April 2013 - compbio-allhands@cgl.ucsf.edu

[Compbio-allhands] Fwd: Editorial position
by Brian Shoichet 29 Apr '13

29 Apr '13

For those interested in editor positions, this is a good group -- ---------- Forwarded message ---------- From: Sheppard, Terry <t.sheppard(a)us.nature.com> Date: Mon, Apr 29, 2013 at 9:40 AM Subject: Editorial position To: Brian Shoichet <shoichet(a)cgl.ucsf.edu> Hi Brian,**** I hope that you are well and that your transition to your new digs is proceeding smoothly.**** ** ** We are hiring a new Assistant Editor at *Nature Chemical Biology* and seek your help in getting the word out. You can see the advertisement here: http://www.nature.com/naturejobs/science/jobs/318829-Assistant-Editor. **** ** ** Please pass it along to colleagues and to any of your research associates who may be interested in applying. We have a slight preference for candidates whose backgrounds fall more on the biological side of chemical biology, but we are happy to see applications from scientists with training in any area of chemical biology.**** ** ** Many thanks,**** Terry**** ** ** Terry L. Sheppard, Ph.D.**** Editor, *Nature Chemical Biology***** ** ** -- Brian Shoichet Professor University of California, San Francisco Dept. of Pharmaceutical Chemistry phone: 415-514-4126; fax: 415-514-4260 http://shoichetlab.compbio.ucsf.edu

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[Compbio-allhands] 5/2/13 Seminar with Laura Kiessling
by Nicole Takesono Flowers 26 Apr '13

26 Apr '13

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 Laura Kiessling University of Wisconsin-Madison Probing and Perturbing the Cell's Glycan Coat May 2, 2013 K. Shokat, 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] 5/2/13 Seminar with Laura Kiessling
by Nicole Takesono Flowers 26 Apr '13

26 Apr '13

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall Auditorium Simulcast to Parnassus Campus HSW 303 Laura Kiessling University of Wisconsin-Madison Probing and Perturbing the Cell's Glycan Coat May 2, 2013 K. Shokat, 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: postdoc ad
by Tom Ferrin 23 Apr '13

23 Apr '13

Postdoc opportunity... -------- Original Message -------- Subject: postdoc ad Date: Sun, 21 Apr 2013 16:22:56 -0400 (EDT) From: Sarah Tishkoff <tishkoff(a)mail.med.upenn.edu> To: <tef(a)cgl.ucsf.edu> Dear Dr. Ferrin, I am currently advertising for postdoc position and would be very appreciative if you could send out this postdoc ad to graduate students in the bioinformatics program at UCSF. We have a FANTASTIC opportunity for creative and independent postdocs to work on some one-of-a-kind datasets that we are generating in the next year. There will definitely be opportunities for developing/applying novel methodology and for publishing high profile papers Thanks very much in advance. Best Regards, Sarah Sarah Tishkoff, Ph.D. David and Lyn Silfen University Professor Departments of Genetics and Biology University of Pennsylvania Tel: 215-746-2670 tishkoff(a)mail.med.upenn.edu http://www.med.upenn.edu/tishkoff/

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[Compbio-allhands] Fwd: Bioinformatics Summer Intern Posting_Ltr(2).docx
by Andrej Sali 23 Apr '13

23 Apr '13

-- 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: Dan Hostetter <dan(a)cytomx.com> > Subject: Bioinformatics Summer Intern Posting_Ltr(2).docx > Date: April 22, 2013 4:29:09 PM PDT > To: Dave Barkan <davebarkan(a)gmail.com>, "sali(a)salilab.org" <sali(a)salilab.org> > Cc: Luc Desnoyers <luc(a)cytomx.com> > > Hi Dave and Andrej, > > Hope you are both doing really well! > > I’ve been having a great time applying my protease knowledge at CytomX . We have started our very first summer internship program and need bioinformatics expertise. I thought both of you would be a great resource for recommendations. > > CytomX has applied the pro-drug concept to antibody therapeutics to address toxicities that occur when antibodies bind to target in healthy tissue. We call our protease activated antibodies “Probodies”. Our technology leverages protease activity that is present in tumor tissue and not healthy tissue to activate our Probodies. We would love to mine RNA expression databases for targets that fit certain criteria such as (1) extracellular and therefore accessible to an antibody therapeutic and (2) a protease that can cleave our Probody is also expressed. The ideal candidate would be comfortable working with RNA expression databases and able to create filters based on the needs of our Probody platform. I’ve attached a description of the intern position to this email as a Word document. > > I’m copying Luc Desnoyers on this email. Luc is the head of our cell biology group and is a great mentor. The student intern would be working with Luc and someone in the cell biology group. I can vouch that everyone in Luc’s group is nice and all of them are patient teachers. > > If you have anyone in mind that would be a good fit, please let us know. I’m confident they would have a great experience at CytomX. > > Thanks guys! > > Best, > Dan

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[Compbio-allhands] 4/18/13 Seminar with Adrian Keatinge-Clay
by Nicole Takesono Flowers 19 Apr '13

19 Apr '13

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall Auditorium Simulcast to Parnassus Campus HSW 303 Former Biophysics Student and Stroud Lab Post-doc, Adrian Keatinge-Clay University of Texas Visualizing and harnessing polyketide assembly lines April 25, 2013 R. Stroud, 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] 4/18/13 Seminar with Garry Nolan
by Nicole Takesono Flowers 19 Apr '13

19 Apr '13

BBC Graduate Programs Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, 12 Noon Genentech Hall Auditorium Simulcast to Parnassus Campus HSW 303 Former Biophysics Student and Stroud Lab Post-doc, Adrian Keatinge-Clay University of Texas Visualizing and harnessing polyketide assembly lines April 25, 2013 R. Stroud, 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: Computational biologist position at Monsanto
by Jacobson, Matt 16 Apr '13

16 Apr '13

Begin forwarded message: From: "Groban, Eli" <EGroban(a)intrexon.com<mailto:EGroban@intrexon.com>> Subject: FW: Computational biologist position at Monsanto Date: April 16, 2013 11:33:58 AM PDT To: "matt(a)cgl.ucsf.edu<mailto:matt@cgl.ucsf.edu>" <matt(a)cgl.ucsf.edu<mailto:matt@cgl.ucsf.edu>> FYI. Thank you, Eli Groban, PhD Director, Metabolic Engineering and Systems Biology Industrial Products Division Intrexon Corporation 201 Industrial, Suite 450, San Carlos, CA 94070 p: 650.597.4026 | m: 415.971.7517 | egroban(a)intrexon.com<mailto:name@intrexon.com> www.dna.com<http://www.dna.com/> From: Kevin Costa <kcosta(a)berkeley.edu<mailto:kcosta@berkeley.edu>> Date: Tuesday, April 16, 2013 11:19 AM To: "all(a)synberc.org<mailto:all@synberc.org>" <all(a)synberc.org<mailto:all@synberc.org>> Subject: Computational biologist position at Monsanto Monsanto seeks a creative, mathematically-minded Computational Biologist to help us transform big data into higher yielding crops. In this role you role will support research across Monsanto Technology by integrating, modeling, and interpreting unprecedented genomic, transcriptomic, metabolic, phenotypic, population genetic, and geospatial data, all with the goal of driving interpretation into practical use. We aim to help feed the mid-21st century world using less water, less fertilizer, and less pesticide. https://monsanto.taleo.net/careersection/2/jobdetail.ftl?job=262740&lang=en… -- [cid:part2.03050501.00000805@berkeley.edu]<http://synberc.org/> Kevin Costa Administrative Director SynBERC - Synthetic Biology Engineering Research Center University of California, Berkeley 5885 Hollis Street, Room 4214, Mailcode 3224 Emeryville, CA 94608-2015 510-486-7568 510-432-7568 (cell) 510-486-4252 (fax) kcosta(a)berkeley.edu<mailto:kcosta@berkeley.edu> www.synberc.org<http://www.synberc.org/> ________________________________ CONFIDENTIAL TRANSMISSION - This message, including any attachments, is confidential and may be privileged. If you are not the intended recipient, please delete it without further distribution and reply to the sender that you have received the message in error. [cid:part2.03050501.00000805@berkeley.edu] 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] 4/18/13 Seminar with Garry Nolan
by Nicole Takesono Flowers 12 Apr '13

12 Apr '13

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 Garry Nolan Stanford A structure for cancer and immunity at the single cell level by mass cytometry April 18, 2013 J. Rettenmaier, 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] 4/11/13 Seminar with Brenda Schulman
by Nicole Takesono Flowers 04 Apr '13

04 Apr '13

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 Brenda Schulman St. Jude Children's Research Hospital Twists and Turns in Ubiquitin Conjugation Cascades April 11, 2013 J. Gross, 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 April 2013