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Systems Biology of Infectious Diseases Workshop

February 24-26, 2020

Scripps Research

La Jolla, CA

We are pleased to announce the second annual Systems Biology of Infectious Diseases workshop hosted by the Center for Viral Systems Biology (CViSB) at the Scripps Research Institute.

The two-and-a-half day workshop will emphasize computational systems biology approaches to improved understanding of host response to viral infection, across a spectrum of methods and applications.  Among topics discussed in the presentations will be included: evolution of virus and host immune response, antibody repertoire, antibody-mediated immune functions, immune cell receptor recognition, immune cell communication and signaling, design of clinical treatments, and patient population analysis.  Approaches described will range from structural and quantitative biochemistry/biophysics models to machine learning algorithms to dynamical systems simulations.

This workshop, directed towards grad students, postdocs and ‘junior’ investigators, will be hands-on and limited in size. Programming/bioinformatics experience is recommended (but not required).

How to Apply:

Please submit an online application to attend the workshop. The deadline for registration is February 3rd.

Apply Online

Workshop Presenters

Course Directors


If you are interested in attending the workshop, please submit the online application indicating your interest, background, programming experience and cv. No payment is required for the application – only if you are successful in applying for the workshop will payment be required.

There will be two registration periods: 

Early Registration – January 3rd

Early registration begins December 12th and closes January 3rd. Applicants will be notified no later than January 7th of the status of their application.

Late Registration- February 3rd

Late registration begins January 4th and closes February 3rd. Applicants will be notified no later than February 6th of the status of their application.


A link to register for the workshop will be provided to successful applicants.

A $300 registration fee will be due with registration.

The registration fee includes:

  • Breakfast, tea/coffee, and lunches will be provided for the duration of the course
  • Use of the course training room
  • Course materials provided

Travel Bursaries

Travel and accommodations are at the participant’s expense however a limited number of travel bursaries are available. Please indicate if you would like to be considered for a travel bursary in your application.


Early: Jan. 3, 2020
Late:  Feb. 3, 2020


Early: Jan. 7, 2020
Late: Feb. 6, 2020


Total Participants

Apply Online

Workshop Resources

Links to all workshop materials can be found at:

Session 1: Machine Learning for Systems Serology Data

  1. file: including Platform installation (R, Rstudio, packages)
  2. Dataset: data to demonstrate the workflow will be taken from 2019 Lu et al., Nature Medicine

Chose either:

Session 2a: B Cell Repertoire Sequencing

  1. Coming Soon!

Session 2b: Identification and Charaterization T cell Subsets from Single Cell Data

  1. Instructions for installation of required Python and R packages.
  2. Data to demonstrate the workflow will be taken from Zanini et al. PNAS 2018

Resources for Beginners

If you haven’t used R before or have  limited experience, please review the resources below:

Scripps Research Conference Center 
3300 N. Torrey Pines Ct.
La Jolla, CA 92037

Driving Directions

From I-5 Freeway:

  • Take exit 29 onto Genesee Ave
  • Turn West onto Genesee Ave towards Torrey Pines State Reserve
  • Make a U-turn at Scripps Clinic S. Driveway
  • Turn right onto N. Torrey Pines Ct
  • At the roundabout, you will see a sign for the Scripps Conference Center & Cafe, turn into 1st parking lot on the right

*Please let us know in advance if you’ll need parking at the workshop.*

Nearby Hotels

The Best Western Premier Hotel Del Mar is our host hotel for workshop participants, located just 3 miles from our meeting location. The Best Western Premier Hotel Del Mar offers a complimentary shuttle to/from TSRI, Monday-Friday, complimentary parking , and complimentary WiFi. Workshop rates start at $120/night, plus tax.

To reserve your room, please call the hotel directly at 858-755-9765 and reference the TSRI-CVISB workshop or use the following URL to reserve rooms:

The Grande Colonial is located in heart of La Jolla Village surrounded by fine dining shops and the ocean. Nightly rates start at $221, plus tax, using promo code B910 (under advanced search).

The Hilton Torrey Pines is one of the most convenient hotels within walking distance of the workshop. Rates begin at $247/nt plus tax with corporate code #1055092.


Workshop Posters

Contact: Michelle McGraw

(858) 784-2826


Comments from 1st Annual CViSB Workshop

“Presentations were amazing, meeting everyone whose work I've admired was amazing, the whole thing was inspiring and motivating and extremely well put-together...”

“While at first I thought the number of speakers to number of attendees was odd, I appreciated the smaller size of the conference and the opportunities I had to meet all the scientists, both speakers and attendees. I think having a good ratio of speakers to attendees (roughly 1:3, in this case) makes for a great experience for graduate students and up-and-coming scientists.”

“It was great, will definitely come to a 2nd one!”