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

[Compbio-allhands] Fwd: 2015 Junior Research Fellowship scheme
by Andrej Sali 09 Jul '14

09 Jul '14

-- 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 94158-2330, USA Tel +1 (415) 514-4227; Fax +1 (415) 514-4231 Assistant: Ms. Hilary Mahon, hilary(a)salilab.org, Tel +1 (415)514-4228; Lab +1 (415) 514-4233, 4258 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: 2015 Junior Research Fellowship scheme > Date: July 9, 2014 at 7:54:09 AM PDT > > Dear Colleague > > Could you draw attention to any appropriate postdoctoral researcher about this opportunity for a 3-year JRF at Imperial. This is of course highly competitive and a very strong CV, typically with high impact publications, is essential. > Closing date 15 Sept 2015 > > Anyone interested could e-mail me their CV and I could advise > > Best > > > ******************************************** > 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 > http://www3.imperial.ac.uk/cisbio (CISBIO) > www.sbg.bio.imperial.ac.uk (Group's research) > > Tel +44 (0)20 7594 5212 > > > > We are pleased to announce that the 2015 JRF scheme is now open. Please find attached a Departmental Guidebook, which contains further useful information. Also attached is a poster to advertise this call, which you may wish to use around your Departments. We will also be publishing an external advert shortly. > > Information regarding the scheme can be found on the following website, where interested applicants will also find the application form, guidance document and other information http://www3.imperial.ac.uk/juniorresearchfellowships. >

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[Compbio-allhands] Fwd: San Francisco Career Planning Program (CPP)
by Jacobson, Matt 16 Jun '14

16 Jun '14

Feel free to forward to anyone who might be interested ============================================== Begin forwarded message: From: Kanae Muraiso <kmuraiso(a)cppweb.jp> Subject: San Francisco Career Planning Program (CPP) Date: June 16, 2014 9:40:29 AM PDT To: Matthew Jacobson <matt.jacobson(a)ucsf.edu> Dear Dr. Matthew Jacobson, Greetings, my name is Kanae Muraiso and I am sending this email on behalf of CPP. Career Planning Program (CPP) is a career support program based in Kyoto, Japan, to help graduate students and postdoctoral scholars who aim to succeed in their career paths as scientific researchers. http://cpp.jpn.org/wjs/ The aim of our activity is two-fold: (1) To provide a training venue for researchers to develop essential skills to thrive in social advancement (2) To host career fairs specifically aimed towards scientific researchers who intend to work in industries CPP offers seminars for Japanese research scientists. This year, we are pleased to announce that Takeda Pharmaceutical Company Limited is seeking employees who can work in Japan. This great opportunity is open to anyone, regardless of Japanese skills. We would like to extend our welcome to everyone who is interested to participate in our career fair. Program information is as follows: What: CPP2014 San Francisco Where: DoubleTree by Hilton Hotel San Francisco Airport When: July 5, 2013 Contents: Career fair Participating Companies: Takeda Pharmaceutical, Chiome Bioscience, CPP Personal(as staffing service) ? Companies other than Takeda Pharmaceutical require Japanese speaking skills ? No Japanese skill is required to apply for the position at Takeda Pharmaceutical. Anyone interested is encouraged to bring their applications to Takeda Pharmaceutical on Saturday, July 5th between 9am and 6pm (See Reference). Recruitment information for Takeda Pharmaceutical at CPP2014 San Francisco: http://cpp.jpn.org/wjs/takeda/ Takeda Pharmaceutical Website: http://www.takeda.com/ We are seeking to reach out to the graduate students and postdoctoral scholars overseas who are seeking future employment in Japanese industries. With that said, I am sending this email in hope that you would be able to distribute this information about CPP and the upcoming San Francisco career fair to your graduate students and scholars who may be interested. It is in our best interest to aid them in their career path development. Thank you for your kind assistance and please feel free to contact me with any questions. Sincerely, Kanae Muraiso, Ph.D. ============================== Career Planning Program Kanae Muraiso, Ph.D. CPP LLC. 382 Motohonnohji MB Bdg,Nakagyo Kyoto, Kyoto, Japan 604-8244 TEL +81-50-1349-5842 FAX +81-50-3156-0553 email kmuraiso(a)cppweb.jp URL http://cppweb.jp ============================== Matthew P. Jacobson Professor, Department of Pharmaceutical Chemistry Department of Bioengineering and Therapeutic Sciences California Institute for Quantitative Biosciences Institute for Neurodegenerative Diseases Director, Graduate Group in Biophysics UCSF MC 2540 1700 4th St., Byers Hall, Room 408E San Francisco, CA 94158-2330 matt.jacobson(a)ucsf.edu jacobsonlab.org

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[Compbio-allhands] Fwd: Call for independent research group leaders
by Andrej Sali 13 Jun '14

13 Jun '14

-- 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 94158-2330, USA Tel +1 (415) 514-4227; Fax +1 (415) 514-4231 Assistant: Ms. Hilary Mahon, hilary(a)salilab.org, Tel +1 (415)514-4228; Lab +1 (415) 514-4233, 4258 Email sali(a)salilab.org; Web http://salilab.org Begin forwarded message: > From: Gene Myers <myers(a)mpi-cbg.de> > Subject: Call for independent research group leaders > Date: June 13, 2014 at 2:06:49 AM PDT > To: Gene Myers <myers(a)mpi-cbg.de> > > Dear ladies and gentlemen, > > The Center for Systems Biology in Dresden is a joint initiative of the MPI-PKS (Max Planck Institute for the Physics of Complex Systems) and the MPI-CBG (Max Planck Institute of Molecular Cell Biology and Genetics). The core of the center is focused on computational biology and theoretical biophysics primarily directed towards questions within cell and developmental biology in tight synchrony and interaction with the various experimental groups of the MPI-CBG. > > We are looking for strong candidates who would like to apply for third party funds in order to set up an > > Independent Research Group > > at our Center for Systems Biology at Dresden (CSBD). Candidates are expected to have an outstanding international research track record in one or several of the research fields that are relevant to the mission of the center, which are: computational biology, biophysics, bioinformatics, genomics and image analysis. To be considered, candidates must (a) satisfy the eligibility criteria of the respective funding programs, (b) have received their PhD in a computational or theoretically oriented discipline, and (c) have published significant research papers recently. Successful candidates will receive mentoring and full support of the MPI-CBG & MPI-PKS to apply for independent group funding. > > > The new research groups will be housed in the new CSBD building currently being built alongside the main building of the MPI-CBG. For further information, please see www.mpg-sysbio.de, www.mpi-cbg.de, and www.pks.mpg.de. > > > Applications should contain: (a) a motivation letter by the applicant, (b) a CV and publication list, (c) a description of past and future research activities, (d) funding history to date. Please arrange for three recommendation letters to be sent directly to visitors(a)pks.mpg.de before the deadline. Women are particularly welcome as candidates. The same applies to disabled people. Dual career applications will be considered. > > > Please see http://mpg-sysbio.de/index.php?id=jobs for how to apply. Closing date is 01.08.2014. > > > Best regards > > Dr. Gene Myers > Director > Tschira Chair of Systems Biology > > Max Planck Institute of > Molecular Cell Biology and Genetics > Pfotenhauerstrasse 108 > 01307 Dresden, Germany > > Tel +49 351 210-1220 > Fax +49 351 210-1209 > E-mail: myers(a)mpi-cbg.de > http://www.mpi-cbg.de > >

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[Compbio-allhands] Fwd: PhD Fellowship program at the Biozentrum Basel
by Andrej Sali 06 Jun '14

06 Jun '14

-- 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 94158-2330, USA Tel +1 (415) 514-4227; Fax +1 (415) 514-4231 Assistant: Ms. Hilary Mahon, hilary(a)salilab.org, Tel +1 (415)514-4228; Lab +1 (415) 514-4233, 4258 Email sali(a)salilab.org; Web http://salilab.org Begin forwarded message: > From: Torsten Schwede <torsten.schwede(a)unibas.ch> > Subject: PhD Fellowship program at the Biozentrum Basel > Date: June 6, 2014 at 10:35:53 AM PDT > To: "sali(a)salilab.org" <sali(a)salilab.org> > > Dear Andrej, > > May I ask you to forward the attached invitation for our PhD Fellowship program to interested students? We are looking for talented Bioinformaticians who would like to do their PhD in Switzerland. Application deadline is June 30. > > Thanks a lot for your help! > > Torsten > > ------------------------------------------------------------------- > > > The Biozentrum of the University of Basel invites talented, ambitious and highly motivated young scientists to apply to the “Fellowships for Excellence” International PhD Program in Molecular Life Sciences. This program offers prestigious PhD fellowships that are awarded on a competitive basis and provide direct entry into the Biozentrum PhD program. > > Opportunities: > • rotation-based selection of research groups > • a lively and interactive educational atmosphere > • competitive salaries > • personal annual research stipend > > For details, please see the attached flyer or the program web site:http://www.biozentrum.unibas.ch/excellence > > Torsten Schwede | Professor | Biozentrum, University of Basel & SIB Swiss Institute of Bioinformatics > Klingelbergstrasse 50/70 | CH-4056 Basel | Phone: +41 61 267 15 81 | Office: +41 61 267 15 86 > Email: torsten.schwede(a)unibas.ch | www.biozentrum.unibas.ch/schwede/ >

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[Compbio-allhands] Fwd: postdoc postions on computational biology/biophysics
by Jacobson, Matt 06 Jun '14

06 Jun '14

Begin forwarded message: From: "Wei, Guowei" <wei(a)math.msu.edu<mailto:wei@math.msu.edu>> Subject: postdoc postions on computational biology/biophysics Date: June 6, 2014 4:35:10 AM PDT To: "Wei, Guowei" <wei(a)math.msu.edu<mailto:wei@math.msu.edu>> Dear Colleagues, I am looking for postdocs to work on computational biophysics and/or computational biology. An ideal candidate should have a strong background on methodology development. Being good at computer coding is a must. Please encourage your graduating and/or freshly graduated PhD students to apply. Apologies for multiple copies that you may receive. Best regards, Guowei ------------------------------------------------------------- Guowei Wei Professor of Mathematics Professor of Electrical and Computer Engineering Adjunct Professor of Biochemistry and Molecular Biology Michigan State University East Lansing, MI 48824 http://math.msu.edu/~wei ------------------------------------------------------------- Matthew P. Jacobson Professor, Department of Pharmaceutical Chemistry Department of Bioengineering and Therapeutic Sciences California Institute for Quantitative Biosciences Institute for Neurodegenerative Diseases Director, Graduate Group in Biophysics UCSF MC 2540 1700 4th St., Byers Hall, Room 408E San Francisco, CA 94158-2330 matt.jacobson(a)ucsf.edu<mailto:matt.jacobson@ucsf.edu> jacobsonlab.org<http://jacobsonlab.org>

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[Compbio-allhands] Fwd: Data Scientist Position at Quid
by Tom Ferrin 30 May '14

30 May '14

-------- Original Message -------- Subject: Data Scientist Position at Quid Date: Wed, 28 May 2014 11:16:50 -0700 From: Emmanuel Yera <eyera(a)quid.com> To: tef(a)cgl.ucsf.edu Hey Tom, I hope you are doing well. Time passes so quickly, I graduated about a year ago. Work has been going well and have really been enjoying my time at Quid. I wanted to reach out and ask if you knew any students or post-docs interested in Data Science. We just opened a position (https://quid.com/careers?gh_jid=14685) Let me know what you think. Regards, - Emmanuel -- Emmanuel R. Yera, PhD Data Scientist Quid, Inc. 733 Front St, C1A San Francisco, California 94111 Mobile: +1 408 242 7171 www.quid.com <http://www.quid.com/>

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[Compbio-allhands] 5/29/14 Seminar with Johan Paulsson
by Flowers, Nicole 23 May '14

23 May '14

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall Auditorium Simulcast to Parnassus Campus Library 220 Johan Paulsson Harvard Quantifying dynamics in single cells May 29, 2014 G. Heimberg, 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 Graduate Program Assistant AMBER Software Administrator UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94158-2517 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] Fwd: Job Openings at IO
by Jacobson, Matt 15 May '14

15 May '14

Begin forwarded message: From: Patrick Weinkam <pweinkam(a)gmail.com<mailto:pweinkam@gmail.com>> Subject: Job Openings at IO Date: May 15, 2014 2:06:02 PM PDT To: Andrej Sali <sali(a)salilab.org<mailto:sali@salilab.org>>, Matt Jacobson <Matt.Jacobson(a)ucsf.edu<mailto:Matt.Jacobson@ucsf.edu>>, James Fraser <james.fraser(a)ucsf.edu<mailto:james.fraser@ucsf.edu>>, <tef(a)cgl.ucsf.edu<mailto:tef@cgl.ucsf.edu>> Hi all, In an effort to keep in touch with the good people at UCSF, I am also reaching out because my new company is undergoing a hiring push. We are looking for people with data analysis and programming skills to help us develop the next generation of energy efficient, software controlled data centers. We also have need for people with simulation backgrounds. If you know any good candidates looking for a job, please forward these job descriptions along. Hope you all are doing well! Pat Matthew P. Jacobson Professor, Department of Pharmaceutical Chemistry Department of Bioengineering and Therapeutic Sciences California Institute for Quantitative Biosciences Institute for Neurodegenerative Diseases Director, Graduate Group in Biophysics UCSF MC 2540 1700 4th St., Byers Hall, Room 408E San Francisco, CA 94158-2330 matt.jacobson(a)ucsf.edu<mailto:matt.jacobson@ucsf.edu> jacobsonlab.org<http://jacobsonlab.org>

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[Compbio-allhands] 5/22/14 Seminar with Cliff Brangwynne
by Flowers, Nicole 15 May '14

15 May '14

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 Cliff Brangwynne Princeton Intracellular Phase Transitions and Cell Size May 22, 2014 D. Mullins, 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 Graduate Program Assistant AMBER Software Administrator UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94158-2517 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] Informatics Day on June 10 @ Mission Bay
by Patsy Babbitt 13 May '14

13 May '14

Save the Date! Informatics Day at UCSF: Leveraging clinical data for research June 10, 2014, 9:00 am to 5:00 pm Location: Mission Bay Conference Center We are pleased to announce the first UCSF Informatics Day. This event will showcase clinical data sources for use in basic, translational, and clinical research. Over the past few years UCSF has significantly invested in its informatics and IT footprint, providing expanded critical services to support basic, translational, and clinical research. Informatics Day 2014 will give you the opportunity to learn about the systems and tools available to support your research. The day will feature: Keynote Speaker addressing the role of informatics in biomedical research Short presentations highlighting the available systems and tools Scientific presentations by investigators who are utilizing these resources in their own research Hands on demonstrations of tools and resources available at UCSF Opportunities to meet researchers from across the campus using information resources Please join us to see how you can benefit from the expanding informatics infrastructure at UCSF. Sponsored by: CTSI, the Institute for Computational Health Sciences, the Institute for Human Genetics, the UCSF Office of Research, and the UCSF Medical Center Institute for Human Genetics 415-476-2470 http://humangenetics.ucsf.edu -- Patricia Babbitt Professor, Department of Bioengineering & Therapeutic Sciences and Department of Pharmaceutical Chemistry California Institute for Quantitative Biosciences Director, Graduate Program in Biological & Medical Informatics University of California, San Francisco UCSF MC 2550 Byers Hall Room508E 1700 4th Street San Francisco, CA 94158-2330, USA (CA 94158 for direct delivery by courier) Tel +1 (415) 476-3784 Fax +1 415-502-8193 Email: babbitt(a)cgl.ucsf.edu; Web http://babbittlab.ucsf.edu/ Assistant: Ms. Joslyn Polzien, +1 415-514-1214, 415-514-4861 Joslyn.Polzien(a)ucsf.edu

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[Compbio-allhands] CANCELLED- 5/15/14 Seminar with L. Mahadevan- CANCELLED
by Flowers, Nicole 12 May '14

12 May '14

Dr. L. Mahadevan regretfully has to cancel his seminar this Thursday, May 15, 2014. Nicole Takesono Flowers BMI, BP, & CCB Graduate Program Assistant AMBER Software Administrator UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94158-2517 Phone: (415) 502-6518 Fax: (415) 514-1546 From: <Flowers>, Office 2004 Test Drive User <nicole.flowers(a)ucsf.edu<mailto:nicole.flowers@ucsf.edu>> Date: Friday, May 9, 2014 at 1:05 PM To: CCB Student List <CCB_STUDENTS(a)LISTSRV.UCSF.EDU<mailto:CCB_STUDENTS@LISTSRV.UCSF.EDU>>, BMI Students List <BMI_STUDENTS(a)LISTSRV.UCSF.EDU<mailto:BMI_STUDENTS@LISTSRV.UCSF.EDU>>, "bpstudents(a)listserv.ucsf.edu<mailto:bpstudents@listserv.ucsf.edu>" <bpstudents(a)listserv.ucsf.edu<mailto:bpstudents@listserv.ucsf.edu>>, "BBCFACULTY(a)LISTSRV.UCSF.EDU<mailto:BBCFACULTY@LISTSRV.UCSF.EDU>" <BBCFACULTY(a)LISTSRV.UCSF.EDU<mailto:BBCFACULTY@LISTSRV.UCSF.EDU>> Subject: 5/15/14 Seminar with L. Mahadevan 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 L. Mahadevan Harvard A physical basis for morphogenesis? May 15, 2014 M. Thomson, 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 Graduate Program Assistant AMBER Software Administrator UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94158-2517 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] 5/15/14 Seminar with L. Mahadevan
by Flowers, Nicole 09 May '14

09 May '14

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 L. Mahadevan Harvard A physical basis for morphogenesis? May 15, 2014 M. Thomson, 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 Graduate Program Assistant AMBER Software Administrator UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94158-2517 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] Fwd: Computer-Aided Drug Design Position at Roche Basel
by Brian Shoichet 09 May '14

09 May '14

FYI Brian Shoichet Professor sent from my PDA. Please excuse the grammar and spelling ---------- Forwarded message ---------- From: "Hert, Jerome" <jerome.hert(a)roche.com> Date: May 9, 2014 10:42 AM Subject: Computer-Aided Drug Design Position at Roche Basel To: "Jerome Hert" <jerome.hert(a)roche.com> Cc: Dear colleague, I would like to inform you of a new job opportunity in our Computer-Aided Drug Design (CADD) team at Roche Basel. Our team is involved in drug discovery projects with the goal of guiding the design of new pharmaceutically active molecules. We are looking for an enthusiastic and talented collaborator with industry experience. If you know of any suitable candidate, please let me know. Feel also free to forward this message to anyone who might be interested in this opening. Thank you. Link to the job offer: http://t.co/pnDzkpywo5 -- With best regards, Jérôme Hert. T: +41 6168 79639 E: jerome.hert(a)roche.com Section Head, Computer-Aided Drug Design Molecular Design and Chemical Biology F. Hoffmann-La Roche Ltd. -- *Want to know more about Roche?* Explore our marketed products - click here<http://www.roche.com/products/product-list.htm?type=divpharma&id=Pharmaceut…> Have a look at our pipeline - click here<http://www.roche.com/research_and_development/who_we_are_how_we_work/pipeli…> Take a tour of pRED - click here<http://www.youtube.com/watch?v=DVvPCOXdMI0> Hear from one of our scientists - click here<http://www.youtube.com/watch?v=E9TVJ9UZna4> Discover our Brain Shuttle approach - click here<http://www.youtube.com/watch?v=TfJBwoQNaaw>

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[Compbio-allhands] message from Adrian Roitberg
by Jacobson, Matt 06 May '14

06 May '14

For those of you who do MD simulations: An Overview of AMBER 14 – Creating the World’s Fastest MD Package Date: May 13th, 9am PST Hosted by: Prof. R. Walker, UC San Diego; Prof. A. Roitberg, University of Florida; S. Grand, Amazon Web Services Register at: http://bit.ly/AMBER14<http://www.google.com/url?q=http%3A%2F%2Fbit.ly%2FAMBER14&sa=D&sntz=1&usg=A…> This webinar will provide an overview of new GPU-accelerated features in the recently released AMBER Molecular Dynamics Software package version 14. New features include support for multi–dimensional replica exchange MD and hydrogen mass partitioning. High performance peer–to–peer support and optimizations make version 14 the fastest MD software package on commodity hardware

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Re: [Compbio-allhands] 5/8/14 Seminar with Trey Ideker
by Flowers, Nicole 02 May '14

02 May '14

Hi Everyone, Please note the subject line correction. The talk is definitely with Trey Ideker next week. Thank you, Nicole Nicole Takesono Flowers BMI, BP, & CCB Graduate Program Assistant AMBER Software Administrator UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94158-2517 Phone: (415) 502-6518 Fax: (415) 514-1546 From: <Flowers>, Office 2004 Test Drive User <nicole.flowers(a)ucsf.edu<mailto:nicole.flowers@ucsf.edu>> Date: Friday, May 2, 2014 at 2:18 PM To: CCB Student List <CCB_STUDENTS(a)LISTSRV.UCSF.EDU<mailto:CCB_STUDENTS@LISTSRV.UCSF.EDU>>, BMI Students List <BMI_STUDENTS(a)LISTSRV.UCSF.EDU<mailto:BMI_STUDENTS@LISTSRV.UCSF.EDU>>, "bpstudents(a)listserv.ucsf.edu<mailto:bpstudents@listserv.ucsf.edu>" <bpstudents(a)listserv.ucsf.edu<mailto:bpstudents@listserv.ucsf.edu>>, "BBCFACULTY(a)LISTSRV.UCSF.EDU<mailto:BBCFACULTY@LISTSRV.UCSF.EDU>" <BBCFACULTY(a)LISTSRV.UCSF.EDU<mailto:BBCFACULTY@LISTSRV.UCSF.EDU>> Subject: 5/8/14 Seminar with Dorothee Kern 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 Trey Ideker UCSD Siri of the Cell: What Biology Can Learn From The iPhone May 8, 2014 J. Webber, 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 Graduate Program Assistant AMBER Software Administrator UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94158-2517 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] 5/8/14 Seminar with Dorothee Kern
by Flowers, Nicole 02 May '14

02 May '14

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 Trey Ideker UCSD Siri of the Cell: What Biology Can Learn From The iPhone May 8, 2014 J. Webber, 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 Graduate Program Assistant AMBER Software Administrator UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94158-2517 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] 5/1/14 Seminar with Dorothee Kern
by Flowers, Nicole 25 Apr '14

25 Apr '14

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall Auditorium Simulcast to Parnassus Campus Library 220 Dorothee Kern Brandeis The evolution of kinase dynamics over 1 billion years reveals Gleevec’s selectivity May 1, 2014 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 CCB Graduate Program Assistant AMBER Software Administrator UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94158-2517 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] a fellow position at iHuman institute, ShanghaiTech, and UCSF
by Andrej Sali 24 Apr '14

24 Apr '14

We seek a research fellow or assistant professor applicant to engage in an integrative structural biology study of a cellular signaling pathway (e.g., GPCR signaling cascades). The candidate will contribute to the collaboration between the Sali research group at University of California, San Francisco, USA (http://salilab.org) and the Stevens research group at iHuman Institute of ShanghaiTech University, Shanghai, China (http://www.shanghaitech.edu.cn/en/en_iHuman_Overview.asp) The goal will be to develop a spatiotemporal model of the selected system, based on data from a variety of experimental techniques, such as X-ray crystallography, NMR spectroscopy, mass spectrometry, super resolution optical microscopy, and others, generated at iHuman. The prerequisites include a background in computational structural biology, experience with designing and coding computational algorithms, statistical mechanics, and statistics, as well as willingness to learn about integrative structural biology methods and applications in the Sali laboratory. The fellow will spend considerable time initially at UCSF, transitioning into a tenure track faculty position at iHuman. The position will be funded for 5 years at a very competitive international faculty startup level. Please email your cover letter, including a cv and names of at least 3 referees, to Andrej Sali (sali(a)salilab.org) or Ray Stevens (stevens(a)shangaitech.edu.cn) -- 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 94158-2330, USA Tel +1 (415) 514-4227; Fax +1 (415) 514-4231 Assistant: Ms. Hilary Mahon, hilary(a)salilab.org, Tel +1 (415)514-4228; Lab +1 (415) 514-4233, 4258 Email sali(a)salilab.org; Web http://salilab.org

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[Compbio-allhands] 4/24/14 Seminar with Alexander Hoffmann
by Flowers, Nicole 18 Apr '14

18 Apr '14

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Sytems Thursdays, 12 Noon Genentech Hall Auditorium Simulcast to Parnassus Campus S-161 Alexander Hoffmann UCSD Network Dynamics as a basis for Specificity April 24, 2014 Hana El Samad, 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 CCB Graduate Program Assistant AMBER Software Administrator UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94158-2517 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] Fwd:
by Jacobson, Matt 15 Apr '14

15 Apr '14

-- Matt Sent from my iPhone Begin forwarded message: From: Olaf Wiest <Olaf.G.Wiest.1(a)nd.edu<mailto:Olaf.G.Wiest.1@nd.edu>> Date: April 15, 2014 at 7:32:14 AM PDT To: "matt.jacobson(a)ucsf.edu<mailto:matt.jacobson@ucsf.edu>" <matt.jacobson(a)ucsf.edu<mailto:matt.jacobson@ucsf.edu>> Dear Matt I would like to alert you and your students to an opening of one (possibly two) postdoctoral positions in the Computer Aided Molecular Design (CAMD) core facility here at the University of Notre Dame. If you know of suitable candidates from your group or other, please encourage them to apply. I attach the position description, which will also be posted on ccl.net<http://ccl.net> in the next few days. If you have any question, please do not hesitate to contact me at any time. With the best wishes Olaf Wiest Postdoctoral position in the CAMD core at the University of Notre Dame Applications are invited for a postdoctoral position in the Computer Aided Molecular Design core facility at the University of Notre Dame. The successful candidate will work with researchers in the Warren Family Center for Drug Discovery, the Center for Rare and Neglected Diseases, and other researchers at the University of Notre Dame as well as their collaborators to design chemical probes molecules as well as new hit and lead compounds to a treatment of a variety of diseases. Current areas of interest include malaria and other infectious diseases, cancer, and neurodegenerative diseases. The initial appointment will be for one year with additional years, including a possibility to apply for a staff position, available upon mutual agreement. Requirements for the position include: - Ph.D in chemistry, biophysics or other relevant field - documented experience in virtual screening, molecular dynamics simulation of biomolecular systems and/or structure based drug design - ability to support multiple projects simultaneously - ability to work independently and in effective collaborations with medicinal chemists, biochemists and biologists - excellent verbal and written communication skills Previous experience with common programs (Schrödinger Suite, AMBER, G09 etc.), electronic structure calculations, library design, cheminformatics, good programming skills and other aspects of computer aided drug design as well as an understanding of the drug discovery process would be beneficial. To apply, send a CV, statement of research experience and contact addresses of three references to owiest(a)nd.edu<mailto:owiest@nd.edu>. For information on the CAMD core, see http://www3.nd.edu/~camd/.

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[Compbio-allhands] 4/17/14 Seminar with Rama Ranganathan
by Flowers, Nicole 11 Apr '14

11 Apr '14

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Sytems Thursdays, 12 Noon Genentech Hall Auditorium Simulcast to Parnassus Campus S-161 Rama Ranganathan UT Southwestern The evolutionary “design” of proteins April 17, 2014 S. Calhoun & D. Garrdio Ruiz, 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 CCB Graduate Program Assistant AMBER Software Administrator UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94158-2517 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] Fwd: Postdoc opening
by Jacobson, Matt 09 Apr '14

09 Apr '14

I think I may have already sent out a description of this position, but this is much more detailed Begin forwarded message: From: "Xing, Li" <li.xing(a)pfizer.com<mailto:li.xing@pfizer.com>> Subject: Postdoc opening Date: April 9, 2014 6:15:26 AM PDT To: "matt.jacobson(a)ucsf.edu<mailto:matt.jacobson@ucsf.edu>" <matt.jacobson(a)ucsf.edu<mailto:matt.jacobson@ucsf.edu>> Hi Matt, I am writing to see if you can help me out here. Recently I was fortunate to get an internal Pfizer postdoctoral fellowship funded to investigate PPI targets by molecular dynamics simulations. Specifically, the goals are to expand the current understanding of the complex dynamic phenomena of many biological mechanisms, and to make traditionally difficult targets an increasingly fruitful drug discovery area. I am hoping you may be able to provide suggestions for candidates from your institution or elsewhere where there may be an overlapping interest or experience in this research area. Clearly experience in scientific scripting and programming is essential. The Postdoctoral fellowship is for 2 years with a possible extension to 3 years and is to be focused on generating publishable work (i.e. not constrained by Pfizer drug discovery activities) through internal studies as well as collaborations within and outside of Pfizer. This could be a great opportunity for people who want to gain industrial experience in a real drug discovery setting. I have attached a copy of the recruitment flyer. Online application can be submitted through the link from Pfizer careers website. http://pfizercareers.com/apply Job ID 994031 Any help or guidance that you can provide would be much appreciated. Thanks, Li Li Xing, Ph.D. Pfizer Worldwide Research and Development Cambridge, MA Tel: 617 665 5369 Matthew P. Jacobson Professor, Department of Pharmaceutical Chemistry Department of Bioengineering and Therapeutic Sciences California Institute for Quantitative Biosciences Institute for Neurodegenerative Diseases Director, Graduate Group in Biophysics UCSF MC 2540 1700 4th St., Byers Hall, Room 408E San Francisco, CA 94158-2330 matt.jacobson(a)ucsf.edu<mailto:matt.jacobson@ucsf.edu> jacobsonlab.org<http://jacobsonlab.org>

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[Compbio-allhands] 4/10/14 Seminar with David Baker
by Flowers, Nicole 04 Apr '14

04 Apr '14

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Sytems Thursdays, 12 Noon Genentech Hall Auditorium Simulcast to Parnassus Campus S-161 David Baker University of Washington Design of protein structures, functions and assemblies April 10, 2014 J. Kung & J. Rettenmaier, 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 CCB Graduate Program Assistant AMBER Software Administrator UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94158-2517 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] reminder: Tack Kuntz talking at noon
by Jacobson, Matt 03 Apr '14

03 Apr '14

From: "Flowers, Nicole" <Nicole.Flowers(a)UCSF.EDU<mailto:Nicole.Flowers@UCSF.EDU>> Date: March 31, 2014, 10:49:12 AM PDT To: <BBCFACULTY(a)LISTSRV.UCSF.EDU<mailto:BBCFACULTY@LISTSRV.UCSF.EDU>> Subject: PETER A. KOLLMAN LECTURESHIP - April 3, 2014 Reply-To: "Flowers, Nicole" <Nicole.Flowers(a)UCSF.EDU<mailto:Nicole.Flowers@UCSF.EDU>> THURSDAY, APRIL 3, 2014 AT 12:00 PM PETER A. KOLLMAN LECTURESHIP GENENTECH HALL BYERS AUDITORIUM - UCSF MISSION BAY CAMPUS SIMULCAST TO PARNASSUS CAMPUS LIBRARY 221 WEBCAST: Reception in Byers Hall 5th Floor Lounge at 3:30 Please see attached flyer. Nicole Takesono Flowers CCB Graduate Program Assistant AMBER Software Administrator UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94158-2517 Phone: (415) 502-6518 Fax: (415) 514-1546 ------------------------------------------------------------------------ Use the following link to unsubscribe from this mailing list: http://listsrv.ucsf.edu/cgi-bin/wa?SUBED1=BBCFACULTY&A=1 Matthew P. Jacobson Professor, Department of Pharmaceutical Chemistry Department of Bioengineering and Therapeutic Sciences California Institute for Quantitative Biosciences Institute for Neurodegenerative Diseases Director, Graduate Group in Biophysics UCSF MC 2540 1700 4th St., Byers Hall, Room 408E San Francisco, CA 94158-2330 matt.jacobson(a)ucsf.edu<mailto:matt.jacobson@ucsf.edu> jacobsonlab.org<http://jacobsonlab.org>

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[Compbio-allhands] Fwd: available postdoc position at Pfizer in Cambridge
by Jacobson, Matt 02 Apr '14

02 Apr '14

Begin forwarded message: From: Arjun Narayanan Subject: available postdoc position at Pfizer in Cambridge In our department one of my colleagues is looking for a postdoc candidate to use MD to better understand and predict PPI druggability. Do you know anyone who would be interested? Here is the posting info: Postdoctoral Fellow - Computational Chemistry United States-Massachusetts-Cambridge You can view and apply for this job on our careers website (www.pfizer.com/careers<http://www.pfizer.com/careers>) by searching for the job opening title Postdoctoral Fellow - Computational Chemistry as keywords, or by using the job opening ID 994031 I believe it is a 2 year position. I also believe, unlike some industrial postdocs, there is nothing preventing us from hiring the person at the end of the postdoc (though, of course, there are no guarantees that we will be able to, either). Arjun Matthew P. Jacobson Professor, Department of Pharmaceutical Chemistry Department of Bioengineering and Therapeutic Sciences California Institute for Quantitative Biosciences Institute for Neurodegenerative Diseases Director, Graduate Group in Biophysics UCSF MC 2540 1700 4th St., Byers Hall, Room 408E San Francisco, CA 94158-2330 matt.jacobson(a)ucsf.edu<mailto:matt.jacobson@ucsf.edu> jacobsonlab.org<http://jacobsonlab.org>

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