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

[Compbio-allhands] Fwd: Vertex Fellows Program
by Brian Shoichet 04 Mar '16

04 Mar '16

Might be an interesting opportunity, even for faculty. Brian Brian Shoichet, Professor Dept. of Pharmaceutical Chemistry, UCSF by courtesy: Faculty of Pharmacy & OICR, UofT sent from my phone. ---------- Forwarded message ---------- From: "Jonathan Moore" <jonathan_moore(a)vrtx.com> Date: Mar 4, 2016 6:10 AM Subject: Vertex Fellows Program To: "shoichet(a)cgl.ucsf.edu" <shoichet(a)cgl.ucsf.edu> Cc: Dear Brian, I hope all is well. I'm writing to tell you about a new Fellowship program we're launching at Vertex, and to ask for your help with identifying great candidates. The new Vertex Fellowship is intended to attract some of the most talented scientists and physicians to join Vertex for one year of immersive learning about the science of drug discovery and, in the process, expose us to diverse and innovative ways of thinking. Each Vertex Fellow will be embedded with a drug discovery project team based on their interests and our needs. In addition, we will provide Fellows with didactic multi-disciplinary training on the science of drug discovery. The program is intentionally short (one year) so it augments rather than replaces traditional postdoctoral training. David Altshuler (CSO) will personally oversee the program together with our most senior scientists (Principal Research Fellows). We expect to take on 3 - 6 Vertex Fellows across our sites in the Fall of 2016. We will provide career advice and mentorship to help the fellows on their way to a successful career in biomedical science. I am asking for your help with identifying potential Fellows who would be excited about such an opportunity. Fellows could be finishing a PhD, MD or joint program, or completing clinical training. We will also consider faculty who have a sabbatical and would be interested in the experience. (Kit Parker, a faculty member at Harvard, is currently spending a sabbatical at Vertex.) In short, Vertex Fellows will: · Learn about drug discovery at an innovative biotechnology company · Help patients by contributing to transformative medicines · Advance a scientific idea rapidly and effectively in a team-based environment · Receive mentorship from scientific, medical and business leaders · Join a community of Fellows that will span Vertex and academia · Accelerate their careers by learning new skills in a different setting *Do you know anyone who might be a good fit?* I'm attaching a 1-page flyer with more information. Please let me know what questions or feedback you have about the program. I’d be particularly grateful if you would pass this along to any potential Fellows whom you think might be interested. Thanks for your help, Jon Jonathan M. Moore Principal Research Fellow and Vice President Exploratory Biochemistry Vertex Pharmaceuticals Incorporated 50 Northern Avenue Boston, MA 02210 Phone: 617-341-6444 This email message and any attachments are confidential and intended for use by the addressee(s) only. If you are not the intended recipient, please notify me immediately by replying to this message, and destroy all copies of this message and any attachments. Thank you.

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[Compbio-allhands] 3/10/16 Seminar with Tuuli Lappalainen
by Flowers, Nicole 04 Mar '16

04 Mar '16

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall Auditorium Simulcast to Parnassus Campus S-161 (Please note: A lack of attendance in S-161 within the first 10 minutes of the start time will result in a cancellation of the simulcast.) Tuuli Lappalainen New York Genome Center & Columbia University Functional variation in the human genome: lessons from the transcriptome March 10, 2016 T. Friedrich, 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] 3/3/16 Seminar with Carrie Partch
by Flowers, Nicole 26 Feb '16

26 Feb '16

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall Auditorium Simulcast to Parnassus Campus S-161 (Please note: A lack of attendance in S-161 within the first 10 minutes of the start time will result in a cancellation of the simulcast.) Carrie Partch UC Santa Cruz Dissecting the molecular basis for circadian timekeeping March 3, 2016 D. Fujimori, 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: Recommendations for computational chemist position
by Jacobson, Matt 24 Feb '16

24 Feb '16

- Matt Begin forwarded message: From: David Weinberg <david.weinberg(a)ucsf.edu<mailto:david.weinberg@ucsf.edu>> Subject: Fwd: Recommendations for computational chemist position Date: February 24, 2016 at 2:12:57 PM PST To: Brian Shoichet <bshoichet(a)gmail.com<mailto:bshoichet@gmail.com>>, Matthew Jacobson <matt.jacobson(a)ucsf.edu<mailto:matt.jacobson@ucsf.edu>> Hi Matt and Brian, Jaime suggested that you guys might know someone that's a good fit for this position at Moderna Therapeutics (with whom I collaborate). See below for the details and let me know if you want me to pass on anyone's name. Best, David ------------------------------- David Weinberg, PhD UCSF Faculty Fellow University of California, San Francisco Department of Cellular and Molecular Pharmacology Office: Genentech Hall S572F // Lab: Genentech Hall S576 Phone: (415) 514-9723 // Fax: (415) 514-4112 david.weinberg(a)ucsf.edu<mailto:david.weinberg@ucsf.edu> // deweinberg(a)gmail.com<mailto:deweinberg@gmail.com> ---------- Forwarded message ---------- From: Iain McFadyen <Iain.McFadyen(a)modernatx.com<mailto:Iain.McFadyen@modernatx.com>> Date: Wed, Feb 24, 2016 at 12:10 PM Subject: Recommendations for computational chemist position To: Iain McFadyen <Iain.McFadyen(a)modernatx.com<mailto:Iain.McFadyen@modernatx.com>> I’m looking for a talented and creative computational chemist to work on structure-based design of modified nucleotides, cap analogs, tail modifications, and lipid components in collaboration with our chemistry group. If you know of someone that might fit that description, please let me know! Thanks, and hope you don’t mind this random question – I’m trying to cast as wide a net as possible. Iain P Please consider the environment before printing this email Confidentiality notice and disclaimer: The information in this message and any attachments is intended for the exclusive use of the addressee(s), is confidential and may be privileged or otherwise protected from disclosure. Any review, retransmission, dissemination or other use of, or taking of any action in reliance upon, of any such information by persons or entities other than the intended addressee(s) is prohibited. If you have received this message in error and are not the intended addressee, please notify the sender immediately and delete this message and any attachments from your system without reading or disclosing them. If you are not the intended addressee, be advised that any use of the information in this message and any attachment is prohibited and may be unlawful, and you must not copy this message or attachment or disclose the contents to any other person.

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[Compbio-allhands] Fwd: Postdoctoral position on integrating structural biology with big data to engineer next generation vaccines
by Andrej Sali 20 Feb '16

20 Feb '16

-- Andrej Sali, Ph.D. Professor, Department of Bioengineering and Therapeutic Sciences Associate Dean for Research, School of Pharmacy 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: "Jens Meiler" <jens(a)meilerlab.org> > Subject: Postdoctoral position on integrating structural biology with big data to engineer next generation vaccines > Date: February 20, 2016 at 12:52:56 PM PST > To: "James Crowe" <james.crowe(a)vanderbilt.edu> > > Please distribute widely: > > The laboratories of James E. Crowe and Jens Meiler are looking immediately > for outstanding postdoctoral candidates that will join a team of graduate > and post-graduate researchers co-advised by both mentors. The candidates > would work to integrate structural biology with big data to engineer next > generation vaccines targeting influenza, HIV, Ebola, or Marburg viruses. The > project involves computational design of broadly neutralizing antibodies, > computational engineering of vaccine candidates, and experimental structural > and functional characterization of these. Skills that are a plus, but not > all would be required, include programming/scripting, experimental > structural biology (X-ray, NMR, EM, ...), Rosetta modeling, immunology. If > interested, please submit a CV and arrange three letters of reference sent > to jens(a)meilerlab.org and james.crowe(a)vanderbilt.edu. > > ==================================================================== > > Jens Meiler, Ph.D. > Chancellor Faculty Fellow > Associate Professor > Vanderbilt University > Departments of Chemistry, Pharmacology, and Biomedical Informatics Center > for Structural Biology, Institute for Chemical Biology > > ==================================================================== > > office: MRBIII, Room 5144 B, 465 21st Ave South, Nashville, TN 37240 > mail : 7330 Stevenson Center, Station B 351822, Nashville, TN 37235 > e-mail: jens(a)meilerlab.org > WWW: www.meilerlab.org > Twitter: https://twitter.com/MeilerLab > Phone: +1 (615) 936-5662 > Fax: +1 (615) 936-2211 > Assistant: h.darling(a)vanderbilt.edu > > ==================================================================== > > >

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[Compbio-allhands] 2/25/16 Seminar with Michael Rosen
by Flowers, Nicole 19 Feb '16

19 Feb '16

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall Auditorium Simulcast to Parnassus Campus S-161 (Please note: A lack of attendance in S-161 within the first 10 minutes of the start time will result in a cancellation of the simulcast.) Michael Rosen UT Southwestern Physical Mechanisms of Cell Organization on Micron Length Scales February 25, 2016 J. Lobel, 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: Post Doc @ Imperial - Developing a structure-based database of genetic variants
by Andrej Sali 15 Feb '16

15 Feb '16

-- Andrej Sali, Ph.D. Professor, Department of Bioengineering and Therapeutic Sciences Associate Dean for Research, School of Pharmacy 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: Post Doc @ Imperial - Developing a structure-based database of genetic variants > Date: February 15, 2016 at 1:58:05 AM PST > To: Undisclosed recipients:; > > I would be grateful if you would forward to suitable finishing PhD students and postdocs > Many thanks Mike > ------------------------------------- > > > Research Associate in Bioinformatics > Developing > > Imperial College, South Kensington Campus > Department of Life Sciences/Faculty of Natural Sciences > Salary £33,860-£42,830 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 developing the software for the PhyreRisk portal which will provide a web portal to deliver to the community a resource relating human genetic variation, disease, protein structure and biological pathways. > The post holder will be responsible for developing the PhyreRisk database and provide support to users of Phyre Risk. You will collaborate closely with other members of the team modelling protein structure and you will be involved in disseminating PhyreRisk to the community. You will also be expected to apply the portal to specific problems including those at the Institute of Cancer Research in London. In addition you also assist with the teaching and the administration of research groups. > > You must have a PhD (or equivalent) involving substantial development of software to study biological systems at the genetic or molecular level. You will have proven programming experience that results in the development of a substantive and robust algorithm, web-site or database tackling a problem in protein modelling or the analysis of genetic variants. Extensive knowledge of either modelling protein structure or the analysis of genetic variants together with extensive experience of developing either web site using JavaScript/HTML (or equivalent) or an SQL (or equivalent) database for use by the bioscience and biomedical communities are essential. Understanding of the application of statistics in bioinformatics is also essential. You must have the ability to express scientific concepts verbally and in writing, especially those in bioinformatics, precisely and clearly. Ability to develop high-level code to a professional standard of robustness and clarity is also essential. Ability to identify the technical and scientific steps that need to be accomplished to develop novel and complex bioinformatics software with minimal supervision is highly desirable. > You must have excellent verbal and written communication skills, and be able to write clearly and succinctly for publication. You must be able to relate well with others, form positive relationships with a wide range of people and to work as part of a team, as well as independently and be able to prioritise in respond to deadlines. You must have a pro-active attitude in the planning of research work, and have a creative approach to problem-solving. > This is a full time position, funded by the Welcome Trust for up to three years. > Closing Date : 14 March 2016 (midnight GMT) > > How To Apply: Our preferred method of application is online via > 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…>. > Should you have any queries please contact: Professor Michael Sternberg by email:m.sternberg@imperial.ac.uk <mailto:m.sternberg@imperial.ac.uk> Alternatively, if you are unable to apply online, please contact dols.recruitment(a)imperial.ac.uk <mailto:dols.recruitment@imperial.ac.uk> by email to request an application form > > > > ******************************************** > Professor Michael J E Sternberg > Director Centre for Integrative Systems Biology and Bioinformatics (CISBIO) > Room 306 - Sir Ernst Chain Building > Department of Life Sciences > Imperial College London, London SW7 2AZ,UK > m.sternberg(a)imperial.ac.uk <mailto:m.sternberg@imperial.ac.uk> > http://www3.imperial.ac.uk/cisbio <http://www3.imperial.ac.uk/cisbio> (CISBIO) > www.sbg.bio.imperial.ac.uk <http://www.sbg.bio.imperial.ac.uk/> (Group's research) > > Tel +44 (0)20 7594 5212 > ****************************************************************************

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[Compbio-allhands] 2/18/16 Seminar with Erin O'Shea
by Flowers, Nicole 12 Feb '16

12 Feb '16

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall Auditorium Simulcast to Parnassus Campus S-161 (Please note: A lack of attendance in S-161 within the first 10 minutes of the start time will result in a cancellation of the simulcast.) Erin O'Shea Harvard Timekeeping by a Three Protein Circadian Clock February 18, 2016 J. Weissman, 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] 2/11/16 Seminar with Alice Ting
by Flowers, Nicole 05 Feb '16

05 Feb '16

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall Auditorium Simulcast to Parnassus Campus S-161 (Please note: A lack of attendance in S-161 within the first 10 minutes of the start time will result in a cancellation of the simulcast.) Alice Ting MIT Spatially-Resolved Proteomic Mapping of Living Cells Reveals New Proteins and Functions in the Mitochondria and Neuronal Synapse February 11, 2016 J Perez Bermejo, 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] 2/4/16 Seminar with Taekjip Ha
by Flowers, Nicole 29 Jan '16

29 Jan '16

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall Auditorium Simulcast to Parnassus Campus S-161 (Please note: A lack of attendance in S-161 within the first 10 minutes of the start time will result in a cancellation of the simulcast.) Taekjip Ha University of Illinois at Urbana-Champaign Surprising Physics of DNA on the Genome Scale February 4, 2016 T. Lee, 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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