July 2017 - compbio-allhands@cgl.ucsf.edu

[Compbio-allhands] Fwd: Positions Available
by Andrej Sali 21 Jul '17

21 Jul '17

-- Andrej Sali, Ph.D. Professor, Department of Bioengineering and Therapeutic Sciences Department of Pharmaceutical Chemistry California Institute for Quantitative Biosciences University of California, San Francisco UCSF MC 2552 Byers Hall Room 503B 1700 4th Street San Francisco, CA 94143, USA Tel +1 (415) 514-4227; Fax +1 (415) 514-4231 Administrative Assistant: Steve Ha, assistant(a)salilab.org, Tel +1 (415) 514-4228, 502-8084 Email sali(a)salilab.org; Web http://salilab.org > Begin forwarded message: > > From: "Gregory A. Voth" <gavoth(a)uchicago.edu> > Subject: Positions Available > Date: July 21, 2017 at 11:54:41 AM PDT > > > Dear Colleague, > > There is the possibility of two postdoc positions in my group, subject to the qualifications and experience of the applicants, as well as the final availability of funding. > > The first project will involve simulations of complex membranes and proteins/peptides interacting with them, at both the all-atom and coarse-grained levels. Experience with MD simulation is required, and preferably also with free energy sampling techniques such as umbrella sampling, replica exchange, and metadynamics. > > The second postdoc position will involve the development of CG simulation software in the LAMMPS MD code environment. Significant experience with MD simulation as well as the programming related to it is required. > > Please ask any interested student in your group to contact me by email. > > Best wishes, > Greg > > _____________________________________________________________________ > > Gregory A. Voth, Ph.D. > Haig P. Papazian Distinguished Service Professor > Department of Chemistry, James Franck Institute, and Institute for Biophysical Dynamics > > Department of Chemistry > The University of Chicago > 5735 S. Ellis Avenue > Chicago, Illinois 60637 > Phone: 773-702-9092 > Fax: 773-795-9106 > Administrative Assistant: 773-702-9096 > Email: gavoth(a)uchicago.edu <mailto:gavoth@uchicago.edu> > Group Web Site: vothgroup.uchicago.edu <http://vothgroup.uchicago.edu/> > ____________________________________________________________________ > > > > > > >

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[Compbio-allhands] Fwd: Postdoc position in computational biophysics/biology
by Andrej Sali 12 Jul '17

12 Jul '17

Sent from my iPhone Begin forwarded message: > From: Guowei Wei <wei(a)math.msu.edu> > Date: July 13, 2017 at 5:21:09 AM GMT+2 > To: "Wei, Guowei" <wei(a)math.msu.edu> > Subject: Postdoc position in computational biophysics/biology > > Dear Colleagues, > I am looking for a motivated postdoc to join my group. The research project can be anything involving one of the following topics: 1) variational multiscale modeling of biomolecular systems, 2) machine learning/deep learning prediction of biomolecular structures, function, dynamics and transport, and 3) analysis and characterization of biomolecules using algebraic topology, differential geometry or graph theory. > > The ideal candidate should have experience with biophysical, biochemical or mathematical modeling and computation of biomolecules. Requirements include a Ph.D. in either Mathematics, Physics, Computational Biology, Computer Science or other quantitative science and experience on computational biological science. Interested applicants should write to weig(a)msu.edu and include a CV. > > Best regards > > Guowei > ----------------------------------------------------------------------- > Guowei Wei, > Professor > Departments of Mathematics, > Electrical and Computer Engineering, and > Biochemistry and Molecular Biology > Michigan State University > http://math.msu.edu/~wei > ----------------------------------------------------------------------- > >

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[Compbio-allhands] Fwd: RCSB Protein Data Bank Position Available at UCSD
by Andrej Sali 06 Jul '17

06 Jul '17

> Begin forwarded message: > > From: "Stephen K. Burley Rutgers Proteomics" <sburley(a)proteomics.rutgers.edu> > Subject: RCSB Protein Data Bank Position Available at UCSD > Date: July 6, 2017 at 10:57:27 PM GMT+2 > To: "Dr. Sali" <sali(a)salilab.org> > > Andrej: > > I would be most grateful if you could circulate the > job posting below to anyone you think would benefit > from continuing their career at RCSB PDB West > > With thanks in advance and best wishes SKB > > http://www.rcsb.org/pdb/static.do?p=general_information/about_pdb/contact/j… > > Scientific Software Developer > > Develop, implement, and maintain complex scientific and web-based software > systems for the RCSB Protein Data Bank (PDB; http://www.rcsb.org) at the > University of California San Diego (UCSD). > > The Scientific Software Developer will work closely and collaboratively > with other software developers and scientists at the San Diego > Supercomputer Center (SDSC) and the RCSB PDB partner sites to expand > RCSB.org's functionality and reliability as a premier biological data and > information resource. > > * Develop new scalable algorithms for the mining and analysis of the > rapidly growing PDB archive using leading edge Big Data technologies. > Design and implement user interfaces for the query, analysis, reporting, > and visualization of 3D structural information and associated annotations. > * Integrate external database resources with RCSB PDB to provide a > structural view of biology. Help lead the design of databases and data > warehouses to store and aid in the query of data. > * Recommend and implement changes in software development, maintenance and > system standards for analysis algorithms, tools, and infrastructure. > * Serve as a recognized expert on relevant scientific and technical > aspects of the various web, web services, and database components of the > RCSB PDB. Stays abreast of the latest development in structural and > computational biology and new technologies. > * Applies advanced bioinformatics concepts to design, develop, modify, > debug, and evaluate highly complex software programs and web tools. > Translates scientific problems into scalable and maintainable software > solutions that meet end user needs. > > Qualifications: Advanced understanding of programming in one or more > languages is required (Java, Python or Javascript); In-depth understanding > of Bioinformatics; understanding of Biology or Chemistry; and an advanced > degree > > Postdoctoral Fellows > > The Challenge: Develop innovative analysis, integration, query, and > visualization tools for 3D biomolecular structures to help accelerate > research and training in biology, medicine, and related disciplines. In > these projects, we employ the latest advances in computer science to > develop highly interactive features and scalable services and workflows. > The overall goal is always to develop highly interactive features for the > RCSB PDB website. > > Two positions are available: one focused on Visualization and on one > Macromolecular Structure/Biological Assemblies. Possible project areas > include: > > * Innovative representations for 3D structural data, including biological > assemblies > * Visualizations for comparative analyses > * Multiscale rendering for exploring large structures > * Using machine learning to build the next generation search engine for > molecular biology > > >

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