Asia Pacific Bioinformatics Conference - ENCODE Short Course

We plan a highly interactive workshop, with ample time for hands-on exercises and your questions.

Introduction to ENCODE and the ENCODE DCC
How to find ENCODE results on the ENCODE Portal
How to visualize and download ENCODE data
Data formats and availability
Standard ENCODE data processing pipelines and how to replicate ENCODE analyses on your own data

All slides and materials from the workshop will be added to this page.

Instructions for setting up your DNAnexus environment to run ENCODE pipelines are here:

For questions or more information contact:
J. Michael Cherry, Ph.D.
E-mail: cherry@stanford.edu

No.	Presentation Title	Presenter	Organization	Additional materials
1	Introduction to ENCODE and the ENCODE DCC	J. Michael Cherry	ENCODE DCC, Stanford University	Slides
2	Searching the ENCODE Portal	Aditi Narayanan	ENCODE DCC, Stanford University	Slides
3	Data Access, Availability, and Processing at the ENCODE Portal	J. Seth Strattan	ENCODE DCC, Stanford University	Slides Prepare to run web-based pipelines ChIP-seq Pipeline How-to RNA-seq Pipeline How-to
4	Closing	J. Michael Cherry	ENCODE DCC, Stanford University