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

[Compbio-allhands] Fwd: Postdoc position in the SIBYLS group
by Andrej Sali 14 Mar '17

14 Mar '17

-- 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 94143, USA Tel +1 (415) 514-4227; Fax +1 (415) 514-4231 Administrative Assistant: Steve Ha, assistant(a)salilab.org, Tel +1 (415) 514-4228, 502-8084 Email sali(a)salilab.org; Web http://salilab.org > Begin forwarded message: > > From: Michal Hammel <mhammel(a)lbl.gov> > Subject: Postdoc position in the SIBYLS group > Date: March 14, 2017 at 5:04:26 PM MDT > To: Michal Hammel <mhammel(a)lbl.gov> > Cc: Jane Tanamachi <JTanamachi(a)lbl.gov> > > Dear Colleagues, > > I would like to draw your attention to a postdoc position in the SIBYLS group i at the Lawrence Berkeley National Laboratory in Berkeley. Please, spread this advertisement to students that could be interested in this position. > Thanks and best regards > > Michal Hammel > > > > __________________ > Michal Hammel PhD > Scientist at Advanced Light Source > Lawrence Berkeley National Laboratory > > 1 Cyclotron Road MS 6R2100 > Berkeley, CA 94720 > (phone) 510-495-8179 > (cell) 510-457-6317 > > mhammel(a)lbl.gov > ____________________ > >

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[Compbio-allhands] ICHS Seminar Series: Udi Manber, 4/19 @ 4pm
by Rizk-Jackson, Angela 13 Mar '17

13 Mar '17

We hope you will join us for the following talk in our ICHS Seminar Series (flyer attached): "Healthcare as an information business” Udi Manber, PhD Professor and Director of Digital Transformation, Department of Medicine, UCSF Technical Advisor, Institute for Computational Health Sciences, UCSF Former head of Google Search (2009-2014) Wednesday, April 19, 2017 @ 4pm Lecture: 4-5pm Reception: 5-6pm (refreshments will be served) Mission Bay Campus: 1550 4th St, Genentech Hall, Byers Auditorium (Simulcast in Toland Hall at Parnassus Campus) RSVPs Appreciated: click here<https://ucsf.co1.qualtrics.com/SE/?SID=SV_eVB5Fapad8DCcZf> Hosted by Robert Wachter, MD, Chair of the Department of Medicine Contact: Angela.Rizk-jackson(a)ucsf.edu<mailto:Angela.Rizk-jackson@ucsf.edu>

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[Compbio-allhands] Fwd: Atomwise Job Openings
by Brian Shoichet 09 Mar '17

09 Mar '17

---------- Forwarded message ---------- From: Michael Mysinger <michael(a)atomwise.com> Date: Thu, Mar 9, 2017 at 5:26 PM Subject: Atomwise Job Openings To: Brian Shoichet <shoichet(a)cgl.ucsf.edu>, John Irwin <jji(a)cgl.ucsf.edu>, Michael Keiser <keiser(a)keiserlab.org> Hello Brian, John, and Mike, Atomwise is hiring for 3 different positions, including a computational chemist, a data engineer, and an infrastructure engineer. The relevant link is: http://www.atomwise.com/careers/ It would be great if you can get the word out for those that may be interested. Cheers, Michael -- Michael Mysinger Principal Scientist Atomwise San Francisco, CA -- Brian Shoichet, Professor http://bkslab.org/ <http://www.uoft.bkslab.org/> 415-514-4126 University of California, San Francisco Dept. of Pharmaceutical Chemistry By Courtesy: University of Toronto, Faculty of Pharmacy Ontario Institute for Cancer Research

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[Compbio-allhands] Postdoctoral Position in Computer Aided Drug Design at the University of Notre Dame
by Matthew O'Meara 08 Mar '17

08 Mar '17

Dear all I talked with several of you during the study section last month about a position in the CAMD core I direct here at Notre Dame. I finally got around to putting up the position ad on the CCL (also copied below). If you have strong candidates, (either from your own group or someone else you know) please encourage them to apply. Thanks for your help Olaf =========== Postdoctoral Position in Computer Aided Drug Design at the University of Notre Dame The Warren Family Center for Drug Discovery and Development ( http://drugdiscovery.nd.edu) invites applications for a postdoctoral position in its Computer Aided Molecular Design (CAMD) core facility. Together with the director of the CAMD core, Prof. Olaf Wiest, the successful candidate will work closely with organic, medicinal, and biochemists as well as biologists from Notre Dame and other research institutions to develop models used in the design and development of bioactive compounds. Currently, a number of projects in the areas of cancer, infectious and neurodegenerative diseases as well as rare and neglected diseases are studied in close collaboration with experimentalists from different backgrounds , which allows the rapid testing of the models. After an initial period, this postdoctoral position could be converted into a staff-level position at the University of Notre Dame. Required qualifications - PhD in chemistry or a related field with relevant research experience - Documented experience with two or more of the tools of computer aided drug design such as protein modelling and structure prediction, docking/virtual screening, molecular dynamics simulations, free energy calculations, cheminformatics and databases, ADME/Tox and PD/PK predictions - Demonstrated problem solving abilities - Ability to effectively collaborate with researchers from a variety of backgrounds (organic and medicinal chemistry, chemical, molecular and cell biology, biochemistry), working on multiple projects simultaneously. - Excellent verbal and written communication and presentation skills Responsibilities - Independently conduct research with guidance from the director of the CAMD - Manage interactions with the customers of the CAMD core facility - Plan work load and provide cost estimates and timelines to CAMD customers - Publications in peer review journals, conference talks and posters - Participate in writing of proposals, patents, and publications of CAMD customers - Training and supervision of junior researchers - Acquisition of new projects To apply, please email curriculum vitae, publication list, reference letters (or names and contact information) of at least three individuals familiar with your work, and a statement of research experience to camd(a)nd.edu. Review of application will begin 3/20/2017 and will continue until the position is filled.

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[Compbio-allhands] Fwd: Hands-On Workshop on Computational Biophysics: April 17-21 in Urbana, IL
by Grabe, Michael 06 Mar '17

06 Mar '17

Dear biophysics/comp community. Please see the workshop details on MD simulations below. Best Michael ---------------------------------------------------------- Michael Grabe Associate Professor University of California, San Francisco Cardiovascular Research Institute Department of Pharmaceutical Chemistry 555 Mission Bay Blvd South, Room 452T, MC 3122 San Francisco, California 94143 415-502-2874 (office) 415-476-8173 (fax) Begin forwarded message: From: João Ribeiro KS <jribeiro(a)ks.uiuc.edu<mailto:jribeiro@ks.uiuc.edu>> Subject: Hands-On Workshop on Computational Biophysics: April 17-21 in Urbana, IL Date: March 6, 2017 at 2:49:16 PM PST To: <michael.grabe(a)ucsf.edu<mailto:michael.grabe@ucsf.edu>> Cc: Emad Tajkhorshid <emad(a)life.illinois.edu<mailto:emad@life.illinois.edu>> Dear Michael Grabe, I hope this email finds you well. Please forgive the late notice, but I would like to let you know that the NIH Center for Macromolecular Modeling & Bioinformatics is once again hosting the "Hands-on" Workshop on Computational Biophysics, this time in Urbana, Illinois. Announcement: http://www.ks.uiuc.edu/Training/Workshop/Urbana2017a/ Program: http://www.ks.uiuc.edu/Training/Workshop/Urbana2017a/program.html Instructors: http://www.ks.uiuc.edu/Training/Workshop/Urbana2017a/instructors.html Application Deadline: March 10th, 2017 Enrollment limited to 25 participants. Would you be kind and forward this email to your students and individuals you think that might be interested? Thank you Best wishes Joao Ribeiro Brief description: This workshop will be presented by members of the NIH Center for Macromolecular Modeling & Bioinformatics at Urbana-Champaign. Topics will cover instruction in state-of-the-art molecular dynamics simulation and free energy techniques using NAMD<https://www-s.ks.uiuc.edu/Research/namd/>, bacterial cells simulation with Lattice Microbes<http://www.scs.illinois.edu/schulten/lm/> (LM) and biomolecular visualization and analysis with VMD<https://www-s.ks.uiuc.edu/Research/vmd/>. Morning lecture presentations will introduce fundamental theory and concepts, while afternoon hands-on computer laboratory sessions will allow participants to apply NAMD, LM and VMD directly in a series of guided tutorials. The workshop is designed for all students and researchers in computational and/or biophysical fields who seek to extend their expertise to include biomolecular simulations. Experimentalists and non-specialists are encouraged to attend and will benefit particularly from instruction in the use of QwikMD<https://www-s.ks.uiuc.edu/Research/qwikmd/>, a new teaching software incorporating NAMD and VMD that significantly lowers the learning curve for novice users. -- ……………………………………………………... João Vieira Ribeiro Theoretical and Computational Biophysics Group Beckman Institute, University of Illinois jribeiro(a)ks.uiuc.edu<mailto:jribeiro@ks.uiuc.edu> +1 (217) 3000380

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[Compbio-allhands] 3/9/17 Seminar with Steve Elledge
by Flowers, Nicole 03 Mar '17

03 Mar '17

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 (Please note: A lack of attendance in S-161 within the first 10 minutes of the start time will result in a cancellation of the simulcast.) Steve Elledge Harvard Breaking Bad: How Aneuploidy Drives Cancer March 9, 2017 S. Bandyopadhyay, 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, & PSPG Graduate Program Assistant UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94143 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] Fwd: An exciting opportunity for highly talented graduate students and post-docs in your research group
by Brian Shoichet 01 Mar '17

01 Mar '17

FYI. ---------- Forwarded message ---------- From: Timothy A Grese <grese_timothy_a(a)lilly.com> Date: Fri, Feb 24, 2017 at 7:19 AM Subject: An exciting opportunity for highly talented graduate students and post-docs in your research group To: "bshoichet(a)gmail.com" <bshoichet(a)gmail.com> Dear Professor Shoichet, Greetings! I am writing to inform you about an exciting opportunity for highly talented graduate students and post-docs in your research group. You may be aware that Eli Lilly is expanding its research presence on the West Coast at the San Diego Biotechnology facility. As part of this expansion, we are establishing a Medicinal and Synthetic Chemistry group there. We are looking for select individuals to join this group and participate in our mission to provide innovative health care solutions to patients. We are reaching out to select chemistry faculty to help us identify exceptional candidates that meet this need. In addition to classical synthetic and medicinal chemistry approaches, our expanded research center in San Diego will (i) emphasize the application of automation to chemical design, synthesis and testing; (ii) take advantage of the proximity to our world-class structural biology capabilities; (iii) work at the interface of small and large molecule approaches; and (iv) explore unique and innovative methods to collaborate with West Coast research institutions. A job description for the position is included with this letter. We are currently targeting Ph.D. and Post-Doctoral students that will be ready to begin their independent career in 2018. As this is a new research group and the facilities are still being completed, some existing Lilly chemistry leadership and scientists that will work within this group have not yet relocated to San Diego. To facilitate the interview process and ensure that the right individuals are available to meet with candidates, we plan to conduct on-site interviews during a 1-2 week period in June/July of 2017. Therefore we are requesting your assistance to help identify qualified and interested candidates in advance of the normal 2017 recruiting season. Kevin Oberg and Jacqueline Wurst will be accepting CV’s and research summaries until April 17 at the email addresses below. Kevin Oberg, PhD koberg(a)lilly.com Jacqueline Wurst, PhD jwurst(a)lilly.com Where there are sufficient numbers of candidates at a single university or institution, we would like to conduct on-campus interviews in April/May. Alternatively, discussions with potential candidates can be done over the phone before any invitations are made to visit the Lilly San Diego site for in-person interviews. Thank you for your assistance in helping us to identify talented candidates for this exciting opportunity. If you have any questions regarding our new research group or the recruiting process, please feel free to contact me. _____________________________________________________________ *Timothy A. Grese, Ph.D.* Chief Scientific Officer, Discovery Chemistry Research and Technologies Eli Lilly and Company Lilly Corporate Center, Indianapolis IN 46285 U.S.A. 317.276.1356 <(317)%20276-1356> (office) | 317.985-6825 <(317)%20985-6825> (mobile) grese_timothy_a(a)lilly.com | www.lilly.com [image: LillyLogo_EmailSig2.jpg] CONFIDENTIALITY NOTICE: This email message (including all attachments) is for the sole use of the intended recipient(s) and may contain confidential information. Any unauthorized review, use, disclosure, copying or distribution is strictly prohibited. If you are not the intended recipient, please contact the sender by reply email and destroy all copies of the original message. -- Brian Shoichet, Professor, UCSF *http://www.bkslab.org/contact.php <http://www.bkslab.org/contact.php>* By Courtesy: UofT Fac. of Pharmacy

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[Compbio-allhands] RESCHEDULED: 3/8 ICHS Seminar Series with Jure Leskovec
by Rizk-Jackson, Angela 01 Mar '17

01 Mar '17

Hello All, Due to a conflict with the recently scheduled Biohub Investigator orientation meeting, Jure Leskovec will not be available to give his talk as part of the ICHS Seminar Series set for March 8 at 2pm. We are working with Jure to reschedule the seminar for sometime in mid-late May. Please remove this event from your calendar and look for a notification of the revised date/time in the coming days. Apologies for any inconvenience. Best, Angela Angela Rizk-Jackson, Ph.D. Director of Operations Institute for Computational Health Sciences University of California, San Francisco (415) 514-0537 Angela.Rizk-Jackson(a)ucsf.edu<mailto:Angela.Rizk-Jackson@ucsf.edu> <http://ichs.ucsf.edu/> <https://mail.ucsf.edu/owa/Angela.Rizk-jackson@ucsf.edu/ICHS.ucsf.edu> <applewebdata://B868DB3E-8FDA-4C59-B156-AEA5C76C0163/UrlBlockedError.aspx> ICHS.ucsf.edu<http://ichs.ucsf.edu/> <http://ichs.ucsf.edu/>

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[Compbio-allhands] 3/2/17 Seminar with Alexander Mankin
by Flowers, Nicole 24 Feb '17

24 Feb '17

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 (Please note: A lack of attendance in S-161 within the first 10 minutes of the start time will result in a cancellation of the simulcast.) Alexander Mankin University of Illinois at Chicago Stopping the stopping: how one inhibitor can interfere with termination of translation in two different ways March 2, 2017 D. Fujimori, 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, & PSPG Graduate Program Assistant UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94143 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] 2/23/17 Seminar with James Noonan
by Flowers, Nicole 17 Feb '17

17 Feb '17

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 (Please note: A lack of attendance in S-161 within the first 10 minutes of the start time will result in a cancellation of the simulcast.) James Noonan Yale Genetic models of human evolution February 23, 2017 N. Ahituv, 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, & PSPG Graduate Program Assistant UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94143 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] ICHS Seminar Series: Jure Leskovec, 3/8 @ 2pm
by Rizk-Jackson, Angela 16 Feb '17

16 Feb '17

We hope you will join us for the following talk in our ICHS Seminar Series (flyer attached): "Scaled computation & inferential methods in biomedicine: Machine learning for biomedical applications” Jure Leskovec, PhD Associate Professor of Computer Science, Stanford University Chief Scientist, Pinterest Wednesday, March 8, 2017 @ 2pm Lecture: 2-3pm Reception: 3-3:30pm (light refreshments will be served) Mission Bay Campus: 1550 4th St, Rock Hall Auditorium About the Speaker: Jure’s research focuses on mining and modeling large social and information networks, their evolution, and diffusion of information and influence over them; and at Pinterest he works on machine learning problems. Contact: Angela.Rizk-jackson(a)ucsf.edu<mailto:Angela.Rizk-jackson@ucsf.edu>

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[Compbio-allhands] Fwd: Recruitment of associate professor in chemoinformatics / bioinformactics
by Brian Shoichet 16 Feb '17

16 Feb '17

FYI ---------- Forwarded message ---------- From: Ruth Brenk <Ruth.Brenk(a)uib.no> Date: Thu, Feb 16, 2017 at 4:18 AM Subject: Recruitment of associate professor in chemoinformatics / bioinformactics To: Brian Shoichet <bshoichet(a)gmail.com> Hi Brian, the University of Bergen (Norway) is currently recruiting 5 associate professors in the are of chemoinformatics / bioinformatics ( https://www.jobbnorge.no/en/available-jobs/job/134177/assoc iate-professors-in-bioinformatics-up-to-five-positions). It would be great if you could spread to the news to suitable candidates. Regards Ruth -- Prof. Dr. Ruth Brenk University of Bergen Department of Biomedicine Ruth.Brenk(a)uib.no +47 55586070 Visitor adress: Mail address: Jonas Lies vei 91 Postboks 7804 5020 Bergen 5020 Bergen Norway Norway -- Brian Shoichet, Professor, UCSF *http://www.bkslab.org/contact.php <http://www.bkslab.org/contact.php>* By Courtesy: UofT Fac. of Pharmacy

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[Compbio-allhands] Fwd: An announcement from COMP Together
by magdalena K 14 Feb '17

14 Feb '17

COMP Together event will be held on Thursday, please see announcement > Begin forwarded message: > > From: comp_together(a)acscomp.org > Subject: An announcement from COMP Together > Date: January 18, 2017 at 11:24:34 PM PST > To: Magdalena Korczynska <xtal.ca(a)gmail.com> > Reply-To: BinQing Wei <wei.binqing(a)gmail.com> > > The COMP Together champions in your area would like to announce the following event: > > Speaker: JW Feng (Denali), Alberto Gobbi & Ben Sellers (Genentech), Mario Cardozo (Nurix) > Title: SF Bay Area COMP Together Mini-Talk Series > Date: 2017-02-16 > Time: 6:00 PM > Event ID: 36 > Sponsor: NIBR > > Location > UCSF Mission Bay > 1700 4th St. BH212 > > San Francisco CA 94158 > > Description and Notes > Description: > Software expenditure and headcount for computational chemistry are often closely scrutinized at pharma and biotech companies. Some of us are working at smaller biotech or startups where the limitations tend to be even more severe. This meeting aims to promote sharing of strategies & tools to help address those challenges, including leveraging open-source software and cloud computing. > > Schedule: > > 6-7pm, check-in & networking (pizza and drinks provided) > > 7-7:20pm, talk #1, JW Feng (Denali) > Title: Computational chemistry challenges and opportunities at a biotech startup > > 7:20-8pm, talk #2, Ben Sellers & Alberto Gobbi (Genentech) > Title: Chemalot and chemalot_knime versatile open source tools for many of your cheminformatics and computational chemistry tasks. > > 8-8:20pm, discussion moderated by Mario Cardozo (Nurix) > > Notes: > Non-UCSF affiliated participants please enter through the main entrance of Genentech Hall (600 16th St., San Francisco, CA 94158) and sign in at the security desk. > > Public parking is available at the UCSF Mission Bay surface lots. For more information, please visit: http://campuslifeservices.ucsf.edu/transportation/services/parking/public_p… > > On-street parking is also available on 4th street and 16th street. > > > > > If you would like to attend this COMP Together event, please visit the COMP website and register using the > http://app.acscomp.org/COMP_Together/meeting_signup.php?event_id=36. > > If you have any questions about this event, please contact BinQing Wei atwei.binqing(a)gmail.com. > > If you would like to update your COMP Together registration or unsubscribe, please visit http://app.acscomp.org/COMP_Together/reg_update/update_login.php

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[Compbio-allhands] Fwd: Mobley lab hiring postdoc
by Andrej Sali 14 Feb '17

14 Feb '17

> Begin forwarded message: > > From: David Mobley <dmobley(a)uci.edu> > Subject: Mobley lab hiring postdoc > Date: February 14, 2017 at 6:32:18 AM PST > To: David Mobley <dmobley(a)mobleylab.org> > > Dear Colleagues, > > I'm currently hiring a postdoc working on free energy calculations and applications to problems relating to pharmaceutical drug discovery. I'm ideally looking for someone with significant software development experience and expertise in MD and/or MC. > > Please pass along this brief advertisement to anyone suitable you might be aware of: http://mobleylab.org/2017/02/14/postdoc-position-currently-available/ <http://mobleylab.org/2017/02/14/postdoc-position-currently-available/> > > The position is available as early as March 1, and applications should be received by Feb. 21. > > Thanks so much, > David Mobley > > -- > David Mobley > Associate Professor > Department of Pharmaceutical Sciences > Department of Chemistry > 3134B Natural Sciences I > University of California, Irvine > Irvine, CA 92697 > dmobley(a)uci.edu <mailto:dmobley@uci.edu> > work (949) 824-6383 > cell (949) 385-2436 >

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[Compbio-allhands] SAVE THE DATE- PETER KOLLMAN LECTURESHIP- APRIL 13, 2017
by Flowers, Nicole 13 Feb '17

13 Feb '17

SAVE THE DATE- THURSDAY, April 13, 2017 AT 3:00 PM Ron Dror Stanford PETER A. KOLLMAN LECTURESHIP GENENTECH HALL BYERS AUDITORIUM - UCSF MISSION BAY CAMPUS LIVE WEBCAST— URL TBA Reception in Byers Hall 2rd Floor Lounge at 4:30 pm. Nicole Takesono Flowers BMI, BP, CCB, & PSPG Graduate Program Assistant UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94143 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] 2/16/17 Seminar with Jeff Kelly
by Flowers, Nicole 10 Feb '17

10 Feb '17

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 (Please note: A lack of attendance in S-161 within the first 10 minutes of the start time will result in a cancellation of the simulcast.) Jeff Kelly Scripps Adapting Proteostasis to Ameliorate Degenerative Diseases Linked to Protein Aggregation February 16, 2017 M. Kampmann, 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, & PSPG Graduate Program Assistant UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94143 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] Claus Seidel seminar, Feb 8
by Andrej Sali 08 Feb '17

08 Feb '17

“Quantitative FRET studies and integrative modeling unravel the structure and dynamics of biomolecular systems in vitro and in live cells” 11am, Feb 8, BH 212 -- 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 94143, USA Tel +1 (415) 514-4227; Fax +1 (415) 514-4231 Administrative Assistant: Steve Ha, assistant(a)salilab.org, Tel +1 (415) 514-4228, 502-8084 Email sali(a)salilab.org; Web http://salilab.org

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[Compbio-allhands] Fwd: Vacancy Bioinformatics professor Radboudumc Nijmegen
by Andrej Sali 06 Feb '17

06 Feb '17

> Begin forwarded message: > > From: <Han.Brunner(a)radboudumc.nl> > Subject: Vacancy Bioinformatics professor Radboudumc Nijmegen > Date: February 6, 2017 at 2:32:52 AM PST > To: Undisclosed recipients:; > > Dear colleague, > > This is to ask whether you might have ideas about a position that we would like to fill here at Radboudumc Nijmegen. > > We are looking for a professor and head of bioinformatics. We have some very good bioinformaticians already, focusing on specific areas such as human genetics, molecular biology, and immunology. We are now looking for a full professor to lead the central bioinformatics core. Ideally, we would hope to find someone who has active research going and who would also be interested in the broader development of information science and method development to make biomedical sciences more informative! > > Let me know if you have any ideas for a candidate who might be interested in moving to the Netherlands. > > Best wishes > > Han Brunner > > > > Monday-Wednesday, and alternating Fridays > Radboud UMC > Department of Human Genetics 855 > Donders Institute for Brain, Cognition and Behaviour > PO Box 9101 > 6500HB Nijmegen > The Netherlands > Tel: +31-243614017 > Han.Brunner(a)RadboudUMC.nl <mailto:Han.Brunner@RadboudUMC.nl> > > Thursdays and alternating Fridays > Maastricht University Medical Center > Department of Clinical Genetics > PO Box 5800 > 6202AZ Maastricht > The Netherlands > Tel: +31-433871349 > Han.Brunner(a)MUMC.NL <mailto:Han.Brunner@MUMC.NL> > > > > > Het Radboudumc staat geregistreerd bij de Kamer van Koophandel in het handelsregister onder nummer 41055629. > The Radboud university medical center is listed in the Commercial Register of the Chamber of Commerce under file number 41055629. >

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[Compbio-allhands] Fwd: Claus Seidel Seminar
by Andrej Sali 03 Feb '17

03 Feb '17

> Begin forwarded message: > > From: "Ha, Steve" <Steve.ha(a)ucsf.edu> > Subject: Claus Seidel Seminar > Date: February 2, 2017 at 2:21:51 PM PST > To: "SaliLab Mail (salilab(a)salilab.org)" <salilab(a)salilab.org> > > Hi everyone, > > Dr. Seidel is having a seminar next Wednesday Feb 8th. 11am - Byers Hall 212. > > Steve

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[Compbio-allhands] 2/9/17 Seminar with Dorothea Fiedler
by Flowers, Nicole 03 Feb '17

03 Feb '17

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 (Please note: A lack of attendance in S-161 within the first 10 minutes of the start time will result in a cancellation of the simulcast.) Dorothea Fiedler University of Berlin Elucidating the role of inositol pyrophosphates in cellular signaling February 9, 2017 D. Fujimori, 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, & PSPG Graduate Program Assistant UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94143 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] Fwd: Summer Internship openings at Genentech in the computational chemistry group
by Brian Shoichet 31 Jan '17

31 Jan '17

FYI. ---------- Forwarded message ---------- From: Daniel Ortwine <ortwine.daniel(a)gene.com> Date: Tue, Jan 31, 2017 at 12:05 PM Subject: Summer Internship openings at Genentech in the computational chemistry group To: Brian Shoichet <shoichet(a)cgl.ucsf.edu> Hello Brian! I am contacting you to ask if you know of any candidate that might be suitable for internship positions that we have open for this coming summer in the computational chemistry group at Genentech. Short descriptions of each position and the position requirements can be found below. These internships can start at different times during the summer. We are recruiting for these positions now! It would be great if you could suggest candidates that fit the profiles and/or circulate the job descriptions among your students. Any student that would like to apply for a position should send a cover letter and their CV to Genentech via the the link provided below: https://www.gene.com/careers/detail/00450980/Intern-Discovery-Chemistry- Computational-Chemistry Here is some information on the logistics of the internship: - Internships are scheduled for the duration of 12 weeks - There will be 3-4 intern start dates in June 2017. - Interns are paid an hourly rate based on their degree level. - Recent (within 2 years) graduates of BS/BA or MS/MA programs are eligible. They are paid based on their most recent degree completed. - Travel assistance is given to all intern candidates - Interns are eligible to use the Genentech bus system at no cost, which connects the Genentech campus to several locations in the San Francisco bay area for morning and evening commutes. - All interns must clear a background check. - Interns do not receive medical/dental benefits and do not accrue vacation - We do not currently offer formal housing assistance for interns. However, we do provide networking assistance so interns can contact each other to make living arrangements. I am also happy to answer any questions you or any candidates might have. With best regards, Dan Project 1: The intern will work with Alberto Gobbi to implement and evaluate a method for computing strain energies of drug molecules in their bound conformation. The strain energy is a component of the binding energy and significantly contributes to the strength of a small molecule protein interaction. A drug that binds its protein target without increasing its strain energy may be given at a lower dose, thereby reducing the risk of toxicity. Part of the work includes evaluating open source and commercial software for computing molecular energies at a quantum mechanical level. The other part will be the development of an automated workflow to perform the calculation on an in-house computer cluster at Genentech. The candidate will learn about small molecule energetics, binding conformations, and ligand protein interactions. This work may also lead to a publication of a manuscript and or open source software. Candidates must be full-time undergraduate or graduate students, with a working knowledge of chemistry, familiarity with the Unix operating system and programming experience (preferably in Java or Python). A familiarity with computational chemistry software is a plus. Project 2: The intern will work with Paul Gibbons to improve our ability to use existing software to aid the design of small organic molecules. The work will include evaluating virtual libraries, improving them, evaluating current workflows for virtual molecule modification and proposing/ implementing improved workflows. The intern should have knowledge of basic UNIX commands and some scripting. In addition, the candidate must be a full-time undergraduate or graduate student who has completed a full year of undergraduate organic chemistry. Formal coursework in computer science would be advantageous but is not essential. -- Daniel Ortwine Computational Drug Discovery Genentech, Inc. 1 DNA Way, ms 18b South San Francisco, CA 94080 Office 650-225-2749 <(650)%20225-2749> Cell 925-323-0504 <(925)%20323-0504> email ortwine.daniel(a)gene.com -- Brian Shoichet, Professor http://bkslab.org/ <http://www.uoft.bkslab.org/> 415-514-4126 University of California, San Francisco Dept. of Pharmaceutical Chemistry By Courtesy: University of Toronto, Faculty of Pharmacy Ontario Institute for Cancer Research

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[Compbio-allhands] 2/2/17 Seminar with Eric Alm
by Flowers, Nicole 27 Jan '17

27 Jan '17

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 (Please note: A lack of attendance in S-161 within the first 10 minutes of the start time will result in a cancellation of the simulcast.) Eric Alm MIT The ecology of the human microbiome in health and disease February 2, 2017 L. Morinishi, 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, & PSPG Graduate Program Assistant UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94143 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] Fwd: Open position for a Postdoc in 3DGenomics in Barcelona (CNAG-CRG)
by Andrej Sali 25 Jan '17

25 Jan '17

Sent from my iPhone Begin forwarded message: > From: Marc Marti Renom <martirenom(a)cnag.crg.eu> > Date: January 25, 2017 at 9:33:59 AM GMT > To: Marc Marti Renom <martirenom(a)cnag.crg.eu> > Subject: Open position for a Postdoc in 3DGenomics in Barcelona (CNAG-CRG) > > Dear colleagues and friends, > > Could you please forward this email to anybody in your research institutions who could be interested in a computational biology postdoc in 3DGenomics? > > Detailed information can be found in the attached PDF or in this link: https://recruitment.crg.eu/content/jobs/position/postdoctoral-position-stru… > > Many thanks in advance! > Marc > ... > OPEN PostDoc POSITION IN THE LAB! https://recruitment.crg.eu/content/jobs/position/postdoctoral-position-stru… > > Marc A. Marti-Renom, ICREA Research Professor > Structural Genomics Group Leader > Centre Nacional d’Anàlisi Genòmica - Centre de Regulació Genòmica (CNAG-CRG) > Parc Científic de Barcelona – Torre I (10th floor) > Baldiri Reixac, 4, 08028 Barcelona > Tel +34 9340 33743 > Email: martirenom(a)cnag.crg.eu > Web: http://marciuslab.org · http://cnag.crg.eu · http://crg.cat > > CRG PhD positions available at “la Caixa” INPhINIT Doctoral fellowships programme http://www.inphinitlacaixa.org > Application deadline: February 2, 2017 > “This project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Sklowdowska- Curie grant agreement No. 713673” > > *** Consider the environment. Print responsibly. *** > > > > > > >

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[Compbio-allhands] 1/26/17 Seminar with Gerhard Wagner
by Flowers, Nicole 20 Jan '17

20 Jan '17

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 (Please note: A lack of attendance in S-161 within the first 10 minutes of the start time will result in a cancellation of the simulcast.) Gerhard Wagner Harvard Engineering nanodiscs for membrane protein studies January 26, 2017 D. Asarnow, 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, & PSPG Graduate Program Assistant UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94143 Phone: (415) 502-6518 Fax: (415) 514-1546

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[Compbio-allhands] 1/19/17 Seminar with Joachim Frank
by Flowers, Nicole 13 Jan '17

13 Jan '17

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 (Please note: A lack of attendance in S-161 within the first 10 minutes of the start time will result in a cancellation of the simulcast.) Joachim Frank Columbia Time-resolved cryo-EM: first biological results with the mixing/spraying microfluidic chip January 19, 2017 R. Woldeyes, 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, & PSPG Graduate Program Assistant UCSF MC 2280 600 16th St. Genentech Hall Room 522 San Francisco, CA 94143 Phone: (415) 502-6518 Fax: (415) 514-1546

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