Xenopus Bioinformatics Workshop

at the Marine Biological Laboratory
Woods Hole, MA

Next Workshop: May 1st – 7th
Tentative Syllabus 2016 (PDF format)


Course principles:
Bioinformatics Workshop for Xenopus Researchers:

Attendees will be wet lab researchers who want, at least, to extend their understanding of computational analysis tools and methods, but will probably also want to acquire grounded computational skills to enable them to work independently. They may be PIs, post docs or PhD students, but are less likely to be research technicians.

The course will be highly practical and will involve working with or analyzing real data to illustrate all of the skills, techniques and approaches covered. All of this data will be drawn from real experimental work in Xenopus.

‘No biologist left behind.’ Skills will be taught soundly and progressively, and with sufficient practice, so that no reasonably competent and attentive person has trouble keeping up with the basic skills being taught.

The best kit for delivering the course for maximum impact and take-out value will be the users own laptop.

Attendees will be encouraged to bring/develop their own mini-projects during the course, but there will always be relevant data available for people who do not bring their own.

We will try and in advance to determine which high level methods are likely to be of most interest, but should not necessarily be limited to only teaching things that people know in advance that they want to learn.

There will be a relatively low emphasis on touring ‘useful web sites’, external data sources will be explained and referenced as they are needed as source of data or targets of analysed data for visualization.


Leonid Peshkin, Harvard University Taejoon Kwon, Univerity of Texas at Austin Virginia Savova, Harvard University Ian Quigley, Salk Institute

Course Outline and Rationale(PDF format)

Workshop Costs

Event housing, meals and registration, Single room – $1,800
Event housing, meals and registration, Double room -$1,400
Event meals and registration (no housing)    –          $1,000

For additional information, please contact:

Marko Horb, Ph.D.
Director, National Xenopus Resource (NXR)
Associate Scientist, Bell Center for Regenerative Biology and Tissue Engineering
Marine Biological Laboratory
7 MBL Street
Woods Hole, MA 02543
Office: (508) 289-7627
Lab: (508) 289-7370

Feedback from the Community

“One of our post-docs attended the 2013 Bioinformatics workshop, and the training in RNA-seq analysis and general bioinformatics approaches he learned have been crucial for our research on Xenopus tropicalis embryo development. We are now pursuing several high-throughput sequencing projects–including RNA-seq and ChIP-seq–in early Xenopus embryos, and the design of these experiments and analysis of sequencing reads would not have been possible without the specialized knowledge he gained from the Bioinformatics workshop.”

“Great! I have sent one student to the bioinformatics course and he loved the course and came back and was immediately able to help many folks in the lab with bioinformatic issues.”

“I have sent three lab members to the Bioinformatics workshop. These lab members have learned the basic skills of genomic work and now routinely perform RNA-seq and ChIP-seq analyses.”