Advanced Sequencing Technologies & Bioinformatics Analysis
November 6 - 19, 2023

Key Dates
Application Deadline:  July 15, 2023
Arrival: November 5th by 6pm EST
Departure: November 19th around 12pm 

CSHL Courses are intensive, running all day and often including evenings and weekends; students are expected to attend all sessions and reside on campus for the duration of the course.

Felicia Gomez, Washington University School of Medicine
Obi Griffith, Washington University School of Medicine
Malachi Griffith, Washington University School of Medicine
Elaine Mardis, Nationwide Children's Hospital Research Institute  
W. Richard McCombie, Cold Spring Harbor Laboratory


COVID-19: All participants planning to attend in-person will be required to attest to recent COVID vaccination (within one year of the course’s start date) with an FDA or WHO approved vaccine. Additional safety measures will be in line with current NY and Federal Guidelines applicable in Fall 2023.


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

Over the last decade, massively parallel DNA sequencing has markedly impacted the practice of modern biology and is being utilized in the practice of medicine. The constant improvement of these platforms means that costs and data generation timelines have been reduced by orders of magnitude, facilitating investigators to conceptualize and perform sequencing-based projects that heretofore were time-, cost-, and sample number-prohibitive. Furthermore, the application of these technologies to answer questions previously not experimentally approachable is broadening their impact and application. However, data analysis remains a complex and often vexing challenge, especially as data volumes increase.

This intensive two week course will explore use and applications of massively parallel sequencing technologies, with a focus on data analysis and bioinformatics. Students will be instructed in the detailed operation of several short- and long-read platforms, including library construction procedures, general data processing, and in-depth data analysis. A diverse range of the types of biological questions enabled by massively parallel sequencing technologies will be explored such as variant calling, transcriptome analysis, single cell analysis, metagenomics, epigenomics and others that are tailored to the student's research areas of interest.

Cloud-based computing will also be explored. Guest lecturers will highlight unique applications of these disruptive technologies.

We encourage applicants from a diversity of scientific backgrounds including molecular evolution, development, neuroscience, medicine, cancer, plant biology and microbiology.

2022 Guest Lecturers
Berkley Gryder, Case Western Reserve School of Medicine
Scott Handley, Washington University School of Medicine
Yang Li, University of California San Diego
Christopher Maher, Washington University
Robert Martienssen, Cold Spring Harbor Laboratory/HHMI
John McPherson, UC Davis
Christopher Miller, Washington University in St Louis
Danny Miller, University of Washington
Jonathan Preall, Cold Spring Harbor Laboratory
Trevor Pugh, University Health Network
Zsofia Stadler, Memorial Sloan Kettering Cancer Center
Dylan Taylor, Johns Hopkins University
Alex Wagner, Nationwide Children's Hospital
Jason Williams, Cold Spring Harbor Laboratory
Michael Zody, New York Genome Center

Support & Stipends:

Major support provided by: National Human Genome Research Institute.

Access to cloud computational resources may be supported by an AWS in Education Grant award from Amazon.

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): $4,210

No fees are due until you have completed the full application process and are accepted into the course. 

Before applying, ensure you have (all due July 15):
  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: