To support our site, Class Central may be compensated by some course providers.

Introduction to Bioconductor: Annotation and Analysis of Genomes and Genomic Assays

Harvard University via edX

students interested
  • Provider edX
  • Subject Bioinformatics
  • $ Cost Free Online Course
  • Session Self Paced
  • Language English
  • Certificate $49 Certificate Available
  • Effort 2-4 hours a week
  • Start Date
  • Duration 4 weeks long

Taken this course? Share your experience with other students. Write review

Overview

We begin with an introduction to the biology, explaining what we measure and why. Then we focus on the two main measurement technologies: next generation sequencing and microarrays. We then move on to describing how raw data and experimental information are imported into R and how we use Bioconductor classes to organize these data, whether generated locally, or harvested from public repositories or institutional archives. Genomic features are generally identified using intervals in genomic coordinates, and highly efficient algorithms for computing with genomic intervals will be examined in detail. Statistical methods for testing gene-centric or pathway-centric hypotheses with genome-scale data are found in packages such as limma, some of these techniques will be illustrated in lectures and labs.

Given the diversity in educational background of our students we have divided the series into seven parts. You can take the entire series or individual courses that interest you. If you are a statistician you should consider skipping the first two or three courses, similarly, if you are biologists you should consider skipping some of the introductory biology lectures. Note that the statistics and programming aspects of the class ramp up in difficulty relatively quickly across the first three courses. By the third course will be teaching advanced statistical concepts such as hierarchical models and by the fourth advanced software engineering skills, such as parallel computing and reproducible research concepts.

These courses make up 2 XSeries and are self-paced:

PH525.1x: Statistics and R for the Life Sciences

PH525.2x: Introduction to Linear Models and Matrix Algebra

PH525.3x: Statistical Inference and Modeling for High-throughput Experiments

PH525.4x: High-Dimensional Data Analysis

PH525.5x: Introduction to Bioconductor: annotation and analysis of genomes and genomic assays 

PH525.6x: High-performance computing for reproducible genomics

PH525.7x: Case studies in functional genomics


This class was supported in part by NIH grant R25GM114818.

HarvardX requires individuals who enroll in its courses on edX to abide by the terms of the edX honor code. HarvardX will take appropriate corrective action in response to violations of the edX honor code, which may include dismissal from the HarvardX course; revocation of any certificates received for the HarvardX course; or other remedies as circumstances warrant. No refunds will be issued in the case of corrective action for such violations. Enrollees who are taking HarvardX courses as part of another program will also be governed by the academic policies of those programs.

HarvardX pursues the science of learning. By registering as an online learner in an HX course, you will also participate in research about learning. Read our research statement to learn more.

Harvard University and HarvardX are committed to maintaining a safe and healthy educational and work environment in which no member of the community is excluded from participation in, denied the benefits of, or subjected to discrimination or harassment in our program. All members of the HarvardX community are expected to abide by Harvard policies on nondiscrimination, including sexual harassment, and the edX Terms of Service. If you have any questions or concerns, please contact harvardx@harvard.edu and/or report your experience through the edX contact form.

Taught by

Michael Love and Rafael Irizarry

Tags

Help Center

Most commonly asked questions about EdX EdX

Review for edX's Introduction to Bioconductor: Annotation and Analysis of Genomes and Genomic Assays
4.0 Based on 1 reviews

  • 5 star 0%
  • 4 star 100%
  • 3 star 0%
  • 2 star 0%
  • 1 star 0%

Did you take this course? Share your experience with other students.

Write a review
  • 1
Brandt P
4.0 2 years ago
by Brandt completed this course, spending 4 hours a week on it and found the course difficulty to be medium.
(Note that I took these before the recent reorganization. I believe portions of this course are now included in a different course in this sequence.)

This is the fourth course in the PH525 sequence offered by EdX. It is technically possible (based on the stated prerequisites) to take this course second after PH525.1x, but I would highly recommend finishing all 3 previous courses (PH525.1x, PH525.2x, and PH525.3x) before taking this course.

The course is an introduction to the Bioconductor packages for R. This course is certainly somewhat easier than the preceding cou…
1 person found
this review helpful
Was this review helpful to you? Yes
  • 1

Class Central

Get personalized course recommendations, track subjects and courses with reminders, and more.

Sign up for free

Never stop learning Never Stop Learning!

Get personalized course recommendations, track subjects and courses with reminders, and more.