NGS Data Analysis Course, Spring 2016
The Harvard Chan Bioinformatics Core is excited to offer an in-depth course for analysis of next-generation sequencing data for Harvard Medical School-affiliated researchers beginning in February 2016. The course description, schedule, and application details are provided below. Application open.
Description
This course is aimed at bench biologists who are interested in learning about NGS-based genomic analysis. The topics covered in-depth during this course are RNA-Seq and ChIP-Seq, with an optional Variant Calling session. The sessions will include downstream analysis focused on biological/functional significance. In addition, participants will gain skills in the areas of UNIX, R, compute cluster environments, version control using Git, basic shell scripting, and data visualization with genome browsers. At the end of this course, participants can expect to have the expertise to independently run data analysis for sequencing experiments. No prior programming experience or command-line training is required.
Format
The course is comprised of five hands-on sessions held over a period of five weeks beginning the second week of February 2016. Each session runs for 2 consecutive days (9am to 5pm), and the sessions are held every week. Please note that attendance is mandatory for all sessions (see schedule below for dates). Homework assignments for practicing key concepts will be assigned at the end of each session, and it will be due at the beginning of the following session in one week (homework assignments will take no more than roughly 2 hours to complete). Office hours will be held once between sessions to help with homework questions or general questions.
Schedule
The full schedule is listed below:
| Date | Description | Time |
|---|---|---|
| February 8th - 9th | Introduction to UNIX, Orchestra and NGS Data Analysis | 9am - 5pm |
| February 16th - 17th | NGS workflow and RNA-seq Part I | 9am - 5pm |
| February 22nd - 23rd | RNA-Seq Part II | 9am - 5pm |
| February 29th - March 1st | NGS Analysis Tools | 9am - 5pm |
| March 7th - 8th | ChIP-Seq and Closing Remarks | 9am - 5pm |
Application Instructions
Along with members of the TnT steering committee, we will be selecting 20 participants for this course based on various criteria.
Requirements:
The course is open to Harvard Stem Cell Institute (HSCI) and Harvard Medical School-affiliated researchers from the Basic and Social Science Departments on the Quad and the Harvard NeuroDiscovery Center. To be considered for participation in the course, you must fill out or submit all of the following by the submission deadline, December 7th, 2015:
- Registration form
- Curriculum vitae or Resume
- Research statement:
The research statement should be no longer than one page, single-spaced, using 12pt font. The statement should include a detailed description of your current research project(s), a discussion of the future direction of your research, and a description of how this workshop will benefit your research goals. - PI approval:
This can be in the form of your PI's signature on your research statement or an email to hbctraining@hsph.harvard.edu acknowledging your application.
Instructions for Submission:
Please fill out the online registration form and submit the remaining documents as PDF files by email. Please make sure that the subject line of your email is as follows: CourseSubmission_LastName_FirstName (e.g. CourseSubmission_Smith_Joe). Once we recieve all the materials, you will get an email notification.
Please note that incomplete applications will not be considered.
You will be informed of the decision regarding your application by January 10th.
Course Fee:
If your application is accepted, you will be charged $400 as the participation fee for this course, and payment will expected by application deadline, December 7th. If not received by this date, then you will forfeit your spot in the course.
Contact information
If you have any questions regarding the application process, please do not hesitate to email us at hbctraining@hsph.harvard.edu.
Sponsored by Harvard Medical School Tools and Technology (TnT) Committee, Harvard NeuroDiscovery Center (HNDC) and Harvard Stem Cell Institute (HSCI)