Single Cell Technology and Analysis Symposium

Actions Panel

Single Cell Technology and Analysis Symposium

By UCSF Bakar Computational Health Sciences Institute & Gladstone Institutes

When and where

Date and time

Tuesday, May 14, 2019 · 9am - 6pm PDT


Mahley Auditorium, Gladstone Institutes Genentech Hall, N-114 (Training Session) San Francisco, CA 94158


During this one-day symposium, we will cover techniques, platforms and methods that are used in analyzing single cell data. The symposium has two sessions: a series of seminars in the morning and hands-on workshops in the afternoon. The morning session will start with the introduction of single cell platforms, followed by talks focusing on applications of various technologies to diverse research areas. In the afternoon, we will have three consecutive hands-on sessions with increasing difficulties, ranging from how to use Cell Ranger and Seurat to advanced analyses beyond these common tools.

Symposium Agenda

Light Breakfast 8:30 - 9am

Morning lecture session 9am - 12:30pm
(Mahley Auditorium, Gladstone Institutes, 1650 Owens St.)

  • Introduction to single cell sequencing technologies - Eric Chow, PhD. (9-9:45 am)
  • Leveraging machine learning & AI in the analysis and interpretation of Tapestri single-cell DNA data - Manimozhi Manivannan, PhD. (9:45-10:15 am)
  • Break (15mins)
  • Dissecting the heterogeneity of pluripotent stem cell multicellular systems with single cell RNA-seq - Todd McDevitt, PhD. (10:30-11:00)
  • Revealing the full complexity of biology at single cell scale - Chris Rutherford, PhD (11:00-11:30)
  • Break (15min)
  • Multiplexed single cell RNA-sequencing -Jimmie Ye, PhD. (11:45-12:30)

Lunch Break 12:30 - 2pm

Afternoon Hands-on Sessions 2 - 6pm
(Genentech Hall, Room N114, 600 16th St)
Laptop and familiarity with R required

Session 1: 10x Genomics initial data analysis - Cell Ranger overview and Loupe Cell Browser visualization - Rea Dabelic, PhD
Break (5min)
Session 2: Introduction to single cell RNA-seq analysis with Seurat - David Joy
Break (5 min)
Session 3: Analysis beyond Seurat

  • Normalization and differential expression - Reuben Thomas
  • Network visualization and analysis of single cell datasets in Cytoscape - Alex Pico and Scooter Morris
  • Fast and scalable cell type atlas search with the CellFishing package - Dan Fulop

About the organizer

The emerging field of precision medicine demands a new approach to research that harnesses the power of data science. This requires biomedical researchers and practicing clinicians with skills in quantitative and computer sciences as well as modern computing and data infrastructure to support relevant research activities and implement findings in clinical practice. The UCSF Bakar Computational Health Sciences Institute is working to build a foundation of faculty and knowledge assets in computational health sciences and bring together a community of thinkers interested in this emerging field. Our initiatives are focused on enhancing education and infrastructure as well as building community with the goal of advancing computational health sciences in research, practice, and education—in support of precision medicine for all.


Based in San Francisco’s Mission Bay neighborhood, the Gladstone Institutes is an independent state-of-the-art biomedical research institution that empowers its world-class scientists to find new pathways to cures.

At Gladstone, over 350 scientists and trainees use visionary science and technology in cardiovascular biology, immunology, neuroscience, and stem cell biology to overcome unsolved diseases. They are supported by cutting edge core facilities and essential administrative partners.