hours, and more.
RESPONSIBILITIES:
We are seeking a Programmer II that under general supervision will manage databases and write, test, debug and run complex computer programs.
* Writes programs from routine or moderately complex program specifications.
* May be given responsibility to administer a database and respond to requests.
* Develops estimates of time and computer resources for assigned activities.
* Runs production programs and reviews for accuracy.
* Maintains programs, project files, audit trails, and data libraries. Creates and maintains associated documentation, including data flow diagrams and flow charts.
* Performs routine data management activities, including data transfers, backups, etc.
* May interact with clients to resolve work issues, as agreed upon with the supervisor.
* Keeps supervisor informed of progress.
* Performs additional duties as required.
REQUIREMENTS:
Bachelor's degree or equivalent experience, plus 2-3 years of related experience as an applications programmer is required. All candidates must have significant experience in the use of the SAS Data Step in manipulating data and transposing/transforming data. Experience in working with longitudinal datasets as they relate to survey/epidemiology/public health research is essential. Proficiency in specified editors and programming languages such as SAS, SQL, Stata, MS Access and Visual Studio .Net using C# is preferred. All candidates must have excellent organizational skills as well as the ability to be flexible to shifting priorities. A 'Team Player' personality is essential.
LOCALE:
Durham, NC
HOW TO APPLY:
Review full requirements/description and apply online at http://www.s-3.com - see Req. #915.
POLICY:
EOE M/F/D/V
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RESPONSIBILITIES:
Organization: GN - Genomics Division
The DOE Joint Genome Institute (JGI) in Walnut Creek, CA (a division of the Lawrence Berkeley National Lab) has opportunities available for experienced software developers. In cooperation with other units of JGI, the selected candidates will be responsible for designing, developing and implementing software solutions to manage and process data from new sequencing technologies. Will work on problems of a diverse scope, exercise independent judgment and select appropriate methods and techniques for solving and recommending solutions. Assignments will span the full software development lifecycle, including participation in requirements gathering, implementation, testing, and deployment. Positions report to the Genomic Technologies Informatics Group Lead.
Specific Job Duties:
Essential-
* Design, implement, test and deploy software for the handling of new sequencing technologies and techniques, and corresponding data with the eventual goal of integrating these systems with the institution's existing informatics infrastructure.
* Gather feedback and requirements to develop software using a mix of the following: Java, Perl, Perl/CGI, Javascript, CVS, PL/SQL.
* Interact with peers to ensure efficient communication and completion of projects.
* Apply analytical skills and creativity to solve diverse and challenging problems.
Marginal-
* Stay current with new sequencing technologies.
* Develop and present updates and reports at group meetings.
REQUIREMENTS:
* B.S. in Computer Engineering, Bioinformatics or a related field with a minimum of five years related experience, or an equivalent combination of education and experience. MS degree is preferred
* Demonstrated experience with the following: Java and/or Perl, UNIX and SQL
* Demonstrated experience with database programming and interfaces
* Full life-cycle software development experience with the ability to work with scientific and administrative peers to define needs and priorities
* Ability to effectively learn and apply new technology concepts to troubleshoot and solve problems and challenges of a diverse scope
* Effective time management, organization, and planning skills
* Talent for working well under short deadlines and handling multiple tasks simultaneously
* Ability to work effectively in a diverse team environment
PREFERENCES:
* Demonstrated experience with the following: Spring/JEE or similar programming frameworks, Tomcat, Apache, Subversion or other version control software
* Demonstrated experience in providing support for software solutions
* Experience developing web-based GUIs
* Experience working with scientific users
* Experience working with bioinformatics tools and/or analysis techniques, ideally involving next-generation sequencing platforms
HOW TO APPLY:
For a detailed job description and instructions regarding how to apply, please visit: [link]
POLICY:
Berkeley Lab is an affirmative action/equal opportunity employer committed to the development of a diverse workforce.
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BACKGROUND:
Fred Hutchinson Cancer Research Center, home of three Nobel laureates, is an independent, nonprofit research institution dedicated to the development and advancement of biomedical research to eliminate cancer and other potentially fatal diseases. Recognized internationally for its pioneering work in bone-marrow transplantation, the Center's five scientific divisions collaborate to form a unique environment for conducting basic and applied science. The Hutchinson Center, in collaboration with its clinical and research partners, the University of Washington and Seattle Children's, is the only National Cancer Institute-designated comprehensive cancer center in the Pacific Northwest. Join us and make a difference!
RESPONSIBILITIES:
A Postdoctoral Research Fellow position is available immediately in the Vaccine and Infectious Disease Division (VIDD) of the Fred Hutchinson Cancer Research Center (FHCRC), Seattle, W A. The successful applicant will work with Dr. Raphael Gottardo to develop statistical and computational methods for analyzing and integrating high throughput data from immunological assays such as flow cytometry, antigen microarrays, next generation sequencing, etc. He/She will also work with scientists from VIDD to apply the tools in the field of computational immunology and vaccine development. The successful applicant will interact with both scientists in VIDD and in the program in Computational Biology. The FHCRC provides a highly interactive and supportive environment for junior investigators to grow and develop their future career; it consistently ranks in the top 20 best places to work for postdocs, as surveyed by The Scientist.
REQUIREMENTS:
Suitable applicants should have a PhD degree in statistics/biostatistics, computer science, applied mathematics, electrical/biomedical engineering, physics, computational biology or other fields with strong quantitative training. Strong programming skills in C/C++, R or similar languages are required. Previous experience with genomics or biological data analyses is a plus.
LOCALE:
Seattle, Washington
COMPENSATION:
Full time position, salary based on the NIH scale + excellent benefits
HOW TO APPLY:
Please also apply for this position [link] and reference job ID "24327".
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BACKGROUND:
Columbia University Medical Center is one of the world's foremost centers for patient care and health science education. It is also one of the world's leading biomedical research organizations, and provides a unique environment to support breakthrough discoveries in this fundamental area of biology.
The Haghighi laboratory is studying the epigenetic profiles of human brain development and its emerging role in gene regulation, as well as its fundamental importance for our understanding of normal and pathological neuronal function. Epigenetic patterns in the genome vary among tissues and cell types in normal and pathological states. A major unanswered question is how epigenetics plays a role in neuronal development and how alterations in normal epigenetic processes during development lead to neurodevelopmental diseases, such as autism and schizophrenia. Next-gen sequencing technologies now allow a global view of whole genome epigenetic profiles.
RESPONSIBILITIES:
Studies involve development and application of epigenomic techniques including library construction for next-gen sequencing of DNA methylation and histone modifications (BS-seq and ChIP-Seq).
REQUIREMENTS:
Experience in bisulfite sequencing, real-time PCR, chromatin IP, and neuronal nuclei isolation is highly desirable. Candidates with a PhD in the biological sciences with a strong background in molecular biology are encouraged to apply.
The successful candidate will be a highly motivated individual capable of working independently, with excellent written and verbal communication skills. All applicants must currently be eligible to work in the U.S.
COMPENSATION:
Commensurate with experience
HOW TO APPLY:
[link]
DEADLINE:
6/31/2012
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