March 2022 - compbio-allhands@cgl.ucsf.edu

[Compbio-allhands] Check Out the Spring Line Up for the Gladstone Data Science Training Program
by Zainab Yusufsada 28 Mar '22

28 Mar '22

The Gladstone Data Science Training Program <https://gladstone.org/events?series=data-science-training-program> provides you with learning opportunities and hands-on workshops to improve your skills in bioinformatics and computational analysis. Join one of these upcoming workshops to gain new skills and get support with your data. Spring 2022 Series All workshops are virtual! Single Cell RNA-Seq Analysis April 15-19, 2022 Register <https://gladstone.org/events/single-cell-rna-seq-analysis-2> Statistics of Enrichment Analysis April 22, 2022 Register <https://gladstone.org/events/statistics-enrichment-analysis-0> Introductory Machine Learning for Biologists May 3, 2022 Register <https://gladstone.org/events/introductory-machine-learning-biologists-2> Advanced Cytoscape Automation May 10, 2022 Register <https://gladstone.org/events/advanced-cytoscape-automation-0> Cordially, *Zainab Yusuf Sada* | Administrative Specialist Gladstone Institute of Data Science & Biotechnology 1700 Owens Street, San Francisco, CA 94518 T 415.734.4827|zainab.yusufsada(a)gladstone.ucsf.edu

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[Compbio-allhands] Fwd: Opportunities at Schrödinger - Protein Structure Prediction/Optimization Scientist (Dynamics Simulations/Enhanced Sampling)
by Brian Shoichet 24 Mar '22

24 Mar '22

FYI ---------- Forwarded message --------- From: Annabel Cook <annabel.cook(a)schrodinger.com> Date: Wed, Mar 23, 2022 at 10:09 AM Subject: Opportunities at Schrödinger - Protein Structure Prediction/Optimization Scientist (Dynamics Simulations/Enhanced Sampling) To: <bshoichet(a)gmail.com> Dear Prof Shoichet, My name is Annabel Cook and I work in the Strategic Growth team at Schrödinger, Inc. Following our recent acquisition of XTAL BioStructures in Natick, MA, we are significantly expanding our structural biology capabilities, and are seeking scientists with expertise in structural biology, and protein structure prediction, optimization, and refinement. One of several roles we are looking to fill is a Protein Structure Prediction/Optimization Scientist (Dynamics Simulations/Enhanced Sampling) position, and I thought you may have some current or former group members who would be interested in hearing about the role. If so, please feel free to forward my contact information. I have included the specifics of the role below and applicants may apply directly here <https://grnh.se/a34dade13us>. Thank you in advance for your help. Do not hesitate to contact me if you have any questions! Kind regards, Annabel Protein Structure Prediction/Optimization Scientist (Dynamics Simulations/Enhanced Sampling) We’re seeking a Protein Structure Prediction/Optimization Scientist to join us in our mission to improve human health and quality of life through the development, distribution, and application of advanced computational methods! As a member of our Desmond (Molecular Dynamics) team, you’ll facilitate the refinement and optimization of predicted structures (homology models or AlphaFold V2) and validate these models in predictive free energy calculations for lead optimization. By advancing our methodology and immediately applying it to both our and our customers’ drug-discovery platforms, you’ll help tackle diseases that have been recalcitrant to structure-based drug design in the past. Schrödinger’s recent acquisition of XTAL BioStructures puts us in a unique position to advance the state of the art in protein structure prediction and refinement with experimental validation and support. We have other openings in this area that require slightly different skill sets. Please see our posts for Protein Structure Prediction/Optimization Scientist (Machine Learning) <https://grnh.se/e759b1a83us> and Protein Structure Prediction/Optimization Scientist (Core Homology) <https://grnh.se/aa293f6b3us>. Who will love this job: - A computational chemist with experience in biomolecular simulation, enhanced sampling, and free energy calculations - A passionate scientist who loves to push the boundaries of existing technology and creatively comes up with new ideas to address important problems - A methods developer who can implement a prototype using modern coding practices What you’ll do: - Identify problems in predicted structures from homology models or AlphaFold and develop strategies for refinement - Collaborate with scientists in other teams, including Machine Learning and Prime (Protein Structure Prediction), to exploit new developments and iteratively refine our strategy to improve the quality of predicted structures - Work with our drug discovery group to deploy new technologies in active projects and realize real-world impact What you should have: - PhD in computational chemistry, biochemistry, biophysics, or a related field, with a robust track record of publications in biomolecular simulations or enhanced sampling techniques - Proficiency in building complex workflows with Python - Experience with pharmaceutically relevant proteins, such as kinases, GPCRs, proteases, transferases, and/or ion channels is a plus Pay and perks: Schrödinger understands it’s people that make a company great. Because of this, we’re prepared to offer a competitive salary, stock options, and a wide range of benefits that include healthcare (with dental and vision), a 401k, pre-tax commuter benefits, a flexible work schedule, and a parental leave program. We have catered meals in the office every day, a company culture that is relaxed but engaged, and over a month of paid vacation time. Our Administrative and Human Resources departments also plan a myriad of fun company-wide events. New York is home to our largest office, but we have teams all over the world. Schrödinger is honored to have been selected as one of Crain's New York Best Places to Work for the past three years running. -- *Annabel Cook, PhD* | Principal Associate, Strategic Growth [image: Schrödinger, Inc.] <https://schrodinger.com> Schrödinger is hiring! Check out our careers page <https://www.schrodinger.com/careers> Our transparency document according to article 13 and 14 GDPR is available here <https://schrodinger.com/transparencydocinc>. -- Brian Shoichet, Professor, UCSF latest science from the lab: *https://bkslab.org/ <https://bkslab.org/>*

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[Compbio-allhands] 3/31/22 BBC Seminar with Joanna Wysocka
by Flowers, Nicole 24 Mar '22

24 Mar '22

BBC Seminar Series Bioinformatics Biophysics Chemistry & Chemical Biology Complex Biological Systems Thursdays, Noon Genentech Hall Auditorium Livestream: http://tiny.ucsf.edu/Y5D1RO Co-sponsored by the [cid:705c2812-9d04-4873-93a4-a6d52e62f537] Joanna Wysocka, PhD Stanford University Transcriptional regulation and emergence of form and function during development and evolution Marh 31, 2022 L. Weinberger, 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 Gladstone Center for Cell Circuitry. Subscribe to the BBC Seminar Series Calendar! Use this URL to access this calendar from a web browser.<https://urldefense.com/v3/__https://calendar.google.com/calendar/embed?src=… > Use this address to access this calendar from other applications.<https://urldefense.com/v3/__https://calendar.google.com/calendar/u/1?cid=cz… > Use this URL to view and open the calendar in iCal and/or Outlook.<https://urldefense.proofpoint.com/v2/url?u=https-3A__ucsf.us20.list-2Dmanag…> To view recorded lectures, click here: https://lecture.ucsf.edu/ets/Channel/0671978c87c64a7db9251cff75b922505f

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[Compbio-allhands] Spring 2022 BBC Seminar Schedule
by Flowers, Nicole 18 Mar '22

18 Mar '22

Attached, please find the schedule of speakers for BBC Seminar Series spring quarter. Thank you! Nicole Nicole Takesono Flowers Biophysics Graduate Program Manager UCSF MC 2240 600 16th St. Genentech Hall Room N474D San Francisco, CA 94158-2517 Phone: (415) 502-6518

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[Compbio-allhands] Canceled: 3/17/22 BBC Seminar with Squire Booker, PhD, Noon
by Flowers, Nicole 14 Mar '22

14 Mar '22

Unfortunately, Dr. Booker has a family emergency and will not be able to deliver his lecture. This seminar has been cancelled.

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[Compbio-allhands] Fwd: data science job posting at Novartis Emeryville
by Andrej Sali 10 Mar '22

10 Mar '22

Sent from my iPhone Begin forwarded message: > From: Dave Barkan <davebarkan(a)gmail.com> > Date: March 10, 2022 at 10:42:27 AM PST > To: Andrej Sali <sali(a)salilab.org> > Subject: data science job posting at Novartis Emeryville > > > Hi Andrej, > > Hope everything is going well. We have a new Structural Bioinformatician position opening in our Data Science group in Emeryville and I was wondering if you could circulate this link across relevant labs and graduate programs. This is a great opportunity for new PhDs and post-docs to get into the biotech industry while still working in an environment that emphasizes scientific curiosity. > > https://www.novartis.us/careers/career-search/job-details/339342BR > > Thanks, > Dave Barkan

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compbio-allhands March 2022