October 2016 - compbio-allhands@cgl.ucsf.edu

[Compbio-allhands] Seminar, Dr. Martin Flavius et al, Amgen, “Translating Insights From Human Genetics to Drug Development”
by Andrej Sali 31 Oct '16

31 Oct '16

a broad research presentation by Amgen, aimed at our students, postdocs, and faculty. by their heads of Cardio Metabolic Resdearch (Aarif Khakoo) and Oncology and Inflammation Research (Martin Flavius). RH-102, 12pm, Mon Oct 31 -- 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] 11/3/16 Seminar with Jason Moore
by Flowers, Nicole 28 Oct '16

28 Oct '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.) Jason Moore University of Pennsylvania An Automated Data Science Assistant November 3, 2016 R. Hernandez, 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] FoldIt development job posting
by Matthew O'Meara 26 Oct '16

26 Oct '16

---------- Forwarded message ---------- From: Steven Combs <steven.combs1(a)gmail.com> Date: Wed, Oct 26, 2016 at 10:00 AM Subject: job posting To: Matthew O'Meara <mattjomeara(a)gmail.com>, Scott Horowitz < horowsah(a)umich.edu> Hi Matt, Could you post htis to the compbio-allhands mailing list board? We are looking for a developer for Foldit. They would be HHMI employee. Foldit Developer Position: The Bardwell laboratory and the Foldit development team are looking to hire a computer programmer to develop the Foldit game. Foldit is a computer game that challenges players to solve real biochemistry problems. The candidate would interface with current Foldit developers and experimental collaborators to improve the ability of Foldit to interface with biochemical data. The ideal candidate would have considerable programming experience in C++ and experience with large-scale code-bases. Past experience or knowledge of biochemistry, molecular biology, or X-ray crystallography is recommended. Work location could be at the primary Foldit development site in Seattle, or tertiary sites in Boston or Ann Arbor. Salary will be determined based on education level and experience. If interested, please contact Molly Wysong at mewysong(a)umich.edu.

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[Compbio-allhands] 10/27/16 Seminar with Roberto Chica- GH N114
by Flowers, Nicole 21 Oct '16

21 Oct '16

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall N114 Livestream: https://lecture.ucsf.edu/ets/Catalog/Full/f94c469bb908465691ec810f578ecbb221 Roberto Chica University of Ottawa Engineering protein conformational landscapes using multistage computational protein design October 27, 2016 J. Fraser, 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: 12 postdoc positions in Montpellier. One in NMR of disordered proteins
by Andrej Sali 21 Oct '16

21 Oct '16

> Begin forwarded message: > > From: pau bernado <pau.bernado(a)cbs.cnrs.fr> > Subject: 12 postdoc positions in Montpellier. One in NMR of disordered proteins > Date: October 21, 2016 at 4:16:56 AM PDT > To: pau bernado <pau.bernado(a)cbs.cnrs.fr> > > Dear Colleague, > > I would like to draw your attention to the opening of 12 postdoctoral positions in Montpellier funded by the EpiGenMed Labex program (https://www.epigenmed.fr <https://www.epigenmed.fr/>). One of these position is for a two-year postdoc in NMR to work in our group at the Centre de Biochimie Structurale (CBS) in Montpellier. > > The project focuses in the study of a family of Intrinsically Disordered Proteins that modulate Nuclear Receptor gene transcription. Successful candidates should have a strong background in solution NMR. Expertise in protein expression and purification is highly recommended. Previous experience in Small-Angle X-ray Scattering (SAXS) and computational methods will be positively evaluated. Find attached a more detailed description of the position. Please, spread this information to students or postdocs that could be interested. > > Thanks a lot for your collaboration and best regards > > Pau Bernadó

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[Compbio-allhands] seminar TODAY, Jan Ellenberg, "Imaging the assembly of protein complexes and the dynamics of protein networks in dividing human cells"
by Andrej Sali 19 Oct '16

19 Oct '16

TODAY, 12pm, Oct 19, MH-1406 eg, https://elifesciences.org/content/5/e19071 -- 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: An announcement from COMP Together at UCSF 2016-10-26
by Magdalena Korczynska 18 Oct '16

18 Oct '16

> Begin forwarded message: > > From: comp_together(a)acscomp.org > Subject: An announcement from COMP Together > Date: October 14, 2016 at 1:28:40 PM PDT > To: Magdalena Korczynska <mkucsf(a)gmail.com> > Reply-To: Siegfried Leung <siegfried.leung(a)circlepharma.com> > > The COMP Together champions in your area would like to announce the following event: > > Speaker: Eric Martin (Novartis), BinQing Wei (Genentech) > Title: SF Bay Area COMP Together Mini-Talk Series > Date: 2016-10-26 > Time: 6:30 PM > Event ID: 35 > Sponsor: NIBR > > Location > UCSF Mission Bay > 1700 4th St. BH212 > > San Francisco CA 94158 > > Description and Notes > Schedule: > > 6:30 – 7 pm: check-in & networking (pizza and drinks provided) > > 7 – 7:30 pm: Talk #1 > Title: Rational Bioavailability Design: Global Sensitivity Analysis of Physiologically-Based Pharmacokinetics (GSA of PBPK) > Speaker: Eric Martin (Novartis) > > 7:30 – 8.00 pm: Talk #2 > Title: Computational Design of Non-peptide Linkers with Restricted Protease Cleavability for Antibody-Drug Conjugates > Speaker: BinQing Wei (Genentech) > > Notes: > Non-UCSF affiliated participants please enter through the main entrance of Genentech Hall (600 16th St., San Francisco, CA 94158) and sign in at the security desk. > > Public parking is available at the UCSF Mission Bay surface lots. For more information, please visit: > http://campuslifeservices.ucsf.edu/transportation/services/parking/public_p… > > On-street parking is also available on 4th street and 16th street. > > > If you would like to attend this COMP Together event, please visit the COMP website and register using the > http://app.acscomp.org/COMP_Together/meeting_signup.php?event_id=35. > > If you have any questions about this event, please contact Siegfried Leung at 6503181743 or siegfried.leung(a)circlepharma.com. > > If you would like to update your COMP Together registration or unsubscribe, please visit http://app.acscomp.org/COMP_Together/reg_update/update_login.php

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[Compbio-allhands] Fwd: AMMA: PhD position (Auckland, New Zealand & A*STAR, Singapore)
by Andrej Sali 18 Oct '16

18 Oct '16

> Begin forwarded message: > > From: Elizabeth Yuriev <elizabeth.yuriev(a)monash.edu> > Subject: AMMA: PhD position (Auckland, New Zealand & A*STAR, Singapore) > Date: October 18, 2016 at 4:02:56 PM PDT > To: undisclosed-recipients:; > > sent on behalf of Jane Allison > > > > A PhD position is available on computational studies of antimicrobial peptides and cell membranes, to be hosted between my research group at Massey University (Auckland, New Zealand) and that of Peter Bond (A*STAR, Singapore) - see attached for more information. I would greatly appreciate it if you could circulate this to any students whom you think might be interested, and/or advertise it further in your Institute or department. > > Many thanks, > > Jane > > > -- > > Jane R Allison > Senior Lecturer > Rutherford Discovery Fellow > Institute of Natural and Mathematical Sciences Massey University Auckland New Zealand > > > > > > > > Cheers, > Elizabeth > > ********************************************** > Dr Elizabeth Yuriev > Secretary, Association of Molecular Modellers of Australasia (AMMA) > Senior Lecturer, Faculty of Pharmacy and Pharmaceutical Sciences > Medicinal Chemistry, Monash Institute of Pharmaceutical Sciences > Monash University (Parkville Campus), 381 Royal Parade, Parkville VIC 3052, Australia > Tel: Int +61 3 9903 9611, E-mail: elizabeth.yuriev(a)monash.edu <mailto:elizabeth.yuriev@monash.edu>, www.pharm.monash.edu.au <http://www.pharm.monash.edu.au/> >

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[Compbio-allhands] Fwd: Bioinformatics Software Developer - Mike Sternberg's Group Imperial - Protein Structure and Disease Variants
by Andrej Sali 17 Oct '16

17 Oct '16

-- 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: Bioinformatics Software Developer - Mike Sternberg's Group Imperial - Protein Structure and Disease Variants > Date: October 17, 2016 at 1:31:30 PM PDT > To: Undisclosed recipients:; > > > Dear Colleague/ I’d be grateful if you would let suitable applicants know of this opportunity. > > ------------------------------------------------------------------------------------------------------------------------------- > > Bioinformatics Software Developer : Mapping genetic variants to protein structures > Group of Prof Mike Sternberg > Department of Life Sciences > South Kensington Campus > Imperial College London > > Salary £35,140-£43,350 per annum > > Applications are invited for a Bioinformatics Software Developer to join the Structural Bioinformatics Group. The post holder will work as a member of a small team developing the software for the PhyreRisk portal which will provide a dynamic web portal to deliver to the community a resource relating human genetic variation, disease, protein structure and biological pathways. > > You must have a Masters in bioinformatics or a closely related discipline in computational biology or vocational qualification and experience in a relevant role. A PhD Degree (or equivalent) in bioinformatics or a closely related discipline in computational biology is desirable. You must have demonstrable strong programming experience developing a substantive dynamic web site to a professional standard using HTML/JavaScript/Django and server side languages (Java, Perl-CGI) applied to a biological problem is essential. You must also have a proven programming experience that results in the development of at least two of the following within a biological context: (i) a substantive and robust algorithm, (ii) a substantial dynamic web-site or (iii) a substantial relational database. > > This is a full time position, funded by the Wellcome Trust for up to 36 months. > Closing date is > 6 November 2016 (midnight GMT) > > For informal enquiries contact Prof Mike Sternberg > m.sternberg(a)imperial.ac.uk <mailto:m.sternberg@imperial.ac.uk> > > For application procedure and further details 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…> > > > > > ******************************************** > Professor Michael J E Sternberg > Director Centre for Integrative Systems Biology and Bioinfomatics (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] seminar, Jan Ellenberg, "Imaging the assembly of protein complexes and the dynamics of protein networks in dividing human cells"
by Andrej Sali 17 Oct '16

17 Oct '16

12pm, Oct 19, MH-1406 -- 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 October 2016