[Biojava-dev] biojava-dev Digest, Vol 147, Issue 1
ayesha rehman
ayeshar169 at gmail.com
Sat Jul 11 03:48:16 UTC 2015
I m doing some work on the amino acid properties module
On Jul 2, 2015 8:13 PM, <biojava-dev-request at mailman.open-bio.org> wrote:
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> Today's Topics:
>
> 1. [Job] Java Web Developer Positions at RCSB Protein Data Bank,
> UC San Diego (Rose, Peter)
> 2. [Job] Computational Biologist/Structural Bioinformatics/Big
> Data Analytics (Rose, Peter)
> 3. [Job] Postdoctoral Fellow Computational Biology (Rose, Peter)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Thu, 2 Jul 2015 05:26:27 +0000
> From: "Rose, Peter" <pwrose at ucsd.edu>
> To: "biojava-l at mailman.open-bio.org" <biojava-l at mailman.open-bio.org>,
> "biojava-dev at mailman.open-bio.org" <
> biojava-dev at mailman.open-bio.org>
> Subject: [Biojava-dev] [Job] Java Web Developer Positions at RCSB
> Protein Data Bank, UC San Diego
> Message-ID: <D1BA1991.17FBA%pwrose at ucsd.edu>
> Content-Type: text/plain; charset="us-ascii"
>
> The Research Collaboratory for Structural Bioinformatics (RCSB) Protein
> Data Bank (www.rcsb.org)
> is seeking exceptional developers, and we know we're not alone in our
> search. So why choose to work with us? Our team values open discussion
> and contribution. Starting from your first day, you will shape software
> and services used by thousands of people around the world. RCSB PDB can
> trace its lineage back to the 1970's, but we still operate like a
> start-up. Have a great idea? Let's hear it. Want to try a new
> technology? Let's learn it. Want to write code at scale? Let's do it.
> Everyone at our organization is passionate about what we do, and that is
> why we are leaders in our field. We want to hear from skilled
> Developers, people passionate about their craft and what they can bring
> to the field. We are currently looking for experienced developers to
> join our team of agile software Developers at the University of
> California, San Diego.
>
> The RCSB Protein Data Bank (www.rcsb.org)
> is one of the world's leading biological databases with more than
> 300,000 unique users per month from over 160 countries. It enables
> access to the singular global archive of the three-dimensional
> structures of proteins and nucleic acids and is a key resource for the
> design of new medicines, biofuels, nanomaterials, and enables
> fundamental discoveries in biology and medicine.
> Experienced web developer will be part of our agile team of
> scientists and software developers who expand the capabilities of our
> databases, search engines, websites, web services, and visualization and
> analysis tools. The candidate will implement cutting edge technology on
> our in-house cloud using industry standards and best web development
> Practices.
>
> QUALIFICATIONS
>
> * BS Degree in Computer Science; or comparable combination of
> education and experience with considerable focus in web and software
> development.
>
> * Experience developing the presentation layer of a
> dynamic, database-driven web application using HTML, CSS, JSON,
> JavaScript, JavaScript libraries, and Java/JSP. Experience in adoptive
> layouts for mobile devices and browser compatibility.
>
> * Experience with RDBMS such as MySQL, including data
> modeling and experience with object-relational mapping tools such as
> Hibernate. Experience with object storage, such as NoSQL databases is a
> plus.
>
> * Advanced experience in the Java programming language and Java EE
> technology.
>
> * Experience in agile software development and test-driven
> design. Experience with build tools such as Maven and continuous
> integration systems such as Bamboo, Jenkins, or Travis.
>
> For more requirements or to apply, please view the UCSD job page
> (
> https://jobs.ucsd.edu/bulletin/job.aspx?cat=new&sortby=post&jobnum_in=7589
> 6).
>
>
> --
> Peter Rose, Ph.D.
> Site Head, RCSB Protein Data Bank West (http://www.rcsb.org)
> San Diego Supercomputer Center (http://bioinformatics.sdsc.edu)
> University of California, San Diego
> +1-858-822-5497
>
>
>
>
>
> ------------------------------
>
> Message: 2
> Date: Thu, 2 Jul 2015 05:35:12 +0000
> From: "Rose, Peter" <pwrose at ucsd.edu>
> To: "biojava-l at mailman.open-bio.org" <biojava-l at mailman.open-bio.org>,
> "biojava-dev at mailman.open-bio.org" <
> biojava-dev at mailman.open-bio.org>
> Subject: [Biojava-dev] [Job] Computational Biologist/Structural
> Bioinformatics/Big Data Analytics
> Message-ID: <D1BA1B9F.17FCB%pwrose at ucsd.edu>
> Content-Type: text/plain; charset="iso-8859-1"
>
> Computational and Data Science Research Specialist
>
> The Structural Bioinformatics Group at the
> San Diego
> Supercomputer Center (SDSC) is seeking an exceptional scientific
> software developer to work on our new project ?Compressive Structural
> Bioinformatics? funded by the US National Institutes of Health (NIH) Big
> Data to Knowledge (BD2K) initiative
> <https://datascience.nih.gov/bd2k/funded-programs/software>.
> The Challenge is to enable efficient research on the rapidly growing
> number of 3D molecular structures of ever increasing size and
> complexity, and develop highly scalable 3D structural search, analysis,
> workflow, data-exchange, and visualization tools.
>
> Our team values open discussion and
> contribution. Starting from
> your first day, you will shape software and services used by thousands
> of people around the world. Have a great idea? Let's hear it. Want to
> try a new technology? Let's learn it. Want to write code at scale? Let's
> do it. Everyone at our organization is passionate about what we do, and
> that is why we are leaders in our field. We want to hear from skilled
> scientists and software developers, people passionate about their craft
> and what they can bring to the field.
>
> The Structural Bioinformatics Group is
> involved in research and
> development activities centered around 3D structures of proteins and
> nucleic acids, the integration of structural data with other domains
> such as Medicine, Genomics, Biology, Drug Discovery, and the development
> of scalable solution to Big Data problems in Structural Bioinformatics.
> Our group leads the RCSB Protein Data Bank (PDB) (http://www.rcsb.org)
> west-coast operations, which represents the preeminent source of
> experimentally determined macromolecular structure information for
> research and teaching in biology, biological chemistry, and medicine.
> With over 300,000 unique users from over 160 countries around the world,
> the RCSB PDB is one of the leading worldwide Biological Databases.
>
> This position researches, designs,
> develops, and deploys
> innovative, highly scalable solutions for 3D structure visualization,
> structural queries, and large-scale analyses of 3D macromolecular
> complexes. Develops protocols for the efficient network data transfer
> using custom compression and streaming techniques to facilitate 3D
> visualization of large complexes on any device from phone, tablet, to
> laptop and desktop. Designs distributed parallel workflows for
> structural queries and analysis of the PDB archive.
>
> Qualifications:
>
>
> * Bachelor's degree in Structural Bioinformatics, Bioinformatics,
> Computational Biology, Computer Science or comparable combination of
> education and experience with considerable focus in scientific software
> development demonstrated by publications, participation in open source
> or other types of software projects. Strong skills in applied
> Mathematics and algorithm design. MS or Ph.D. degree preferred.
>
>
>
> * Experience in the representation and data structures of
> ligands, proteins, nucleic acids, and associated sequence information.
> Experience with 3D structure and sequence analysis algorithms.
>
>
>
> * Advanced experience in one or more of the following object
> oriented programming languages:Java, JavaScript, C++, or Python.
> Experience with software development tools including IDEs, Maven, Git,
> and continuous integration tools.
>
>
>
> * Experience in one or more of the following: development of 3D
> visualization applications and knowledge of OpenGL/WebGL, development of
> distributed parallel programming models using "Big Data" frameworks
> such as Apache Hadoop or Spark, setup of these frameworks on compute
> clusters, or development of workflow applications.
>
>
> * Demonstrated effective communication and interpersonal skills.
> Demonstrated ability to communicate technical information to technical
> and non-technical personnel at various levels in the organization and to
> external research and education audiences.
>
>
> For more requirements or to apply, please
> view the UCSD job page
> (
> http://jobs.ucsd.edu/bulletin/job.aspx?cat=information&sortby=post&jobnum_
> in=77059).
>
>
>
>
>
>
>
> ------------------------------
>
> Message: 3
> Date: Thu, 2 Jul 2015 05:51:02 +0000
> From: "Rose, Peter" <pwrose at ucsd.edu>
> To: "biojava-l at mailman.open-bio.org" <biojava-l at mailman.open-bio.org>,
> "biojava-dev at mailman.open-bio.org" <
> biojava-dev at mailman.open-bio.org>
> Subject: [Biojava-dev] [Job] Postdoctoral Fellow Computational Biology
> Message-ID: <D1BA1F55.17FEB%pwrose at ucsd.edu>
> Content-Type: text/plain; charset="iso-8859-1"
>
> San Diego Supercomputer Center
> Postdoctoral Fellow
>
>
> Summary: We are looking for two highly motivated post-docs as part of our
> new project ?Compressive Structural Bioinformatics? funded by the US
> National Institutes of Health (NIH) Big Data to Knowledge (BD2K)
> initiative.
>
> The Challenge: To enable efficient research on the rapidly growing number
> of 3D molecular structures of ever increasing size and complexity. Develop
> highly scalable 3D structural search, analysis, workflow, data-exchange,
> and visualization tools.
>
>
> Qualifications: Ph.D. in structural bioinformatics, structural biology,
> bioinformatics, computational biology or chemistry, computer science, or
> related discipline. Experience with scientific software development as
> demonstrated by publications or participation in open source software
> projects. Experience with several programming languages, including Java,
> JavaScript, C++, or Python, and software development tools. Strong skills
> in applied mathematics and algorithm design are required. Experience with
> distributed parallel computing or 3D visualization applications are a
> plus. Excellent interpersonal, written, and oral presentation skills are
> essential.
>
> Note, this position is reviewed annually on the basis of performance and
> can be renewed for a maximum of three years.
>
>
> Our Environment:
>
> The Structural Bioinformatics Group (http://bioinformatics.sdsc.edu
> <http://bioinformatics.sdsc.edu/>) at the San Diego Supercomputer Center
> (SDSC) (http://www.sdsc.edu <http://www.sdsc.edu/>) is involved in
> research and development activities centered around 3D structures of
> proteins and nucleic acids, the integration of structural data with other
> domains such as Medicine, Genomics, Biology, Drug Discovery, and the
> development of scalable solution to Big Data problems in Structural
> Bioinformatics. Our group leads the RCSB Protein Data Bank (PDB)
> west-coast operations. The RCSB PDB (http://www.rcsb.org
> <http://www.rcsb.org/>) represents the preeminent source of experimentally
> determined macromolecular structure information for research and teaching
> in biology, biological chemistry, and medicine. With over 300,000 unique
> users from over 160 countries around the world, the RCSB PDB is one of the
> leading worldwide Biological Databases.
>
> As an Organized Research Unit of UC San Diego, SDSC is a world leader in
> data-intensive computing and cyber infrastructure, providing resources,
> services, and expertise to the national research community, including
> industry and academia.
>
>
> To apply, please send cover letter and resume to Dr. Peter Rose
> (pwrose at ucsd.edu).
>
>
> --
> Peter Rose, Ph.D.
> Site Head, RCSB Protein Data Bank West (http://www.rcsb.org
> <http://www.rcsb.org/>)
> Principal Investigator, Structural Bioinformatics Laboratory
> (http://bioinformatics.sdsc.edu <http://bioinformatics.sdsc.edu/>)
> San Diego Supercomputer Center (http://www.sdsc.edu <http://www.sdsc.edu/
> >)
> University of California, San Diego
> +1-858-822-5497 <file://localhost/tel/%252B1-858-822-5497>
>
>
>
>
> ------------------------------
>
> _______________________________________________
> biojava-dev mailing list
> biojava-dev at mailman.open-bio.org
> http://mailman.open-bio.org/mailman/listinfo/biojava-dev
>
> End of biojava-dev Digest, Vol 147, Issue 1
> *******************************************
>
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