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

[Compbio-allhands] Fwd: Postdoctoral opportunities at Princeton
by Andrej Sali 07 Nov '13

07 Nov '13

Sent from my iPhone Begin forwarded message: > From: "Everett L. Morgan" <lmorgan(a)Princeton.EDU> > Date: November 7, 2013 at 1:47:15 PM PST > To: "Everett L. Morgan" <lmorgan(a)Princeton.EDU> > Subject: Postdoctoral opportunities at Princeton > > Dear Colleagues, > > In an effort to attract the strongest possible candidates, we are extending our annual search for young theorists interested in problems at the interface of physics and biology, broadly interpreted. Princeton offers a very interactive community, with a nearly unique combination of theoretical mentors and friendly experimental collaborators. We have been fortunate so far in attracting a steady stream of wonderful postdoctoral scholars. We would like to continue this pattern, and ask for your further help in pointing a few more excellent new candidates in our direction. Thank you in advance for your willingness to contribute to this effort. > > We have extended the deadline for applications and letters another week, to November 15th. > > For more details, please see http://www.princeton.edu/physics/about/employment/biophysics/index.xml > > Best wishes, > > William Bialek > Chase Broedersz > Curtis Callan > Benjamin Machta > Ned Wingreen > > > Lee Morgan > 257 Carl Icahn Laboratory > Lewis-Sigler Institute of Integrative Genomics > Princeton University > Princeton, NJ 08544 > 609-258-0859 >

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[Compbio-allhands] Fwd: POSTDOCTORAL POSITION IN COMPUTATIONAL NEUROSCIENCE AT ENS, PARIS
by Andrej Sali 07 Nov '13

07 Nov '13

Sent from my iPhone Begin forwarded message: > From: "Rava A. da Silveira" <rava(a)ens.fr> > Date: November 6, 2013 at 9:27:17 PM CST > To: "Rava A. da Silveira (Me)" <rava(a)ens.fr> > Subject: POSTDOCTORAL POSITION IN COMPUTATIONAL NEUROSCIENCE AT ENS, PARIS > > Dear colleague, > > Would you be so kind as to forward the postdoc ad pasted below to > potential candidates? > > Many thanks, and best regards, > > Rava > (Apologies for multiple postings.) > > ********* > > POSTDOCTORAL POSITION available in the group of RAVA AZEREDO DA > SILVEIRA at the ECOLE NORMALE SUPERIEURE, Paris > > This position will be devoted, in part, to the analysis and modeling > of exciting retina data sets from the labs of Botond Roska (FMI) and > Andreas Hierlemann (ETH). Experience with data analysis and > proficiency with numerical methods and programming, in addition to > familiarity with neuroscience topics and mathematical and statistical > methods, are desirable. In addition, research may be pursued on > problems of single-cell and network dynamics, neural coding, or > cognitive and behavioral modeling (inference, sensory integration, > decision making, etc), with more or less connection with data > depending upon the specific problem. Thus, a spirit of intellectual > adventure and eagerness is at least as desirable. > > The ENS, together with a number of neighboring institutions (College > de France, Institut Curie, ESPCI, Universités Paris 5, 6, and 7, and > Institut Pasteur), offers a rich scientific and intellectual > environment, with a strong representation in computational > neuroscience and related fields. Furthermore, as far as cities go, > Paris is not bad. > > The postdoctoral salary will be supplemented by travel and equipment funds. > > To apply, please send a letter of motivation and statement of > research, a curriculum vitae, a list of publication, and arrange for > three letters of recommendations to be sent, to rava(a)ens.fr. Reviewing > of the applications with start on 25 November 2013.

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[Compbio-allhands] Fwd: opening at Principia Biopharma
by Jacobson, Matt 05 Nov '13

05 Nov '13

Begin forwarded message: From: Ken Brameld <ken.brameld(a)principiabio.com<mailto:ken.brameld@principiabio.com>> Subject: opening at Principia Biopharma Date: November 5, 2013 10:31:24 AM PST To: "matt.jacobson(a)ucsf.edu<mailto:matt.jacobson@ucsf.edu>" <matt.jacobson(a)ucsf.edu<mailto:matt.jacobson@ucsf.edu>> Hi Matt, We met briefly at the Frontiers in Medicinal Chemistry meeting this past June. Things continue to go will at Principia and we are expanding. I have an opening for a recent PhD or postdoc in comp chem/chem informatics. The ideal candidate will be an enthusiastic and self-motivated individual who is seeking a position with the potential to broadly influence the efficiency and outcome of discovery research at Principia. The job description is attached. Would you mind circulating this to your group or to anyone you feel may be interested and qualified? Kind regards, -Ken Ken Brameld, Ph.D. Executive Dir., Research Technologies Principia Biopharma 650-416-7714 ken.brameld(a)principiabio.com<mailto:ken.brameld@principiabio.com> This email and any attachments thereto may contain private, confidential, and privileged material for the sole use of the intended recipient. Any review, copying, or distribution of this email (or any attachments thereto) by others is strictly prohibited. If you are not the intended recipient, please contact the sender immediately and permanently delete the original and any copies of this email and any attachments thereto. 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] Dr. James Petersson Talk, 11/5/13 10:00 am
by Flowers, Nicole 04 Nov '13

04 Nov '13

Dr. James Petersson, University of Pennsylvania, Department of Chemistry Tuesday, November 5 – 10 AM, RH-102, Pottruck Auditorium Thioamides: Minimalist chromophores for monitoring protein folding and stability Abstract: Our laboratory is developing new tools to understand protein folding, conformational changes, and proteolysis. We have recently shown that the thioamide - a single-atom substitution of the peptide backbone - can be used as a probe to monitor structural changes in proteins by quenching fluorophores, including the natural amino acids tryptophan and tyrosine, and several unnatural amino acids. We have developed methods for incorporating the thioamides into full-sized proteins by chemically synthesizing peptides containing the thioamides, and ligating them to proteins expressed in E. coli cells. Donor fluorophores can be incorporated into the cellularly-expressed fragment using unnatural amino acid mutagenesis or post-expression labeling, so that double-labeled proteins can be generated with a minimum of unnecessary peptide synthesis. Development of these methods allows us to begin study of the role of protein motion in processes such as cell signaling and amyloid diseases. We have alsoadapted our fluorophore/thioamide pairs to make probes of proteolysis, using the minimally-perturbing nature of the thioamide to investigate cleavage at specific sequences. We have used these tools in vitro, and we are working to extend them to use in lysates and living cells. 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] FREE Laser Toner Cartridges
by babbitt 28 Oct '13

28 Oct '13

The Babbitt lab is giving away four unused toner cartridges: HP-96A (part #C4096A). These cartridges fit HP LaserJet Series 2100/2200* (really old) printers. Please contact Joslyn Polzien atjoslyn.polzien(a)ucsf.edu<mailto:%20joslyn.polzien@ucsf.edu> if you are interested in some or all of them. *2100, 2100EP, 2100M, 2100SE, 2100TN, 2100XI, 2200, 2200D, 2200DN, 2200DT, 2200DSE, 2200DTN -- Patricia Babbitt, Professor Dept. of Bioengineering & Therapeutic Sciences 1700 4th Street, MC2550 University of California San Francisco, CA 94158 Phone: 1-415-476-3784 Email: babbitt(a)cgl.ucsf.edu Assistant: Ms. Joslyn Polzien Email: Joslyn.Polzien(a)ucsf.edu 8 AM – 12 PM: (415) 514-1214 1 PM – 5 PM: (415) 514-4861

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[Compbio-allhands] Fwd: ignite Bay Area (protein) Dynamics - November 5th
by Flowers, Nicole 28 Oct '13

28 Oct '13

Want to get together and talk science with other Bay Area researchers interested in the ways macromolecules move? Come to ignite Bay Area Dynamics (iBAD) on November 5th. Absolutely everyone is invited, from student to professor and academia to industry. Hear the latest work on dynamics in a fast, pithy form: Ignite talks are only five minutes apiece, with auto-advancing slides! Refreshments are provided and there will be plenty of time to chat with colleagues and speakers. Speakers: Susan Marqusee (Berkeley) Vijay Pande (Stanford) Jacob Corn (Genentech) Gira Bhabha (UCSF) November 5th, 2013 - 7 PM UCSF - Mission Bay Campus Byers Hall 212 More info: http://www.fraserlab.com/ibad or email Jaime Fraser (james.fraser(a)ucsf.edu<mailto:james.fraser@ucsf.edu>) or Jacob Corn (corn.jacob(a)gene.com<mailto:corn.jacob@gene.com>) Sponsored by the Protein Society (Society membership not required to attend). James Fraser, PhD Assistant Professor Department of Bioengineering and Therapeutic Sciences Office: N212C Genentech Hall, Lab: N216 Genentech Hall james.fraser(a)ucsf.edu<mailto:james.fraser@ucsf.edu> // jaimefraser(a)gmail.com<mailto:jaimefraser@gmail.com> (415) 493-8421 http://www.fraserlab.com 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: Protein Society Sponsored Dynamics Meeting - Tuesday November 5th 7PM at UCSF
by Jacobson, Matt 27 Oct '13

27 Oct '13

-- Matt Sent from my iPad Begin forwarded message: From: James Fraser <jaimefraser(a)gmail.com<mailto:jaimefraser@gmail.com>> Date: October 27, 2013 12:58:39 PM PDT To: Mark Kelly <mark.kelly(a)ucsf.edu<mailto:mark.kelly@ucsf.edu>>, Tanja Kortemme <kortemme(a)cgl.ucsf.edu<mailto:kortemme@cgl.ucsf.edu>>, Agard Dave <agard(a)msg.ucsf.edu<mailto:agard@msg.ucsf.edu>>, Robert Stroud <stroud(a)msg.ucsf.edu<mailto:stroud@msg.ucsf.edu>>, Fletterick Robert <flett(a)msg.ucsf.edu<mailto:flett@msg.ucsf.edu>>, Matthew Jacobson <matt.jacobson(a)ucsf.edu<mailto:matt.jacobson@ucsf.edu>>, Andrej Sali <sali(a)salilab.org<mailto:sali@salilab.org>>, Jim Wells <Jim.Wells(a)ucsf.edu<mailto:Jim.Wells@ucsf.edu>>, Jack Taunton <taunton(a)cmp.ucsf.edu<mailto:taunton@cmp.ucsf.edu>>, Patsy Babbitt <babbitt(a)cgl.ucsf.edu<mailto:babbitt@cgl.ucsf.edu>>, Charles Craik <Charles.Craik(a)ucsf.edu<mailto:Charles.Craik@ucsf.edu>>, "Danica Fujimori" <fujimori(a)cmp.ucsf.edu<mailto:fujimori@cmp.ucsf.edu>>, Natalia Jura <natalia.jura(a)ucsf.edu<mailto:natalia.jura@ucsf.edu>>, "Degrado, William" <Bill.DegRado(a)ucsf.edu<mailto:Bill.DegRado@ucsf.edu>>, "England, Pamela" <Pamela.England(a)ucsf.edu<mailto:Pamela.England@ucsf.edu>>, John Gross <jdgross(a)cgl.ucsf.edu<mailto:jdgross@cgl.ucsf.edu>>, Bo Huang <bo.huang(a)ucsf.edu<mailto:bo.huang@ucsf.edu>>, Xiaokun Shu <xiaokun.shu(a)ucsf.edu<mailto:xiaokun.shu@ucsf.edu>>, Susan Miller <smiller(a)cgl.ucsf.edu<mailto:smiller@cgl.ucsf.edu>>, "Gestwicki, Jason" <Jason.Gestwicki(a)ucsf.edu<mailto:Jason.Gestwicki@ucsf.edu>>, "Cheng, Yifan" <YCheng(a)ucsf.edu<mailto:YCheng@ucsf.edu>>, Alan Frankel <frankel(a)cgl.ucsf.edu<mailto:frankel@cgl.ucsf.edu>>, "Narlikar, Geeta" <geeta.narlikar(a)ucsf.edu<mailto:geeta.narlikar@ucsf.edu>>, "Lim, Wendell" <Wendell.Lim(a)ucsf.edu<mailto:Wendell.Lim@ucsf.edu>>, <Shawn.Douglas(a)ucsf.edu<mailto:Shawn.Douglas@ucsf.edu>>, Chris Waddling <waddling(a)msg.ucsf.edu<mailto:waddling@msg.ucsf.edu>>, Ajay Jain <ajain(a)jainlab.org<mailto:ajain@jainlab.org>>, Adam Abate <arabate(a)gmail.com<mailto:arabate@gmail.com>>, Michael Fischbach <fischbach(a)fischbachgroup.org<mailto:fischbach@fischbachgroup.org>>, "John Kuriyan" <kuriyan(a)berkeley.edu<mailto:kuriyan@berkeley.edu>>, Jamie Cate <jcate(a)lbl.gov<mailto:jcate@lbl.gov>>, <doudna(a)berkeley.edu<mailto:doudna@berkeley.edu>>, Bryan Krantz <bakrantz(a)berkeley.edu<mailto:bakrantz@berkeley.edu>>, David Wemmer <DEWemmer(a)lbl.gov<mailto:DEWemmer@lbl.gov>>, Andreas Martin <a.martin(a)berkeley.edu<mailto:a.martin@berkeley.edu>>, Judith Klinman <klinman(a)berkeley.edu<mailto:klinman@berkeley.edu>>, <jfkirsch(a)berkeley.edu<mailto:jfkirsch@berkeley.edu>>, Ron Vale <vale(a)cmp.ucsf.edu<mailto:vale@cmp.ucsf.edu>>, James Partridge <partridge.james(a)gmail.com<mailto:partridge.james@gmail.com>>, David Sivak <david.sivak(a)gmail.com<mailto:david.sivak@gmail.com>> Cc: Jacob Corn <corn.jacob(a)gene.com<mailto:corn.jacob@gene.com>> Subject: Protein Society Sponsored Dynamics Meeting - Tuesday November 5th 7PM at UCSF Want to get together and talk science with other Bay Area researchers interested in the ways macromolecules move? Come to ignite Bay Area Dynamics (iBAD) on November 5th. Absolutely everyone is invited, from student to professor and academia to industry. Hear the latest work on dynamics in a fast, pithy form: Ignite talks are only five minutes apiece, with auto-advancing slides! Refreshments are provided and there will be plenty of time to chat with colleagues and speakers. Speakers: Susan Marqusee (Berkeley) Vijay Pande (Stanford) Jacob Corn (Genentech) Gira Bhabha (UCSF) November 5th, 2013 - 7 PM UCSF - Mission Bay Campus Byers Hall 212 More info: http://www.fraserlab.com/ibad or email Jaime Fraser (james.fraser(a)ucsf.edu<mailto:james.fraser@ucsf.edu>) or Jacob Corn (corn.jacob(a)gene.com<mailto:corn.jacob@gene.com>) Sponsored by the Protein Society (Society membership not required to attend). -- -- James Fraser, PhD Assistant Professor Department of Bioengineering and Therapeutic Sciences Office: N212C Genentech Hall, Lab: N216 Genentech Hall james.fraser(a)ucsf.edu<mailto:james.fraser@ucsf.edu> // jaimefraser(a)gmail.com<mailto:jaimefraser@gmail.com> (415) 493-8421 http://www.fraserlab.com

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[Compbio-allhands] Fwd: Postdoctoral Fellow Position - The Rockefeller University
by Jacobson, Matt 25 Oct '13

25 Oct '13

-- Matt Sent from my iPad Begin forwarded message: From: "Melanie J. Lee" <leem(a)mail.rockefeller.edu<mailto:leem@mail.rockefeller.edu>> Date: October 25, 2013 11:17:43 AM PDT To: "Melanie J. Lee" <leem(a)mail.rockefeller.edu<mailto:leem@mail.rockefeller.edu>> Subject: Postdoctoral Fellow Position - The Rockefeller University We would greatly appreciate sharing the attached position within your graduate students and postdocs. Best regards, Melanie J. Lee Administrative Assistant Center for Studies in Physics and Biology The Rockefeller University 1230 York Avenue New York, NY 10065 Tel: 212-327-8636 Fax: 212-327-8544 http://www.rockefeller.edu/research/intercenter/cenphysics

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[Compbio-allhands] 10/31/13 Seminar with Erin Carlson
by Nicole Takesono Flowers 24 Oct '13

24 Oct '13

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 Erin Carlson Indiana Chemical Probes to Explore and Inhibit Bacterial Pathogenesis October 31, 2013 D. Fujimori, Host BBC Seminars are supported by the Biophysics, Bioinformatics, and Chemistry & Chemical Biology IFM, Department of Pharmaceutical Chemistry, QBC, HARC Center, and the Center for Systems and Synthetic Biology. 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] 10/24/13 Seminar with David Bartel
by Nicole Takesono Flowers 18 Oct '13

18 Oct '13

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 Bartel MIT MicroRNAs and a developmental switch in the nature of translational control. October 24, 2013 H. Madhani, Host BBC Seminars are supported by the Biophysics, Bioinformatics, and Chemistry & Chemical Biology IFM, Department of Pharmaceutical Chemistry, QBC, HARC Center, and the Center for Systems and Synthetic Biology. 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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