August 4 - 7, 2020
Application & Materials Deadline: July 21, 2020


Giselle Knudsen, Alaunus Biosciences
Robert Chalkley, University of California San Francisco
Darryl Pappin, Cold Spring Harbor Laboratory


COVID-19: As of May 18, elements of this course are being redesigned as a virtual short course. We hope the majority of the invited speakers will be able to participate in the virtual course. The full hands-on course will be offered again in June 2021 (dates to be confirmed). 


See the roll of honor - who's taken the course in the past

This course will be conducted completely online.  It will be an interactive, but mostly lecture-based course that will focus on cutting-edge proteomic approaches and technologies.

The course will start by providing a grounding in mass spectrometry and peptide fragmentation analysis. Bioinformatic strategies for data analysis will then be explained. Quantitative strategies will be introduced, including isotopic labeling and label-free analysis, with a brief introduction to the Skyline software.

Day 3 will focus on analysis of protein post-translational modifications. Approaches for enrichment using antibodies and other affinity strategies will be surveyed and data analysis challenges including modification site assignment will be covered.

The final day will present more advanced applications.  Protein-level mass spectrometry for proteoform analysis will be described and protein structural analysis, mostly through cross-linking, will be explained.  The afternoon will focus on strategies for studying protein interactions and associations through affinity purification and proximity labeling. 

The aim of the course is to provide each student with the fundamental knowledge to perform their own proteomic experiments. The overall goal is to train students to identify new opportunities and applications for proteomic approaches in their biological research.

2020 Speakers Include:

Lissa Anderson, NHMFL-FSU
Karl Clauser, Broad Institute of MIT and Harvard
Charles Farnsworth, Cell Signaling Technology
Payman Samavarchi-Tehrani, Lunefeld-Tanenbaum Research Institute
Erik Soderblom, Duke Center for Genomic and Computational Biology 
Michael Trnka, University of California San Francisco

We anticipate this course will be supported with funds provided by: National Institute of Child Health & Human Development

Support & Stipends:

On average, 50% of trainees receive financial support on a needs-basis.

Stipends are available to offset tuition costs as follows:


Please indicate your eligibility for funding in your stipend request submitted when you apply to the course. Stipend requests do not affect selection decisions made by the instructors. 

Virtual Course Cost: $400.00 

No fees are due until you have been accepted into the course. Financial aid offers will be communicated with the acceptance notifications. Students accepted into the course should plan to be fully engaged and attend ~6 hours of virtual talks and discussion per day. 

Before applying, ensure you have (Due July 21):
  1. Personal statement/essay;
  2. Letter(s) of recommendation;
  3. Curriculum vitae/resume (optional);
  4. Financial aid request (optional).
    More details.

If you are not ready to fully apply but wish to express interest in applying, receive a reminder two weeks prior to the deadline, and tell us about your financial aid requirements, click below: