Giselle Knudsen, Alaunus BiosciencesPart-Time Instructors:
Robert Chalkley, University of California San Francisco
Darryl Pappin, Cold Spring Harbor Laboratory
Duke Center for Genomic and Computational Biology
Duke Center for Genomic and Computational Biology
Ghaith Hamza, AstraZeneca
Eric Miele, AstraZeneca
COVID-19: We are closely monitoring the COVID-19 situation as it evolves, following CDC guidelines to ensure the safety and well-being of our participants and staff. Advisory
As of March 3rd, CSHL has postponed or canceled all upcoming scientific conferences and courses bringing participants to campus through April 5th, and we are evaluating future events on a rolling basis.
Participants from CDC Warning Level 3 countries are being advised to cancel their participation unless they can demonstrate having departed the area at least two weeks prior to their visit to CSHL.
We anticipate making a decision about this course and communicating to all participants soon.
Travel Plans: If you have not already made travel arrangements, we would recommend holding off on that until after our decision is announced.
Travel Insurance Tip: CSHL recommends that all participants look into the possibility of extended travel insurance, for example, Cancel for Any Reason Travel Insurance (CFAR).
See the roll of honor - who's taken the course in the past
This intensive laboratory and lecture course will focus on cutting-edge proteomic approaches and technologies.
Students will gain practical experience in sample preparation with in-solution digestion, then students will be trained using high-sensitivity nano LC-ESI-MS and tandem mass spectrometry. Different search engines and bioinformatic approaches will be introduced for data evaluation. For the shotgun proteomic analysis sections, students will use label-free and covalent isotopic-labeling quantitative approaches to profile changes.
In a section focused on targeted proteomics, students will learn to analyze and process shotgun proteomic data for the development of SRM/PRM assays that accurately identify and quantify targeted proteins. Students will design transitions for selected peptides and perform SRM/PRM analyses. They will learn to process and interpret the acquired data to measure changing quantities of targeted peptides in a variety of biological samples, and specifically spend significant time using Skyline for both MS1 and MS2 data analysis. Students will be shown how to recognize unexpected post-translational modifications. Diverse techniques for PTM peptide enrichment, including affinity chromatography and immune-enrichment for phosphopeptides will be carried out and the characterization of the resulting complex mixtures, including site assignments, will be performed.
A series of outside lecturers will discuss various proteomics topics including:
- de novo sequence analysis
- Intact protein analysis
- Cross-linking analysis for structural studies
- Data-independent analysis for comprehensive results across many samples
- Protein complex and proximity analysis
Finally an industrial lecture and practical component by drug discovery scientists will allow participants to understand how chemoproteomics techniques can be routinely used in industry to profile compounds and potential protein targets.
For all sections of the course, a strong emphasis will be placed on data analysis. There will be opportunity to discuss and provide feedback on individual research projects, and students will have the opportunity to learn to process their own data (acquired outside the course), if so desired.
The aim of the course is to provide each student with the fundamental knowledge and hands-on experience necessary for performing and analyzing proteomic experiments. The overall goal is to train students to identify new opportunities and applications for proteomic approaches in their biological research.
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.
Cost (including board and lodging): $4,080
No fees are due until you have completed the full application process and are accepted into the course. Students accepted into the course should plan to arrive by early evening on August 4 and plan to depart after lunch on August 18.
Before applying, ensure you have (all due April 1):
- Personal statement/essay;
- Letter(s) of recommendation;
- Curriculum vitae/resume (optional);
- Financial aid request (optional).
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: