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

[Compbio-allhands] Fwd: computational scientist for GBT
by Andrej Sali 13 Sep '12

13 Sep '12

Begin forwarded message: > From: Steve Gwaltney <sgwaltney(a)globalbloodtx.com> > Subject: computational scientist for GBT > Date: September 10, 2012 6:14:45 PM PDT > To: Matt Jacobson <matt.jacobson(a)ucsf.edu>, Andrej Sali <sali(a)salilab.org> > Cc: Brian Metcalf <bmetcalf(a)globalbloodtx.com>, Kathy Stafford <kstafford(a)globalbloodtx.com> > > Hi Matt and Andrej, > > I am looking to hire a computational scientist to help us with compound design, structural biology issues, predictive tools, etc. Please find attached a job description for this position. If you know of good scientists who are qualified, please forward this to them. > > Thank you, > Steve > > Stephen L. Gwaltney, II, PhD > Vice President, Chemistry > Global Blood Therapeutics > 455 Mission Bay Blvd South > Suite 575 > San Francisco, CA 94158 > 415-766-3626 >

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[Compbio-allhands] Fwd: seminar announcement
by Jacobson, Matt 11 Sep '12

11 Sep '12

From: Matthew Jacobson <Matt.Jacobson(a)ucsf.edu<mailto:Matt.Jacobson@ucsf.edu>> Subject: seminar announcement Date: September 10, 2012 3:46:12 PM PDT To: <allhands(a)compbio.ucsf.edu<mailto:allhands@compbio.ucsf.edu>>, <BPSTUDENTS(a)LISTSRV.UCSF.EDU<mailto:BPSTUDENTS@LISTSRV.UCSF.EDU>> David Shaw will be giving a talk on October 4; there is no BBC seminar scheduled that day, so we will use the noon timeslot. I'll send out a title and a reminder later. Seminar: Thursday, October 4, 2012 from 12-1PM, Location: GH Auditorium For those who don't know him: http://www.deshawresearch.com/ -- Matt 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: Post-doctoral advert
by Andrej Sali 30 Aug '12

30 Aug '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: "Prof. C.E. Rudd" <cer51(a)cam.ac.uk> > Subject: Post-doctoral advert > Date: August 31, 2012 9:38:55 AM GMT+12:00 > To: lavy(a)stevens.edu > Cc: caterina.strambio(a)unige.ch, sali(a)salilab.org > > > Dear Colleague > > Would it be possible to ask you to post this advert for a post-doctoral fellow position in Cambridge University? We recently uncovered a novel immune cell specific adaptor that binds to the cytoplasmic face of the NPC in T-cells and which regulates RanGAP activity. > > Thank you for your help with this. > > Chris > > > -- > Christopher E. Rudd, Ph.D, D.Sc. > Professor of Molecular Immunology > Head, Cell Signalling Section > Department of Pathology > University of Cambridge > Tennis Court Road > Cambridge, UK > CB2 1QP > Tel: 44 1223 765 661 > Fax: 44 1223 764 733 > and > Cambridge Institute of Medical Research > Hills Road, Cambs CB2 0XY > 01223-769087 (lab: 01223-769086) > > http://www.cimr.cam.ac.uk/investigators/rudd/index.html > http://www.path.cam.ac.uk/pages/rudd/ > > http://www.immunology.cam.ac.uk/directory/profile.php?cerudd > http://www.infectiousdisease.cam.ac.uk/directory/cer51@cam.ac.uk > > >

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[Compbio-allhands] Fwd: open positions
by Jacobson, Matt 30 Aug '12

30 Aug '12

position open just across the street from UCSF Begin forwarded message: From: Michael Gonzales <mgonzales(a)celgene.com<mailto:mgonzales@celgene.com>> Subject: open positions Date: August 30, 2012 12:18:23 PM PDT To: "matt.jacobson(a)ucsf.edu<mailto:matt.jacobson@ucsf.edu>" <matt.jacobson(a)ucsf.edu<mailto:matt.jacobson@ucsf.edu>> Matt, Hope all is going well with you. I'm wondering if you know anyone that might be a fit for a couple open positions that I have in my group. The positions are "contract" but I intend to make these full time after successful completion of the project. I'm looking for someone to essentially lead NGS analysis for my group. Specifically I need someone who is experienced in: - rigorous analysis of RNA-seq data (ideally from clinical samples) - GEP, mutations, splice form quantification, gene fusions, etc - putting together the infrastructure to analyze NGS data (db, algorithms, etc) Here's my wish list of qualifications: ============================= REQUIRED QUALIFICATIONS · Graduate-level degree (Ph.D. preferred) in a life science discipline (bioinformatics, biology, biochemistry, medicinal chemistry, bioengineering, etc.). Candidates with a degree in another natural science, computer science, information technology or a related discipline will also be considered but must have a track record of research experience in computational life science · Two years post-graduate work experience conducting computational biology research (academic, government, or industry) · Proven record of working with Next-Gen Sequence (NGS) analysis including RNA-seq, ChIP-seq, whole genome assembly. · Extensive experience with large genomic data sets, as exemplified by the following areas: microarray analysis, high-throughput sequence analysis, automated annotation, gene prediction, population genomics, quantitative genetics, comparative genomics · Experience working in a command line environment including compiling and configuring bioinformatics software · Experience with extracting, manipulating, and integrating data from public biological data repositories (e.g. NCBI, Ensembl, UCSC). · Proficient programming skills with at least one scripting language (Perl, R, Python, Ruby, etc) · Strong interest in science and technology and ability to rapidly adopt and adapt to leading edge technologies · Excellent oral presentation and communications skills · Advanced ability to work independently under established deadlines and as part of a team PREFERRED QUALIFICATIONS · Demonstrated success in publishing computational science results and in presenting data to senior management · Experience managing projects involving advanced computing and information technologies used in life science research in academia, government laboratories, and/or industry · Proven ability to promote and support the use of computing, visualization, networking, and massive data storage systems to scientists to expand their research impact ============================= ------------------------------------------------------- Michael B. Gonzales, Ph.D. Director, Computational Biology Celgene Corporation 1500 Owens Street, Suite 600 San Francisco, CA 94158 T: 415.839.7113 │ F: 415.839.7011 ********************************************************* THIS ELECTRONIC MAIL MESSAGE AND ANY ATTACHMENT IS CONFIDENTIAL AND MAY CONTAIN LEGALLY PRIVILEGED INFORMATION INTENDED ONLY FOR THE USE OF THE INDIVIDUAL OR INDIVIDUALS NAMED ABOVE. If the reader is not the intended recipient, or the employee or agent responsible to deliver it to the intended recipient, you are hereby notified that any dissemination, distribution or copying of this communication is strictly prohibited. If you have received this communication in error, please reply to the sender to notify us of the error and delete the original message. Thank You. ********************************************************* 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: Research Fellow in Computational Structural Biology
by Andrej Sali 30 Aug '12

30 Aug '12

Begin forwarded message: > From: Jennifer Wilkinson <jennifer.wilkinson(a)cs.ox.ac.uk> > Subject: Research Fellow in Computational Structural Biology > Date: August 30, 2012 9:40:21 PM GMT+12:00 > To: "sali(a)salilab.org" <sali(a)salilab.org> > > Dear Dr. Sali, > > We currently are advertising a research fellowship vacancy in Oxford, and would be grateful if you could distribute details to anyone who may be interested within your group. I have pasted details of the position below. > > Many thanks, > > Jennifer > > Research Fellow in Computational Structural Biology > > Grade 7: Salary £29,249-£35,938 (with a discretionary range to £39,257) > Fixed term contract for up to 2 years duration > > We are looking for a highly motivated researcher with a documented track record of successful research projects and a desire to do interdisciplinary research. This 24 month post-doctoral position will focus on the development and application of new methods in structure-based modelling and bioinformatics. The research will be carried out under the supervision of Prof. Charlotte Deane and Dr. Peter Minary in collaboration with the Structural Genomics Consortium and the EPSRC funded2020 Science programme. > > Candidates who have a doctorate in a relevant discipline and experience in scientific computing, software development and structural biology are particularly sought; however, exceptional candidates in all areas will be considered. Excellent programming and statistical skills are essential, as is experience of working with large-scale data sets. You will be expected to produce leading scientific research, publish results in top scientific journals, and interact closely with other members of the group and group collaborators. > > The post is available for up to 2 years, has a salary on the University grade 07S scale (currently £29,249 to £35,938), includes membership of the University pension scheme and has an annual leave entitlement of 38 days per year (inclusive of all public holidays and university closed periods). Requests to work on a part time or flexible basis will be considered. > > In addition candidates should arrange for the two letters of reference to be sent directly to the Administration Department (Vacancies), 1 South Parks Road, Oxford, OX1 3TG, email: jobs(a)stats.ox.ac.uk, before the closing date (a letter by email is sufficient). > > Please direct informal enquiries to the Administrator (email: jobs(a)stats.ox.ac.uk) Please quote reference: 104157 on all correspondence. > > To apply for this role and for further details, including the job description and selection criteria, please click here. All applications for this vacancy are to be made online > > Only applications received before the closing date 12 noon (UK time) Monday 1 October, 2012, can be considered. > > > > Jennifer Wilkinson > Project Manager > ___________ > University of Oxford > Department of Computer Science > Wolfson Building > Parks Road > Oxford OX1 3QD > > +44(0)1865 610782 > > *Please note, I am only in the office on Thursdays and Fridays. > > http://www.2020science.net >

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[Compbio-allhands] Fwd: Of Interest?
by Andrej Sali 28 Aug '12

28 Aug '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: "Gregory A. Voth" <gavoth(a)uchicago.edu> > Subject: Of Interest? > Date: August 29, 2012 9:20:18 AM GMT+12:00 > To: "cgtheory(a)vothgroup.uchicago.edu" <cgtheory(a)vothgroup.uchicago.edu> > > > Dear Colleagues, > > The attached add is for a postdoc position at Genentech. Someone in your group may be interested in it so please pass it on. The email address to apply is on the add. The work is in part to be done in collaboration with my group (see attached). > > Best wishes, > Greg Voth > > __________________________________________________________________ > > Gregory A. Voth, Ph.D. > Haig P. Papazian Distinguished Service Professor > Department of Chemistry, The James Franck Institute, and > The Institute for Biophysical Dynamics > Senior Fellow, Computation Institute > Senior Scientist, Argonne National Laboratory > > Department of Chemistry > The University of Chicago > 5735 S. Ellis Avenue > Chicago, Illinois 60637 > Phone: 773-702-9092 > Fax: 773-795-9106 > Administrative Assistant: 773-702-9096 > Email: gavoth(a)uchicago.edu > Office: 231 Searle > Admin Office: 233 Searle > ___________________________________________________________________ > > > _______________________________________________ > Cgtheory mailing list > Cgtheory(a)vothgroup.uchicago.edu > http://vothgroup.uchicago.edu/cgi-bin/mailman/listinfo/cgtheory

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[Compbio-allhands] Fwd: Of Interest?
by Jacobson, Matt 28 Aug '12

28 Aug '12

Begin forwarded message: From: "Gregory A. Voth" <gavoth(a)uchicago.edu<mailto:gavoth@uchicago.edu>> Subject: Of Interest? Date: August 28, 2012 2:24:12 PM PDT To: "proteins(a)vothgroup.uchicago.edu<mailto:proteins@vothgroup.uchicago.edu>" <proteins(a)vothgroup.uchicago.edu<mailto:proteins@vothgroup.uchicago.edu>> Dear Colleagues, The attached add is for a postdoc position at Genentech. Someone in your group may be interested in it so please pass it on. The email address to apply is on the add. The work is in part to be done in collaboration with my group (see attached). My apologies for any duplicate email you may receive on this. Best wishes, Greg Voth __________________________________________________________________ Gregory A. Voth, Ph.D. Haig P. Papazian Distinguished Service Professor Department of Chemistry, The James Franck Institute, and The Institute for Biophysical Dynamics Senior Fellow, Computation Institute Senior Scientist, Argonne National Laboratory Department of Chemistry The University of Chicago 5735 S. Ellis Avenue Chicago, Illinois 60637 Phone: 773-702-9092 Fax: 773-795-9106 Administrative Assistant: 773-702-9096 Email: gavoth(a)uchicago.edu<mailto:gavoth@uchicago.edu> Office: 231 Searle Admin Office: 233 Searle ___________________________________________________________________ _______________________________________________ Proteins mailing list Proteins(a)vothgroup.uchicago.edu<mailto:Proteins@vothgroup.uchicago.edu> http://vothgroup.uchicago.edu/cgi-bin/mailman/listinfo/proteins 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] FW: Sr. Bioinformatics Scientist - SF - Position Details
by Schnoes, Alexandra 22 Aug '12

22 Aug '12

They are aggressively trying to staff 2 positions, looking for people who know RNA-seq and R. This is for a biotech based inside SF. Feel free to pass around. REQUIRED QUALIFICATIONS * Graduate-level degree (Ph.D. preferred) in a life science discipline (bioinformatics, biology, biochemistry, medicinal chemistry, bioengineering, etc.). Candidates with a degree in another natural science, computer science, information technology or a related discipline will also be considered but must have a track record of research experience in computational life science * Two years post-graduate work experience conducting computational biology research (academic, government, or industry)* Proven record of working with Next-Gen Sequence (NGS) analysis including RNA-seq, ChIP-seq, whole genome assembly. * Extensive experience with large genomic data sets, as exemplified by the following areas: microarray analysis, high-throughput sequence analysis, automated annotation, gene prediction, population genomics, quantitative genetics, comparative genomics * Experience working in a command line environment including compiling and configuring bioinformatics software * Experience with extracting, manipulating, and integrating data from public biological data repositories (e.g. NCBI, Ensembl, UCSC). * Proficient programming skills with at least one scripting language (Perl, R, Python, Ruby, etc) * Strong interest in science and technology and ability to rapidly adopt and adapt to leading edge technologies * Excellent oral presentation and communications skills * Advanced ability to work independently under established deadlines and as part of a team PREFERRED QUALIFICATIONS * Demonstrated success in publishing computational science results and in presenting data to senior management * Experience managing projects involving advanced computing and information technologies used in life science research in academia, government laboratories, and/or industry * Proven Appreciate you reaching out to you network!! Cheers, Amanda Amanda McDermott Consultant, Bioinformatics and Genomics Real Staffing Group One Sansome Street, San Francisco, CA 94101 ------------------------------------------------ T: 415-796-8050 E. a.mcdermott(a)realstaffing.com<mailto:a.mcdermott@realstaffing.com> Global Village: 232 7038 ------------------------------------------------ www.realstaffing.com<http://www.realstaffing.com> [Picture (Metafile)] Join my LinkedIn network<http://www.linkedin.com/in/amandamcdermottbioinformatics> [Picture (Metafile)]We want to provide you with the best service possible - click here<http://www.keysurvey.co.uk/f/444734/26ec/> to submit your feedback You can view our privacy statement at http://www.realstaffing.com/page/privacy_policy. If you do not wish to receive future electronic e-mails from us about our service please email: data-protection(a)realstaffing.com<mailto:data-protection@realstaffing.com> This electronic transmission is confidential and intended solely for the addressee(s). If you are not an intended addressee, you must not disclose, copy, distribute or take any action in reliance upon this transmission. If you have received this transmission in error, please notify Real Staffing Group, http://www.realstaffing.com/page/registration_details

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[Compbio-allhands] Juergen Haas Seminar -- ROOM CHANGE TODAY -- new room GH S204 -- 11AM TODAY, AUG. 10
by Hilary Mahon 10 Aug '12

10 Aug '12

--- Hilary Mahon Assistant to Dr. Sali University of California, San Francisco MC 2552 Byers Hall Room 503 1700 4th Street San Francisco, CA 94158-2330 Phone +1 (415) 514 4228 Fax +1 (415) 514 4231 Email hilary(a)salilab.org

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[Compbio-allhands] Fwd: Two postdoctoral positions available
by Andrej Sali 02 Aug '12

02 Aug '12

-- Andrej Sali, Ph.D. Professor, Department of Bioengineering and Therapeutic Sciences Department of Pharmaceutical Chemistry University of California at 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: Patrick Aloy <paloy(a)irbbarcelona.org> > Subject: Two postdoctoral positions available > Date: August 2, 2012 7:19:18 AM PDT > To: undisclosed-recipients:; > > Dear friends and colleagues, > > we have two open postdoctoral positions in the group, one computational and one experimental, and I should be grateful if you could advertise them in your institutes and forward the message to people that might be interested (job adverts attached). Despite everything you might read on the newspapers, Barcelona is still an attractive place for research ;-) > > Best, > > PTCK. > > -- > Patrick Aloy, ICREA Research Professor > Structural Bioinformatics & Network Biology > Institute for Research in Biomedicine - Barcelona Science Park > c/ Baldiri i Reixac 10-12, 08028 Barcelona, Spain > > Email: patrick.aloy(a)irbbarcelona.org http://sbnb.irbbarcelona.org > Tel : +34 93 4039690 Fax : +34 93 4039954 >

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