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

[Compbio-allhands] Fwd: Open Positions: ELBE Postdoc Program in Dresden
by Andrej Sali 30 Nov '12

30 Nov '12

-- 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: Open Positions: ELBE Postdoc Program in Dresden > Date: November 30, 2012 6:38:35 AM PST > To: undisclosed-recipients:; > > Dear colleague, > > The Max-Planck Institute for Molecular Cell Biology and Genetics (MPI-CBG) and the MPI for the Physics of Complex Systems (MPI-PKS) in Dresden have formed a new Systems Biology Center that is particularly focused on combining genomics, image-based, and bio-physical approaches. > We are beginning the first cycle of a fully-funded postdoctoral program and are seeking applicants. > > We kindly ask you to bring the attached one-page announcement to the attention of your students. > > Best regards, > Gene Myers > Founding Director, The Systems Biology Center at Dresden > > > Dr. Gene Myers, Director > Tschira Chair of Systems Biology > Max-Planck Institute of > Molecular Cell Biology & Genetics > Pfotenhauerstr. 108 > 01307 Dresden > > Tel: +49 351 210-1220 > Fax: +49 351 210-1209 > > > > >

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[Compbio-allhands] BBC Journal Club, December 4th
by Bass, Karche 29 Nov '12

29 Nov '12

BBC Journal Club BP-BMI-CCB Tuesday, December 4th at 10:45am-GH Auditorium Tara Friedrich Schmidt D, et. al. Waves of Retrotransposon Expansion Remodel Genome Organization and CTCF Binding in Multiple Mammalian Lineages. Cell, Volume 148, Issue 1, 335-348 (2012) Kay Aull Zhang Y, et. al. Structural Basis of Transcription Initiation. Science, vol. 338 no. 6110 pp. 1076-1080 (2012) Karché K. Bass Karché K. Bass | Administrative Assistant Asst. to John D. Gross, Charles S. Craik, Susan Miller, and Thomas James Department of Pharmaceutical Chemistry Administration; Box 2280 | University of California, San Francisco 600 16th Street, Suite 512 (5th Floor) | San Francisco, CA *: 415-502-0523 | 7: | *: Karche.Bass(a)ucsf.edu<mailto:Karche.Bass@ucsf.edu>

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[Compbio-allhands] Nodality is hiring...
by Schnoes, Alexandra 26 Nov '12

26 Nov '12

FYI, Nodality, who just hired Alan Barber from the Babbitt lab (and has at least two other UCSF alums that I know of) is looking for a computational biologist/bioinformatics scientist. http://www.nodality.com/company/careers/openings/scientist-bioinformatics.p… -- Alexandra Schnoes, PhD Program Coordinator Graduate Student Internships for Career Exploration (GSICE) University of California San Francisco 513 Parnassus Ave, S-224 Campus Box 0410 San Francisco, CA 94143 Tel: 415-476-0572 Fax: 415-476-0689 Email: alexandra.schnoes(a)ucsf.edu<mailto:alexandra.schnoes@ucsf.edu> Web: http://gsice.ucsf.edu<http://gsice.ucsf.edu/>

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[Compbio-allhands] 11/29/12 Seminar with Sunny Xie
by Nicole Takesono Flowers 26 Nov '12

26 Nov '12

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 Sunny Xie Harvard University Life at the Single Molecule Level November 29, 2012 D. Burkhardt, 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] BBC Journal Club, November 27th
by Bass, Karche 21 Nov '12

21 Nov '12

BBC Journal Club BP-BMI-CCB November 27th at 10:45am in GH Auditorium Nicole Olson Choi, I., et. al. Antibiotics in early life alter the murine colonic microbiome and adiposity. Nature, 488, pp. 621-626 (30 August 2012) Jack Yue Bencherif SA, et. al. Injectable preformed scaffolds with shape-memory properties. Proc Natl, (2012) Karché K. Bass Karché K. Bass | Administrative Assistant Asst. to John D. Gross, Charles S. Craik, Susan Miller, and Thomas James Department of Pharmaceutical Chemistry Administration; Box 2280 | University of California, San Francisco 600 16th Street, Suite 512 (5th Floor) | San Francisco, CA *: 415-502-0523 | 7: | *: Karche.Bass(a)ucsf.edu<mailto:Karche.Bass@ucsf.edu>

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[Compbio-allhands] 11/28/12 Seminar with Greg Verdine **OFF DATE & TIME**
by Nicole Takesono Flowers 21 Nov '12

21 Nov '12

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems 4 pm Genentech Hall Auditorium Simulcast to Parnassus Campus S-161 Greg Verdine Harvard University Cancer Chemical Biology Wednesday, November 28, 2012 J. Wells, Host **Please note this is an off date and time seminar** 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] Fwd: PhD position in bioinformatics
by Andrej Sali 20 Nov '12

20 Nov '12

-- 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: damien.devos(a)cos.uni-heidelberg.de > Subject: PhD position in bioinformatics > Date: November 20, 2012 7:33:42 AM PST > To: Michael.Rout(a)rockefeller.edu, sali(a)salilab.org, mfiedl(a)mac.com > Cc: avalencia(a)cnio.es > > Dear colleagues, thanks to publicize the available position in my lab, purely in bioinformatics: > > https://hbigs.system08.de/intern/projectspub_project_for.php?a=030000294000… > > Please let me know if you know anyone that could be interested. > Best wishes > > Damien > > **************** > Damien Devos > Center of Organismal Studies > Ruprecht-Karls-Universitat > Im Neuenheimer Feld 230 > 69120 Heidelberg, Germany > Tel: +49 (0) 6221 546254 > > > >

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[Compbio-allhands] Fwd: Research Cluster Grant Announced by Silicon Mechanics
by Tom Ferrin 14 Nov '12

14 Nov '12

From: Art Mann <research-grant(a)siliconmechanics.net<mailto:research-grant@siliconmechanics.net>> Reply-To: Art Mann <research-grant(a)siliconmechanics.net<mailto:research-grant@siliconmechanics.net>> Date: Monday, November 12, 2012 11:09 AM To: Jeff Bluestone <jeff.bluestone(a)ucsf.edu<mailto:jeff.bluestone@ucsf.edu>> Subject: Research Cluster Grant Announced by Silicon Mechanics Silicon Mechanics Announces Our Second Annual Research Cluster Grant We are pleased to again announce our sponsorship of a unique grant opportunity: A complete High Performance Compute Cluster using the latest AMD Opteron processors and NVIDIA GPUs Silicon Mechanics, a leading manufacturer of rackmount servers, storage systems, and high-performance computing solutions, is dedicated to building relationships and collaborating with professors and researchers at universities and other research institutions Last year’s Research Cluster Grant recipient, Saint Louis University, is already making productive use of their cluster, www.siliconmechanics.com/i43744/research-cluster-grant-winners-circle.php<http://www.siliconmechanics.com/i43744/research-cluster-grant-winners-circl…> This grant program is open to all US and Canadian qualified post-secondary institutions, university-affiliated research institutions, non-profit research institutions, and researchers at federal labs with university affiliations. Submissions will be reviewed for merit and related impacts. Further details on the grant rules and the technical specifications of the cluster itself are available at: http://www.siliconmechanics.com/i43822/Research+Cluster+Grant+Information.p… We hope you will consider this opportunity to support your research by submitting a proposal, or by forwarding this to others in your department who could benefit through this grant. If you have any questions, please do not hesitate to contact us at research-grant(a)siliconmechanics.com<mailto:research-grant@siliconmechanics.com>. Best regards, Art Mann Education/Research/Gov't Vertical Group Manager Silicon Mechanics 425-420-1285 artm(a)siliconmechanics.com<mailto:artm@siliconmechanics.com> Silicon Mechanics wishes to thank our partners who have helped make this grant possible: AMD · NVDIA · Mellanox · Supermicro · Seagate · Kingston Technology · Bright Computing <http://www.siliconmechanics.com/i42364/Lunch+and+Learn+Registration.php> This message was sent to you by Silicon Mechanics. We are located at 22029 23rd Dr SE, Bothell WA 98021. If you would prefer not to get any further mailings, please click here<https://www.siliconmechanics.com/mailtool/unsub.php?magic=ykrFfdI1iN1SWsyel…>.

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[Compbio-allhands] BBC Journal Club, November 20th
by Bass, Karche 14 Nov '12

14 Nov '12

BBC Journal Club BP-BMI-CCB Tuesday, November 20th, 10:45am; Genentech Hall Auditorium Ben Spangler Mi Hyeon Cho, et. al., A magnetic switch for the control of cell death signaling in in vitro and in vivo systems. Nature Materials DOI: 10.1038/NMAT3430; (2012) Peter Fellowes Cambell, KL, et. al., Substitutions in woolly mammoth hemoglobin confer biochemical properties adaptive for cold tolerance. Nature Genetics: 42(6):536-40; (2010) Karché K. Bass Karché K. Bass | Administrative Assistant Asst. to John D. Gross, Charles S. Craik, Susan Miller, and Thomas James Department of Pharmaceutical Chemistry Administration; Box 2280 | University of California, San Francisco 600 16th Street, Suite 512 (5th Floor) | San Francisco, CA *: 415-502-0523 | 7: | *: Karche.Bass(a)ucsf.edu<mailto:Karche.Bass@ucsf.edu>

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[Compbio-allhands] 11/15/12 Seminar with Robert Lamb
by Nicole Takesono Flowers 09 Nov '12

09 Nov '12

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 Robert Lamb Northwestern University Activating protein re-folding to cause paramyxovirus-mediated membrane fusion November 15, 2012 W. DeGrado, 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] BBC Journal Club, November 13th
by Bass, Karche 07 Nov '12

07 Nov '12

BBC Journal Club (BP-BMI-CCB) Tuesday, November 13th at 10:45am in GH Auditorium Amy Chang Douglas, S.m., et. al., A logic-gated nanorobot for targeted transport of molecular payloads. Science. 335(6070):831-4; (2012) Daniel Hemmelstein Reid, C.R., et. al, Slime mold uses an externalized spatial "memory" to navigate in complex environments. Proc Natl Acad Sci U S A. 109(43):17490-4 (2012) Karché K. Bass Karché K. Bass | Administrative Assistant Asst. to John D. Gross, Charles Craik, Susan Miller, Thomas James Department of Pharmaceutical Chemistry Administration; Box 2280 | University of California, San Francisco 600 16th Street, Suite 512 (5th Floor) | San Francisco, CA *: 415-502-0943 | 7: | *: Karche.Bass(a)ucsf.edu<mailto:Karche.Bass@ucsf.edu>

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[Compbio-allhands] 11/8/12 Seminar with Doug Lauffenberger
by Nicole Takesono Flowers 02 Nov '12

02 Nov '12

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 Doug Lauffenberger MIT In Vivo Systems Analysis of Cell-Cell Communication and Signaling in Inflammation November 8, 2012 K. Giacomini, 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] Insight Data Science Fellows Program - applications open for 2013
by Schnoes, Alexandra 01 Nov '12

01 Nov '12

The Insight Data Science Fellows Program is accepting applications for its second season. ===================== Insight Data Science Fellows Program Applications now open for 2013 http://insightdatascience.com<http://insightdatascience.com/> Silicon Valley technology companies are hiring data scientists to help them glean insights from the terabytes of data that they collect everyday. The Insight Data Science Fellows Program<http://insightdatascience.com/> is a postdoctoral training fellowship designed to bridge the gap between academia and a career in data science. Insight highlights: * 6 week fellowship in Palo Alto, CA includes tuition scholarship and a $5,000 living expense reimbursement. * 100% placement rate for Insight Fellows who completed job search in 2012. * Insight Fellows are now data scientists at LinkedIn, Facebook, Google, Twitter, Square, Microsoft and other top tech companies. For more information and to apply for the January, June and August 2013 sessions, please visit: http://insightdatascience.com<http://insightdatascience.com/> ===================== Please feel free to forward this to any appropriate mailing lists or to anyone who might be a good candidate for the Fellows Program. Also, if anyone has any questions please have them email me directly at jake(a)insightdatascience.com<mailto:jake@insightdatascience.com>. Many thanks, Jake --- Jake Klamka Founder, Insight

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Re: [Compbio-allhands] Visit from Jerry Tsai
by Jacobson, Matt 01 Nov '12

01 Nov '12

Forwarding this to the compbio listserv -- Matt Sent from my iPad On Nov 1, 2012, at 4:35 PM, "Brett T. Hannigan" <brett.hannigan(a)gmail.com<mailto:brett.hannigan@gmail.com>> wrote: Hi Dr. Jacobson, Dr. Sali, and Dr. Kortemme, I'm a PhD student in the DeGrado lab, and just wanted to let you guys know of a seminar that we have planned for next Tuesday, November 6th and 10:00 am. We will be hosting Dr. Jerry Tsai from the University of the Pacific, and he will be delivering a talk titled "An Amino Acid Code for Protein Structure." You can find his lab's website here: http://tsailab.chem.pacific.edu/ The seminar is currently scheduled to be held on the first floor of CVRI, in room SC159. We'd love to see anyone from your lab that is interested in coming. -Brett -- ****************************************** Brett T. Hannigan Belmont, CA brett.hannigan(a)gmail.com<mailto:brett.hannigan@gmail.com> ******************************************

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[Compbio-allhands] BBC Journal Club, November 6th
by Bass, Karche 31 Oct '12

31 Oct '12

BBC Journal Club (Tuesday, November 6- 10:45 am - GH Auditorium) Greg Fedewa Borodovka A., et. al., Evidence that viral RNAs have evolved for efficient, two-stage packaging. PNAS; vol 109 no. 39; (2012) Louise Goupil Frei AP., et. al,. Direct identification of ligand-receptor interactions on living cells and tissues. Frei et al. Nature Biotechnol; doi: 10.1038/nbt.2354; (2012) Karché K. Bass Karché K. Bass | Administrative Assistant Asst. to John D. Gross, Charles Craik, Susan Miller, Thomas James Department of Pharmaceutical Chemistry Administration; Box 2280 | University of California, San Francisco 600 16th Street, Suite 512 (5th Floor) | San Francisco, CA *: 415-502-0943 | 7: | *: Karche.Bass(a)ucsf.edu<mailto:Karche.Bass@ucsf.edu>

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[Compbio-allhands] Fwd: Postdoc position "Data Analysis" open at EMBL
by Andrej Sali 25 Oct '12

25 Oct '12

Sent from my iPhone Begin forwarded message: > From: Nina Papritz <assocdir(a)embl.org> > Date: October 25, 2012, 4:43:29 AM PDT > Cc: Matthias Hentze <hentze(a)embl.de>, Wolfgang Huber <whuber(a)embl.de> > Subject: Postdoc position "Data Analysis" open at EMBL > > Dear colleague, > > In my group at EMBL, we have a very interesting opening for a post-doc in the area of data analysis (see attached). The successful candidate will be included into the "wet-lab" projects of the Hentze group and be co-mentored by Wolfgang Huber. > > I would be very grateful if you could forward the ad to people that might be interested in such a position. > > Please feel free to contact me in case you have questions. > > Thank you very much! > > With kind regards, > Matthias > > > -- > Prof. Matthias W. Hentze, M.D. > Associate Director > European Molecular Biology Laboratory (EMBL) > Meyerhofstrasse 1 > 69117 Heidelberg > Germany > Tel: +49-(0)6221-387 8501 > Fax: +49-(0)6221-387 8144 > E-mail: hentze(a)embl.de

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[Compbio-allhands] BBC Journal Club, October 30th
by Bass, Karche 24 Oct '12

24 Oct '12

[BBC Journal Club] [BP * BMI * CCB] [Tuesday, October 30- 10:45 am - GH Auditorium] [Ben Heineike Thurman RE, et al. The accessible chromatin landscape of the human genome. Nature. 489(7414):75-82. doi: 10.1038/nature11232. 2012. Kyle Kundert Shiou Tzeng, et. al. Protein activity regulation by conformational entropy. Nature 488:236-240. 2012.] Karché K. Bass Karché K. Bass | Administrative Analyst Asst. to John D. Gross, Charles S. Craik, Susan Miller, and Thomas James Department of Pharmaceutical Chemistry Administration; Box 2280 | University of California, San Francisco 600 16th Street, Suite 512 (5th Floor) | San Francisco, CA *: 415-502-0523 | 7: | *: Karche.Bass(a)ucsf.edu<mailto:Karche.Bass@ucsf.edu>

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[Compbio-allhands] 10/24/12 Braisted Lecture with Stuart Schreiber
by Nicole Takesono Flowers 19 Oct '12

19 Oct '12

UCSF-UCB Andrew Braisted Award Lectureship Stuart Schreiber, Ph.D. Howard Hughes Medical Institute Broad Institute of Harvard & MIT Harvard University, Department of Chemistry & Chemical Biology Cancer genetic dependencies targeted by small molecules Wednesday, October 24, 2010 4 pm Genentech Hall Byers Auditorium UCSF Mission Bay Campus Simulcast to Parnassus, Room 161 Reception in 1st Floor Atrium following talk Contact: Jim Wells, Charles Craik Sponsor: The Andrew Braisted Lecture Fund 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] BBC Journal Club, October 23
by Bass, Karche 17 Oct '12

17 Oct '12

[BBC Journal Club] [BP * BMI * CCB] [Tuesday, October 23- 10:45 am - GH Auditorium] John Haliburton Thomas E Kuhlman, et. al. Gene location and DNA density determine transcription factor distributions in Escherichia coli. Molecular Systems Biology 8; 610; doi:10.1038/msb2012.42. 2012. Jordan Carelli Winter, GE., et. al. Systems-pharmacology dissection of a drug synergy in imatinib-resistant CML. Nat Chem Biol. doi: 10.1038/nchembio.1085. 2012. Karché K. Bass Karché K. Bass | Administrative Assistant Asst. to John D. Gross, Charles Craik, Susan Miller, Thomas James Department of Pharmaceutical Chemistry Administration; Box 2280 | University of California, San Francisco 600 16th Street, Suite 512 (5th Floor) | San Francisco, CA *: 415-502-0943 | 7: | *: Karche.Bass(a)ucsf.edu<mailto:Karche.Bass@ucsf.edu>

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[Compbio-allhands] Greg Bowman seminar, Monday Oct. 22, 10-11am: "Decrypting cryptic allosteric sites"
by David Sivak 16 Oct '12

16 Oct '12

Greg Bowman "Decrypting cryptic allosteric sites" Monday, Oct 22, 10-11am Genentech S204 Abstract: Cryptic allosteric sites--pockets in a folded protein that are invisible to conventional experiments but can alter enzymatic activity via allosteric communication with the active site--are a promising opportunity for facilitating drug design by greatly expanding the repertoire of available drug targets. Unfortunately, identifying these sites is difficult, typically requiring resource intensive screening of large libraries of small molecules. I will present recent advances in using Markov state models built from extensive computer simulations (totaling hundreds of microseconds of dynamics) to identify prospective cryptic sites from the equilibrium fluctuations of proteins like β-lactamase in the absence of any ligands. This approach reveals extensive conformational heterogeneity in folded proteins that could give rise to cryptic sites. Based on this observation, I hypothesized that cryptic sites should appear as high-energy (or low population) pockets adjacent to residues displaying correlated motions with the active site. I will show that these ingredients are sufficient to retrodict a known cryptic site in β-lactamase and, more importantly, predict the existence of a multitude of new sites. Finally, I will present the results of experimental tests supporting the existence of my new sites. Personal Web site: https://sites.google.com/site/gregoryrbowman/ -- David Sivak Systems Biology Fellow University of California, San Francisco david.sivak(a)gmail.com davidsivak.com 510-541-9006

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[Compbio-allhands] Fwd: On Behalf of Taekjip Ha and Klaus Schulten - PLEASE POST AND CIRCULATE
by Andrej Sali 15 Oct '12

15 Oct '12

-- 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: "Flanegin, Susan A" <flanegin(a)illinois.edu> > Subject: On Behalf of Taekjip Ha and Klaus Schulten - PLEASE POST AND CIRCULATE > Date: October 15, 2012 10:04:08 AM PDT > To: "Flanegin, Susan A" <flanegin(a)illinois.edu> > Cc: "Yodh, Jaya G" <jyodh(a)illinois.edu>, "ralf.blossey(a)iri.univ-lille1.fr" <ralf.blossey(a)iri.univ-lille1.fr>, "ralf.seidel(a)biotec.tu-dresden.de" <ralf.seidel(a)biotec.tu-dresden.de>, "rama.ranganathan(a)utsouthwestern.edu" <rama.ranganathan(a)utsouthwestern.edu>, "Rao, Christopher V" <cvrao(a)illinois.edu>, "rao(a)cua.edu" <rao(a)cua.edu>, "rappel(a)physics.ucsd.edu" <rappel(a)physics.ucsd.edu>, "irasnik(a)physics.emory.edu" <irasnik(a)physics.emory.edu>, "ratner(a)northwestern.edu" <ratner(a)northwestern.edu>, "reevesme(a)gwu.edu" <reevesme(a)gwu.edu>, "lynne.regan(a)yale.edu" <lynne.regan(a)yale.edu>, "ribbeck(a)mit.edu" <ribbeck(a)mit.edu>, "ebright(a)waksman.rutgers.edu" <ebright(a)waksman.rutgers.edu>, "R.Bowater(a)uea.ac.uk" <R.Bowater(a)uea.ac.uk>, "anne.ridley(a)kcl.ac.uk" <anne.ridley(a)kcl.ac.uk>, "drissin(a)quanterix.com" <drissin(a)quanterix.com>, "kpritchie(a)purdue.edu" <kpritchie(a)purdue.edu>, "erittwe(a)gwdg.de" <erittwe(a)gwdg.de>, "mr(a)jhu.edu" <mr(a)jhu.edu>, "rw144(a)le.ac.uk" <rw144(a)le.ac.uk>, "susana.rocha(a)chem.kuleuven.be" <susana.rocha(a)chem.kuleuven.be>, "rodionov(a)nso.uchc.edu" <rodionov(a)nso.uchc.edu>, "srogers(a)bio.unc.edu" <srogers(a)bio.unc.edu>, "Antonina(a)mail.nih.gov" <Antonina(a)mail.nih.gov>, "r.tuma(a)leeds.ac.uk" <r.tuma(a)leeds.ac.uk>, "chalmers(a)nottingham.ac.uk" <chalmers(a)nottingham.ac.uk>, "michael.rosen(a)utsouthwestern.edu" <michael.rosen(a)utsouthwestern.edu>, "joel.rosenbaum(a)yale.edu" <joel.rosenbaum(a)yale.edu>, "jody.rosenblatt(a)hci.utah.edu" <jody.rosenblatt(a)hci.utah.edu>, "sr2327(a)columbia.edu" <sr2327(a)columbia.edu>, "rross(a)ucsd.edu" <rross(a)ucsd.edu>, "Eli.Rothenberg(a)nyumc.org" <Eli.Rothenberg(a)nyumc.org>, "rottapel(a)uhnres.utoronto.ca" <rottapel(a)uhnres.utoronto.ca>, "a.round(a)uea.ac.uk" <a.round(a)uea.ac.uk>, "roux(a)uchicago.edu" <roux(a)uchicago.edu>, "rouzi002(a)umn.edu" <rouzi002(a)umn.edu>, "ruderman(a)hms.harvard.edu" <ruderman(a)hms.harvard.edu>, "rudner(a)hms.harvard.edu" <rudner(a)hms.harvard.edu>, "rudy(a)wustl.edu" <rudy(a)wustl.edu>, "rueda(a)chem.wayne.edu" <rueda(a)chem.wayne.edu>, "valya(a)ou.edu" <valya(a)ou.edu>, "saffarian(a)physics.utah.edu" <saffarian(a)physics.utah.edu>, "safinya(a)mrl.ucsb.edu" <safinya(a)mrl.ucsb.edu>, "Sam.Safran(a)weizmann.ac.il" <Sam.Safran(a)weizmann.ac.il>, "saikrishnan(a)iiserpune.ac.in" <saikrishnan(a)iiserpune.ac.in>, "isaito(a)ims.u-tokyo.ac.jp" <isaito(a)ims.u-tokyo.ac.jp>, "ksogawa(a)riken.jp" <ksogawa(a)riken.jp>, "saleh(a)engineering.ucsb.edu" <saleh(a)engineering.ucsb.edu>, "sali(a)salilab.org" <sali(a)salilab.org>, "hsalman(a)pitt.edu" <hsalman(a)pitt.edu>, "tsalmon(a)email.unc.edu" <tsalmon(a)email.unc.edu>, "azadeh(a)brandeis.edu" <azadeh(a)brandeis.edu>, "samuel(a)physics.harvard.edu" <samuel(a)physics.harvard.edu>, "h.sanchezgonzalez(a)erasmusmc.nl" <h.sanchezgonzalez(a)erasmusmc.nl>, "tsanden(a)kth.se" <tsanden(a)kth.se>, "sandler(a)microbio.umass.edu" <sandler(a)microbio.umass.edu>, "vahid.sandoghdar(a)phys.chem.ethz.ch" <vahid.sandoghdar(a)phys.chem.ethz.ch>, "sangerjo(a)upstate.edu" <sangerjo(a)upstate.edu>, "mark.sansom(a)bioch.ox.ac.uk" <mark.sansom(a)bioch.ox.ac.uk>, "s.a.stratmann(a)rug.nl" <s.a.stratmann(a)rug.nl>, "s.miles(a)bristol.ac.uk" <s.miles(a)bristol.ac.uk>, "sarkarsk(a)mail.nih.gov" <sarkarsk(a)mail.nih.gov>, "ycsasaki(a)spring8.or.jp" <ycsasaki(a)spring8.or.jp>, "shs(a)chem.psu.edu" <shs(a)chem.psu.edu>, "dschlaepfer(a)ucsd.edu" <dschlaepfer(a)ucsd.edu>, "schlick(a)nyu.edu" <schlick(a)nyu.edu>, "schlierf(a)bcube-dresden.de" <schlierf(a)bcube-dresden.de>, "slschmid(a)scripps.edu" <slschmid(a)scripps.edu>, "jmscholey(a)ucdavis.edu" <jmscholey(a)ucdavis.edu>, "tschroe1(a)jhem.jhu.edu" <tschroe1(a)jhem.jhu.edu>, "daniel.schwartz(a)colorado.edu" <daniel.schwartz(a)colorado.edu>, "Ulrich.Schwarz(a)kit.edu" <Ulrich.Schwarz(a)kit.edu>, "jschwarz(a)princeton.edu" <jschwarz(a)princeton.edu>, "schwille(a)biotec.tu-dresden.de" <schwille(a)biotec.tu-dresden.de>, "dschwinn(a)uw.edu" <dschwinn(a)uw.edu>, "giorgio.scita(a)ifom-ieo-campus.it" <giorgio.scita(a)ifom-ieo-campus.it>, "ned.seeman(a)nyu.edu" <ned.seeman(a)nyu.edu>, "segall(a)aecom.yu.edu" <segall(a)aecom.yu.edu>, "cseidel(a)hhu.de" <cseidel(a)hhu.de>, "Selvin, Paul R" <selvin(a)illinois.edu>, "anirvan(a)physics.rutgers.edu" <anirvan(a)physics.rutgers.edu>, "dsept(a)biomed.wustl.edu" <dsept(a)biomed.wustl.edu>, "simas(a)indiana.edu" <simas(a)indiana.edu>, "sethna(a)lassp.cornell.edu" <sethna(a)lassp.cornell.edu>, "gseydoux(a)jhmi.edu" <gseydoux(a)jhmi.edu>, "shaevitz(a)princeton.edu" <shaevitz(a)princeton.edu>, "profss(a)yahoo.com" <profss(a)yahoo.com>, "lawrenceshapiro3(a)gmail.com" <lawrenceshapiro3(a)gmail.com>, "shapiro(a)convex.hhmi.columbia.edu" <shapiro(a)convex.hhmi.columbia.edu>, "sishaw(a)indiana.edu" <sishaw(a)indiana.edu>, "shea(a)chem.ucsb.edu" <shea(a)chem.ucsb.edu>, "ms2001(a)columbia.edu" <ms2001(a)columbia.edu>, "jpshen(a)phys.sinica.edu.tw" <jpshen(a)phys.sinica.edu.tw>, "david.sherratt(a)bioch.ox.ac.uk" <david.sherratt(a)bioch.ox.ac.uk>, "William_Shih(a)dfci.harvard.edu" <William_Shih(a)dfci.harvard.edu>, "shnerbn(a)mail.biu.ac.il" <shnerbn(a)mail.biu.ac.il>, "shubeita(a)chaos.utexas.edu" <shubeita(a)chaos.utexas.edu>, "kshukla(a)nsf.gov" <kshukla(a)nsf.gov>, "stas(a)princeton.edu" <stas(a)princeton.edu> > > > Dear Colleagues, > We are writing to inform you of several postdoctoral fellowship opportunities for the coming academic year, starting September 2013, in experimental and theoretical biophysics in the "Center for the Physics of Living Cells" (CPLC), a National Science Foundation Physics Frontier Center at the University of Illinois, Urbana-Champaign. > > Research in the Center falls in one of four themes: > (1) Maximizing information content of single molecule experiments; > (2) Using synthetic nanostructures to mimic cellular environments; > (3) Observing individual events within single cells; > (4) Extending computation to biologically relevant timescales, and theory to greater biological realism. > > Fellows will be using state-of-the-art experimental and theoretical biophysical tools to accomplish these goals: optical tweezers, single-molecule and super-resolution fluorescence microscopy, fabrication of synthetic nanostructure, live cell imaging, chemical biology and genomic biology tools, microscopic and coarse-grained molecular simulations, stochastic modeling, whole cell simulations, as well as the standard methods of molecular and cellular biology and genetics. Research will involve both the development and improvement of experimental and computational techniques and the application of these techniques to particular biological processes such as replication, transcription, translation, cell transport, signaling, and motility. As projects are collaborative endeavors between several labs, the Fellows will have the opportunity to be jointly advised by two or more faculty members of the Center. > Interested applicants should apply via https://my.physics.illinois.edu/join/ no later than December 1, 2012. Applications should include: cover letter, curriculum vita, research statement, publications list, and contact information for three references. Applications received after the December 1st deadline may not be considered. A full job description can be found at: http://www.cplc.illinois.edu/opps/postdocs.asp. > > Please post and circulate the attached announcement or if interested, apply accordingly. > > For more information about CPLC, please visit http://cplc.illinois.edu . > > Thank you. > > Taekjip Ha and Klaus Schulten > Co-directors, Center for the Physics of Living Cells > director(a)cplc.illinois.edu > http://cplc.illinois.edu > University of Illinois at Urbana-Champaign > 1110 West Green Street, MC 704 > Urbana, IL 61801-3080, USA >

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[Compbio-allhands] Fwd: bioengineering, biostats/epidemiology, and biochemistry faculty positions at UC Merced
by Andrej Sali 15 Oct '12

15 Oct '12

-- 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: David Ojcius <david.ojcius(a)gmail.com> > Subject: bioengineering, biostats/epidemiology, and biochemistry faculty positions at UC Merced > Date: October 14, 2012 5:45:19 PM PDT > To: sali(a)salilab.org > Reply-To: David Ojcius <dojcius(a)ucmerced.edu> > > Dear Dr. Sali: > > I'm writing to draw your attention to a search for two faculty positions in biostatistics/epidemiology and biochemistry/molecular biology at the assistant professor rank that may be of interest to your post-docs or former graduate students. The positions are in the Molecular Cell Biology group at the newest campus of the University of California (UC) in Merced. Preference will be given to candidates doing research related to cancer, diabetes, neurobiology, inflammation, infectious disease, or mechanisms of cell fate decisions. Applicants must have a Ph.D. and a record of research, publication, and teaching commensurate with a faculty appointment at the University of California. > > The university also seeks applications for an open-rank position in bioengineering. A preference will be given to candidates working on physiological modeling, but strong candidates in other areas will also be considered. > > Interested individuals can refer to the full postings at: > http://jobs.ucmerced.edu/n/academic/position.jsf?positionId=4259 > http://jobs.ucmerced.edu/n/academic/position.jsf?positionId=4252 > http://jobs.ucmerced.edu/n/academic/position.jsf?positionId=4264 > > For additional information on UC Merced or the current biomedical sciences research programs, they can refer to the following website: > http://hsri.ucmerced.edu/ > > UC Merced is an affirmative action/equal opportunity employer with a strong commitment to the achievement of diversity among its faculty, staff, and students, and we strongly encourage applications from women and underrepresented groups. > > Sincerely yours, > > David Ojcius

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[Compbio-allhands] Fwd: Expertise in computational modelling systems
by Tom Ferrin 15 Oct '12

15 Oct '12

-------- Original Message -------- Subject: Expertise in computational modelling systems Date: Mon, 15 Oct 2012 10:09:31 +0100 From: Veronique Scordia <VS(a)oakland.co.uk> To: <tef(a)cgl.ucsf.edu> Good morning, My name is Véronique Scordia and I am working for a company called Oakland Innovation, a technology research company, based in Cambridge, UK. I am working with a client, a multinational food company, that is looking to *fund a PhD or a Post-Doc position to build a computational modelling system to predict UV-Visible spectral properties of certain molecules. * Indeed, our client asked us to find academic groups with capabilities to build a computational modelling system to predict UV-Visible spectral properties of certain molecules. These molecules have certain degree of conjugation and number of aromatic groups. Additionally they would like to model the effect of solvent, changes in pH and presence of multiple molecule interaction have on the UV-Visible spectral properties of these molecules. I will call you in the next few days, please let me know if there is a particular time/day that would suit you best. I am looking forward to our conversation. Kindest regards, Véronique ** ** *Véronique Scordia PhD Senior Analyst* * Oakland Innovation Ltd 328/329 Cambridge Science Park* *Milton Road* *Cambridge CB4 0WG* *UK* *T: +44 (0) 1223 507500 F: +44 (0) 1223 507501 E: vs(a)oakland.co.uk <mailto:vs@oakland.co.uk>* *www.oakland.co.uk <file:///\\www.oakland.co.uk> * *------------------------------------------------------- * *OAKLAND: INTELLIGENT THINKING ON BUSINESS INTELLIGENCE * * *CONFIDENTIAL: The information in this document is confidential and may be legally privileged. It is intended solely for the addressee. Access to this document by anyone else is unauthorised. If you are not the intended recipient, any disclosure, copying, distribution or any action taken or omitted to be taken in reliance on it, is prohibited and may be unlawful. It is possible for e-mails to be intercepted or affected by viruses. Whilst we maintain virus checks on inbound e-mails, we accept no liability for viruses or other material introduced with this message. This email message has been scanned for viruses by MessageLabs.

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[Compbio-allhands] 10/18/12 Seminar with Dianne Newman
by Nicole Takesono Flowers 12 Oct '12

12 Oct '12

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 Dianne Newman CalTech New interpretations of ancient biomarkers: exploring the functions of (2-methyl) hopanoids, steroid analogs in bacteria October 18, 2012 J. Kliegman, 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] Fwd: Advice much appreciated - Faculty position UW High resolution electron microscopy
by Andrej Sali 11 Oct '12

11 Oct '12

Sent from my iPhone Begin forwarded message: > From: "Wim G. J. Hol" <wghol(a)uw.edu> > Date: October 11, 2012, 11:26:08 AM PDT > To: sali(a)salilab.org > Subject: Advice much appreciated - Faculty position UW High resolution electron microscopy >

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