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Sanford Consortium for Regenerative Medicine

Roth Auditorium

2880 Torrey Pines Scenic Dr

La Jolla, CA 92037

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Event description

Description

Organized by Olivier Harismendy and Kristen Jepsen.

Sponsored by Agilent, FluOMICS, Illumina and Synthego.

Pooled CRISPR based screens have become an important tool for functional genomics. Multiple laboratories in La Jolla are initiating screens and developing standard operating procedures for screen design, execution, and analysis. The goal of the workshop is to provide attendees with the tools and knowledge to design, execute and analyze screens leading to reliable, reproducible and sensitive results.

Learning Goals

  • Design, execute and analyze a pooled CRISPR-based screen
  • Understand the limitations of CRISPR-based screens
  • Troubleshoot experimental steps
  • Control the quality of the reagents, libraries and resulting datasets
  • Identify significantly altered genes and pathways
  • Locate literature and online resources
  • Establish a network of users interested in CRISPR-screens and applications

Please note that the workshop will include a hands-on analysis session, which will require attendees to bring their own laptops, with R-Studio installed.

Tentative Schedule

  • 12:30 pm – Registration
  • 1:00 pm – Welcome and introduction (Harismendy, Jepsen)
  • 1:10 pm – Library amplification and viral preparation (Bojorquez)
  • 1:25 pm – Popular designs of CRISPR pooled experiments (Shen)
  • 1:45 pm – Library Preparation and Quality Control (Van Nostrand, Jepsen)
  • 2:30 pm – Break
  • 3:00 pm – Screen Analysis with PinAPL-Py (Spahn)
  • 4:20 pm – Use Case #1: CRISPR-Cas9 Dissection of Heparan Sulfate (Ryan Weiss, PhD)
  • 4:40 pm – Use Case #2 : Identification of pancreatic cancer stem cell dependencies using a genome-wide CRISPR screen (Nikki Lytle, PhD)
  • 5:00 pm – Social happy hour and sponsors presentations

Instructors

  • Ana Bojorquez – Research Associate – Trey Ideker’s Laboratory
  • John Paul Shen – Postdoctoral Fellow – Trey Ideker’s Laboratory
  • Olivier Harismendy – Assistant Professor – UC San Diego Moores Cancer Center
  • Philipp Spahn – Postdoctoral Fellow – Nathan Lewis’ Laboratory
  • Eric Van Nostrand – Postdoctoral Fellow – Gene Yeo’s Laboratory
  • Kristen Jepsen – Director – IGM Genomics Core


No Show Policy

While we do not charge a fee to attend this event, these programs would not be sustainable and available to all wanting to attend, unless all registrants abide by the 48 hour cancellation notice policy. A no-show will also limit your ability to book our events in the future. Thank you in advance for your cooperation.

Directions

Free parking at the Sanford Consortium’s east lot will be provided on a first-come, first-serve basis. Hourly parking is also available for purchase at the ticket booth. There is also additional parking near the Torrey Pines Gliderport, which is within walking distance. The UCSD Shuttle Route has two drop off locations within walking distance to the Sanford Consortium.

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Date and Time

Location

Sanford Consortium for Regenerative Medicine

Roth Auditorium

2880 Torrey Pines Scenic Dr

La Jolla, CA 92037

View Map

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