- compbio-allhands@cgl.ucsf.edu - RBVI Mailing Lists

[Compbio-allhands] SAVE THE DATE- PETER KOLLMAN LECTURESHIP- NOVEMBER 9, 2017
by Flowers, Nicole 07 Sep '17

07 Sep '17

SAVE THE DATE THURSDAY, November 9, 2017 AT 4:00 PM Arieh Washel USC PETER A. KOLLMAN LECTURESHIP GENENTECH HALL BYERS AUDITORIUM - UCSF MISSION BAY CAMPUS LIVE WEBCAST: http://tiny.ucsf.edu/LF29og Reception to follow in Byers Hall 2rd Floor Lounge -- Nicole Takesono Flowers BMI, BP, CCB, & PSPG Graduate Program Assistant UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94143 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] Fwd: Bioinformatics Scientist Position at Tenaya Therapeutics
by Tom Ferrin 31 Aug '17

31 Aug '17

-------- Forwarded Message -------- Subject: Bioinformatics Scientist Position at Tenaya Therapeutics Date: Wed, 30 Aug 2017 17:40:58 +0000 From: Carla Daniel <Carla(a)thecolumngroup.com> To: tef(a)cgl.ucsf.edu <tef(a)cgl.ucsf.edu>, babbitt(a)cgl.ucsf.edu <babbitt(a)cgl.ucsf.edu> Dear Professors Ferrin and Babbit, I manage recruiting for The Column Group, a VC here in SF that recently launched Tenaya Therapeutics. In our outreach for a Bioinformatics Scientist, Nathan Salomonis suggested that we connect with the two of you in hopes of reaching students in the PSPG and bioinformatics PhD programs. This will be the first Bioinformatics Scientist at Tenaya and the ideal candidate would have a strong biology background and an interest/ability to establish the functionality at the company. The position description is attached and we would welcome any referrals you might have, or simply sharing this opportunity with your students. Thank you for helping us in our outreach! Best, Carla *Carla Daniel* /Director of Recruiting/ office 415 865 2064 mobile 510 910 2449 email// carla(a)thecolumngroup.com <mailto:carla@thecolumngroup.com> website www.thecolumngroup.com <http://www.thecolumngroup.com/>

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[Compbio-allhands] Fwd: CryoEM Faculty Position
by Andrej Sali 30 Aug '17

30 Aug '17

> Begin forwarded message: > > From: STEFANIE RAE LANNOYE <slannoye(a)wisc.edu> > Subject: CryoEM Faculty Position > Date: August 30, 2017 at 11:12:38 AM PDT > To: "sali(a)salilab.org" <sali(a)salilab.org> > > Sending on behalf of the UW Biochemistry CryoEM Faculty Search Committee. > > > Dear Andrej, > > The Department of Biochemistry at the University of Wisconsin-Madison is searching for an individual with an outstanding record of teaching and research relevant to high-resolution cryo-electron microscopy of biomolecules or cellular function. Attached please find a letter with more information and a flyer describing this position, which has been posted with a closing date of October 31, 2017 but will remain open until a successful candidate is hired. > > We would greatly appreciate your bringing this to the attention of individuals who will bring exceptional potential to advance a contemporary area of cellular or molecular biosciences and strength in the science of cryo-electron microscopy. > > Thank you, > > CryoEM Faculty Search Committee > Brian Fox, John Markley, Bob Landick, Sam Butcher, Marisa Otegui, Paul Ahlquist, Katrina Forest, Anjon Audhya > >

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[Compbio-allhands] Fwd: postdoctoral positions
by Andrej Sali 10 Aug '17

10 Aug '17

> Begin forwarded message: > > From: Jan Kosinski <kosinski(a)embl.de> > Subject: postdoctoral positions > Date: August 10, 2017 at 10:11:50 AM PDT > To: Andrej Sali <sali(a)salilab.org> > > Dear Andrej, > > Thanks for your offer of spreading the message about the postdoctoral positions in my group! > > So, the postdoctoral positions are now available in my group in the areas of: > > 1) integrative modeling of infection cycles using network biology and pathway modeling methods > https://www.embl.de/jobs/searchjobs/index.php?ref=HH_00123 <https://www.embl.de/jobs/searchjobs/index.php?ref=HH_00123> > 2) integrative structure modeling of protein complexes. > https://www.embl.de/jobs/searchjobs/index.php?ref=HH_00122 <https://www.embl.de/jobs/searchjobs/index.php?ref=HH_00122> > > My group is located at EMBL Hamburg (https://www.embl-hamburg.de/research/unit/kosinski/ <https://www.embl-hamburg.de/research/unit/kosinski/>) and Centre for Structural Systems Biology (CSSB, http://www.cssb-hamburg.de/research/jan_kosinski/index_eng.html <http://www.cssb-hamburg.de/research/jan_kosinski/index_eng.html>). Please see the above links and the attached PDF for details. > > There is also a possibility of applying for EIPOD fellowship: https://www.embl.de/training/postdocs/08-eipod/ <https://www.embl.de/training/postdocs/08-eipod/> > > I would be grateful if you could spread or forward this information to anyone who might be interested! > > Thanks in advance, > Jan > > > >

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[Compbio-allhands] Molecular Modeler/Computational Chemist/Drug Design at Protagonist Therapeutics
by Andrej Sali 01 Aug '17

01 Aug '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

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[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 13 Jul '17

13 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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[Compbio-allhands] Fwd: computational chemistry position at Amgen
by Jacobson, Matt 29 Jun '17

29 Jun '17

-- Matt Sent from my iPhone Begin forwarded message: From: "Andrews, Kristin" <kmeagher(a)amgen.com<mailto:kmeagher@amgen.com>> Date: June 29, 2017 at 3:15:01 PM EDT To: "Matt.Jacobson(a)ucsf.edu<mailto:Matt.Jacobson@ucsf.edu>" <Matt.Jacobson(a)ucsf.edu<mailto:Matt.Jacobson@ucsf.edu>> Subject: computational chemistry position at Amgen Dear Professor Jacobson, Amgen is looking for a talented computational chemist to join our group in Cambridge, MA. Please pass along the job listing below to any outstanding graduate students or post-docs who might be looking for a position. https://careers.amgen.com/job/7483540/scientist-computational-chemist-cambr… Thanks, Kristin Andrews, Ph.D. Amgen Inc 360 Binney St. Cambridge, MA 02142

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[Compbio-allhands] Fwd: Lilly Biotechnology San Diego Computational Chemistry job opening
by Andrej Sali 28 Jun '17

28 Jun '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: Michal Vieth <vieth_michal(a)lilly.com> > Subject: Lilly Biotechnology San Diego Computational Chemistry job opening > Date: June 28, 2017 at 6:45:33 PM GMT+2 > To: Charles Brooks <brookscl(a)umich.edu>, Benoit Roux <roux.uchicago(a)gmail.com>, "jens(a)meilerlab.org" <jens(a)meilerlab.org>, "ruben(a)ucsd.edu" <ruben(a)ucsd.edu>, "adam.godzik(a)gmail.com" <adam.godzik(a)gmail.com>, Wonpil Im <woi216(a)lehigh.edu>, "Andrej Sali (sali(a)salilab.org) (sali(a)salilab.org)" <sali(a)salilab.org>, Ingo Mugge <Ingo.Mugge(a)alkermes.com> > > Colleagues, > I hope this message finds you in good spirits. > > Should you have any students, postdocs interested in working here in Lilly Biotechnology Center in San Diego, please have them apply for this entry level position: > > https://careers.lilly.com/job/san-diego/computational-research-scientist/41… <https://careers.lilly.com/job/san-diego/computational-research-scientist/41…> > > It is super exciting place to work, do research and interact with top scientists from other disciplines in biotech like setting, > > Best regards, > michal > > *************************************************************** > Dr hab. Michal Vieth, PhD > Discovery Chemistry Research > Lilly Biotechnology Center, San Diego, Ca 92121 > (317)277-3959, m.vieth(a)lilly.com <mailto:m.vieth@lilly.com> > *************************************************************** > This e-mail message (including any attachments) contains information that may be confidential and/or privileged. If you are not the intended recipient, please do not read, use, copy or disclose to anyone the e-mail message (or attachments) or any information contained in the e-mail message (or attachments). If you have received or obtained this e-mail message (or attachments) in error, please notify the sender by return e-mail (m.vieth(a)lilly.com <mailto:m.vieth@lilly.com>)

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[Compbio-allhands] Fwd: Biophysicist at Orthogon Therapeutics
by Brian Shoichet 30 May '17

30 May '17

FYI ---------- Forwarded message ---------- From: Guillaume Poncet-Montange <gponcet(a)orthogontherapeutics.com> Date: Tue, May 30, 2017 at 2:42 PM Subject: Biophysicist at Orthogon Therapeutics To: bshoichet(a)gmail.com Cc: Ali Munawar <amunawar(a)orthogontherapeutics.com> Hi Brian (Ccied Ali Munawar, CEO of OrthogonTherapeutics), I hope you are doing well. Cindy and I have moved from Houston to Boston a year ago and we are now working in 2 different biotechs. I am leading the structural biology group at Orthogon Therapeutics,LLC. I am contacting you because we are looking for a biophysicist (entry level) with a strong knowledge in measuring fragment affinities by ITC. We are a FBDD start-up and this person should have a biochemistry background and ideally some computational chemistry skills. I thought that you may have some candidates in mind who could be a good fit. I have attached the job posting. Looking forward to hearing back from you, Best, Guillaume Guillaume Poncet-Montange, Pharm.D., Ph.D. Senior Scientist, Orthogon Therapeutics, LLC 960 Turnpike Street, Unit 10, Canton, MA 02021 Office: (339)-502-9108 <(339)%20502-9108> Cell: (415)-630-0492 <(415)%20630-0492> email: gponcet(a)orthogontherapeutics.com -- Brian Shoichet, Professor, UCSF *http://www.bkslab.org/contact.php <http://www.bkslab.org/contact.php>*

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[Compbio-allhands] Fwd: Ian Wilson‘s lab at ShanghaiTech is looking for research associate/assisstant professors
by Andrej Sali 24 May '17

24 May '17

below -- 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: "zhaosw(a)shanghaitech.edu.cn" <zhaosw(a)shanghaitech.edu.cn> > Subject: Ian Wilson‘s lab at ShanghaiTech is looking for research associate/assisstant professors > Date: May 23, 2017 at 4:55:34 PM PDT > To: sali <sali(a)salilab.org> > Cc: yangbei <yangbei(a)shanghaitech.edu.cn> > > Hi Andrej, > > Hope this email finds you well:) > > Ian Wilson's lab (focusing on antibody structural research by multi-approaches) is looking for research associate/assistant professors [like specialist at UCSF] in structural and computational biology fields. Ian's co-PI Bei (who is cc'ed) is responsible for the recruitment and she is searching for people with aboard experience, she really wants to get your help to spread the attached ad around UCSF. > > Thank you very much! > Suwen

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[Compbio-allhands] Fwd: Protein Modelling Post Doc – Mike Sternberg – Imperial College
by Andrej Sali 18 May '17

18 May '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: "Sternberg, Michael J E" <m.sternberg(a)imperial.ac.uk> > Subject: FW: Protein Modelling Post Doc – Mike Sternberg – Imperial College > Date: May 18, 2017 at 9:33:37 AM PDT > > Dear Colleague > > I would be grateful if you would advertise > > Thanks > > Mike > --------------------------------------- > > Protein Modelling Post Doc – Mike Sternberg – Imperial College > Salary: £36,070 - £43,350 per annum > > Applications are invited for a Research Associate position to join the Structural Bioinformatics Group, within the Department of Life Sciences based at the South Kensington Campus. The post holder will work as a member of a small team that is developing methods for enhance protein structure prediction, using these methods to predict protein structures and mapping genetic variants to these structures. The post is part of a joint UK (funded by the BBSRC) and USA (funded by the NSF) grant. Our colleagues in the USA are the group of Prof Vakser (university of Kansas) who will be using our predicted structures as the basis to predict structures for protein complexes. > > You must have, or have submitted, a research orientated PhD (or equivalent) involving the development and application of software to a scientific problem, ideally applied to protein structure. You will have proven programming experience that results in the development of a substantive algorithm tackling a problem modelling protein structure. You will have experience in developing high-level code to a professional standard of robustness and clarity. You will have extensive knowledge and experience in code development in C (or variants) or Python, or Perl (or very close equivalent). Experience/knowledge developing scientific software to a standard suitable for public distribution is also essential. Experience of working with protein data bank files and a successful track record in academic publication where you made a substantial contribution to the project via computational work are desirable. Experience of developing web sites for use by the scientific community, ideally in bioscience or biomedicine and experience of database development, ideally in bioscience or biomedicine, are also desirable. Should you have any queries please contact: Professor Michael Sternberg by email: m.sternberg(a)imperial.ac.uk <mailto:m.sternberg@imperial.ac.uk> > This is a full time position, funded by the BBSRC available for up to 26.5 months, with a possibility of extension subject to funding. > Any candidate who has not been awarded their PhD, will be appointed as a Research Assistant within the salary range £31,740 - £33,370 per annum. > Closing Date 15 June 2017 (midnight BST) > How To Apply see: > https://www4.ad.ic.ac.uk/OA_HTML/OA.jsp?page=/oracle/apps/irc/candidateSelf… <https://www4.ad.ic.ac.uk/OA_HTML/OA.jsp?page=/oracle/apps/irc/candidateSelf…>

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[Compbio-allhands] 5/18/17 Seminar with Michael Burkart
by Flowers, Nicole 13 May '17

13 May '17

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall Auditorium Livestream: http://tiny.ucsf.edu/1l49jp Michael Burkart UCSD Protein-protein interactions in acetate biosynthetic pathways May 18, 2017 R. Muir, Host BBC Seminars are supported by the Biophysics, Bioinformatics, and Chemistry & Chemical Biology IFM, Department of Pharmaceutical Chemistry, QBC, HARC Center, the Center for Systems and Synthetic Biology, and the Quantitative Student Group Series. Nicole Takesono Flowers BMI, BP, CCB, & PSPG Graduate Program Assistant UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94143 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] 5/11/17 Seminar with Nieng Yan
by Flowers, Nicole 05 May '17

05 May '17

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall Auditorium Livestream: http://tiny.ucsf.edu/1l49jp Nieng Yan Tsinghua University A Molecular Movie of the Excitation-Contraction Coupling May 11, 2017 B. Huang, Host BBC Seminars are supported by the Biophysics, Bioinformatics, and Chemistry & Chemical Biology IFM, Department of Pharmaceutical Chemistry, QBC, HARC Center, the Center for Systems and Synthetic Biology, and the Quantitative Student Group Series. Nicole Takesono Flowers BMI, BP, CCB, & PSPG Graduate Program Assistant UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94143 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] ICHS Seminar Series: Jure Leskovec
by Rizk-Jackson, Angela 01 May '17

01 May '17

We invite you to join us for the next ICHS Seminar Series offering: "Scaled computation & inferential methods in biomedicine: Machine learning for biomedical applications” Jure Leskovec, PhD Associate Professor of Computer Science, Stanford University Chief Scientist, Pinterest Wednesday, May 17, 2017 @ 10am Lecture: 10-11am Reception: 11-11:30pm (light refreshments will be served) Mission Bay Campus: Mission Hall room 1400, 550 16th St About the Speaker: Jure’s research focuses on mining and modeling large social and information networks, their evolution, and diffusion of information and influence over them; and at Pinterest he works on machine learning problems. Early this year, he was selected as one of the initial cohort of Chan-Zuckerberg BioHub Investigators. RSVP here<https://ucsf.co1.qualtrics.com/jfe/form/SV_6GoMlf3CekJNLz7> Contact: Angela.Rizk-jackson(a)ucsf.edu<mailto:Angela.Rizk-jackson@ucsf.edu>

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[Compbio-allhands] PETER KOLLMAN LECTURESHIP- April 13, 2017
by Flowers, Nicole 07 Apr '17

07 Apr '17

Ron Dror Stanford Revealing the structural basis for GPCR drug action through atomic-level simulation. Thursday, April 13, 2017 3:00 PM PETER A. KOLLMAN LECTURESHIP Genentech Hall Byers Auditorium UCSF Mission Bay Campus Webcast: https://lecture.ucsf.edu/ets/Catalog/Full/6cc7b194adc54d1eb01b99ca12d91ec221 Reception in Byers Hall 2nd Floor Atrium at 4:30 pm. Nicole Takesono Flowers BMI, BP, CCB, & PSPG Graduate Program Assistant UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94143 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] Poster Submission: UCB/UCSF Computational Health Science Symposium
by Rizk-Jackson, Angela 04 Apr '17

04 Apr '17

Dear Colleagues, We would like to invite interested faculty, students, and staff to display posters of their work during the 4:30-6pm reception for the jointly sponsored UC Berkeley / UCSF Computational Health Science Symposium on April 25th at Mission Bay. Details of the event can be found here<https://www.eventbrite.com/e/uc-berkeley-ucsf-computational-health-science-…>. Please return the attached form as soon as possible if you would like to be considered for a poster spot at the reception. We are able to accommodate a limited number of posters during this session, and priority will be given on a first-come first-served basis. Feel free to let me know if you have any questions. Best, Angela Angela Rizk-Jackson, Ph.D. Director of Operations Institute for Computational Health Sciences University of California, San Francisco (415) 514-0537 Angela.Rizk-Jackson(a)ucsf.edu<mailto:Angela.Rizk-Jackson@ucsf.edu> <http://ichs.ucsf.edu/> <https://mail.ucsf.edu/owa/Angela.Rizk-jackson@ucsf.edu/ICHS.ucsf.edu> <applewebdata://B868DB3E-8FDA-4C59-B156-AEA5C76C0163/UrlBlockedError.aspx> ICHS.ucsf.edu<http://ichs.ucsf.edu/> <http://ichs.ucsf.edu/>

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[Compbio-allhands] 4/6/17 Seminar with George Peng Wang
by Flowers, Nicole 30 Mar '17

30 Mar '17

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall Auditorium Livestream: https://lecture.ucsf.edu/ets/Catalog/Full/6cc7b194adc54d1eb01b99ca12d91ec221 George Peng Wang Georgia State University Chemical biology concepts and experiments for everyone April 6, 2017 L. Wang, Host BBC Seminars are supported by the Biophysics, Bioinformatics, and Chemistry & Chemical Biology IFM, Department of Pharmaceutical Chemistry, QBC, HARC Center, the Center for Systems and Synthetic Biology, and the Quantitative Student Group Series. Nicole Takesono Flowers BMI, BP, CCB, & PSPG Graduate Program Assistant UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94143 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] 3/30/17 Seminar with
by Flowers, Nicole 24 Mar '17

24 Mar '17

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall Auditorium Patrick Griffin The Scripps Research Institute, Florida Differential HDX to Probe Ligand-Mediated Receptor Signaling March 30, 2017 B. DeGrado & A. Sali, Hosts BBC Seminars are supported by the Biophysics, Bioinformatics, and Chemistry & Chemical Biology IFM, Department of Pharmaceutical Chemistry, QBC, HARC Center, the Center for Systems and Synthetic Biology, and the Quantitative Student Group Series. Nicole Takesono Flowers BMI, BP, CCB, & PSPG Graduate Program Assistant UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94143 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] RESCHEDULED: Jure Leskovec Seminar
by Rizk-Jackson, Angela 23 Mar '17

23 Mar '17

I am pleased to inform you that the ICHS Seminar featuring Jure Leskovec has been rescheduled. See below for info and mark your calendars! Reminders will be sent out as the date approaches. "Scaled computation & inferential methods in biomedicine: Machine learning for biomedical applications” Jure Leskovec, PhD Associate Professor of Computer Science, Stanford University Chief Scientist, Pinterest Wednesday, May 17, 2017 @ 10am Lecture: 10-11am Reception: 11-11:30pm (light refreshments will be served) Mission Bay Campus: Mission Hall 1400, 550 16th St About the Speaker: Jure’s research focuses on mining and modeling large social and information networks, their evolution, and diffusion of information and influence over them; and at Pinterest he works on machine learning problems. Contact: Angela.Rizk-jackson(a)ucsf.edu<mailto:Angela.Rizk-jackson@ucsf.edu>

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[Compbio-allhands] Fwd: Recuitment_computational biology by iHuman Institute ShanghaiTech University
by Jacobson, Matt 16 Mar '17

16 Mar '17

- Matt Dear Professors: This is a letter from iHuman Institute of ShanghaiTech University, Shanghai, China. Now we are seeking candidates for our Faculty and Postdoc Positions, who focus on computational biology, especially Whole Cell Modeling. It's an honor for us if you can recommend highly motivated and outstanding international candidates. You can get more details from the attached file. About iHuman: iHuman Institute is a new international effort established as a research institute located on the campus of ShanghaiTech University. The institute is a gateway to the world of Shanghai life science research. What makes iHuman Institute special is that it is focused exclusively on the basic and applied science of human cell signaling, integrating multiple tools for scientific discovery, and bringing together leading researchers throughout the world. Cell surface receptors and their related intracellular proteins are responsible for human cellular communications with each other and their environment, and are involved in a wide range of physiological activities. Such a central role in human biology makes cell signaling the target for intervention for tuning physiological responses and fighting numerous conditions and diseases. These proteins are central to understanding the evolution of mankind and human cognition at a molecular level. Please let us know if you have any questions, also you can contact us by replying the E-mail directly. Thank you for your time. iHuman HR Team http://ihuman.shanghaitech.edu.cn/ [cid:07755f86-88bf-4a6f-a3ca-c06c93f99b63] [cid:07AE44DF-E495-4781-B290-5DD2A125D5A3]

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[Compbio-allhands] informal seminar announcement
by Tom Ferrin 16 Mar '17

16 Mar '17

Please let students and other researchers in your lab know about the following informal seminar. Tristan has created a nice plug-in tool for our ChimeraX software that he'll talk about. * Tristan Croll * * PhD Student *Cambridge University * * *Friday, March 24* *2 - 3pm* *Genentech Hall S-203* *Title:* ISOLDE: a next-generation model-building environment for challenging molecular structures *Abstract:* Given an experimental dataset of sufficiently high resolution, modern model-building and refinement software can often build high-quality, near-complete models almost entirely automatically. However, as resolution degrades to the point where individual atoms are no longer resolved, the task becomes substantially more challenging and dependent upon user intervention. Current standards at these resolutions remain quite poor, with structures regularly deposited to the Protein Data Bank with outlier rates 1-2 orders of magnitude higher than expected of high resolution structures. ISOLDE is a set of tools which applies interactive molecular dynamics to significantly improve the ease and fidelity of model-building into such data, in essence by making the task feel similar to interacting with a real, physical molecule. In this seminar I will give a preview of the ISOLDE package and workflow, with examples from both EM and crystallographic structures.

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[Compbio-allhands] 3/16/17 Seminar with Emily Balskus
by Flowers, Nicole 15 Mar '17

15 Mar '17

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall Auditorium Livestream URL available upon request Emily Balskus Harvard Chemical Discovery in the Human Microbiota March 16, 2017 F. Ugur, Host BBC Seminars are supported by the Biophysics, Bioinformatics, and Chemistry & Chemical Biology IFM, Department of Pharmaceutical Chemistry, QBC, HARC Center, the Center for Systems and Synthetic Biology, and the Quantitative Student Group Series. Nicole Takesono Flowers BMI, BP, CCB, & PSPG Graduate Program Assistant UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94143 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] Fwd: Postdoc in Protein 3D Modelling Imperial College
by Andrej Sali 15 Mar '17

15 Mar '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: "Sternberg, Michael J E" <m.sternberg(a)imperial.ac.uk> > Subject: FW: Postdoc in Protein 3D Modelling Imperial College > Date: March 15, 2017 at 5:56:23 AM MDT > > > Research Associate in Bioinformatics – Protein 3D Modelling > > Imperial College, Department of Life Sciences > > Salary £36,070 - £43,350 per annum > > Applications are invited for a Research Associate position to join the Structural Bioinformatics Group, within the Department of Life Sciences based at the South Kensington Campus. The post is part of a joint UK (funded by the BBSRC) and USA (funded by the NSF) grant. Our colleagues in the USA are the group of Prof Vakser (university of Kansas) who will be using our predicted structures as the basis to predict structures for protein complexes. > > The post holder will work as a member of a small team that is developing methods for enhance protein structure prediction, using these methods to predict protein structures and mapping genetic variants to these structures. > > You must have, or have submitted, a research orientated PhD (or equivalent) involving the development and application of software to a scientific problem, ideally applied to protein structure. You will have proven programming experience that results in the development of a substantive algorithm tackling a problem modelling protein structure. You will have experience in developing high-level code to a professional standard of robustness and clarity. You will have extensive knowledge and experience in code development in C (or variants) or Python, or Perl (or very close equivalent). Experience/knowledge developing scientific software to a standard suitable for public distribution is also essential. Experience of working with protein data bank files and a successful track record in academic publication where you made a substantial contribution to the project via computational work are desirable. Experience of developing web sites for use by the scientific community, ideally in bioscience or biomedicine and experience of database development, ideally in bioscience or biomedicine, are also desirable. > > Any candidate who has not been awarded their PhD, will be appointed as a Research Assistant within the salary range £31,740 - £33,370 per annum. > > This is a full time position, funded by the BBSRC available for up to 30 months. > Closing Date 5 April 2017 (Midnight GMT) > > For initial enquiries contact Prof Mike Sternberg m.sternberg(a)imperial.ac.uk <mailto:m.sternberg@imperial.ac.uk> > > For full details and application procedure see: > > > https://www4.ad.ic.ac.uk/OA_HTML/OA.jsp?page=/oracle/apps/irc/candidateSelf… <https://www4.ad.ic.ac.uk/OA_HTML/OA.jsp?page=/oracle/apps/irc/candidateSelf…>..

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