Advanced Bioconductor Course from Harvard

By: Harvard University
Duration: 5 Weeks

Learn advanced approaches to genomic visualization, reproducible analysis, data architecture, and exploration of cloud-scale consortium-generated genomic data.

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Course ByInstructor
Harvard UniversityRafael Irizarry, Michael Love, Vincent Carey

Course Details

In this course, we begin with approaches to visualization of genome-scale data, and provide tools to build interactive graphical interfaces to speed discovery and interpretation. Using knitr and rmarkdown as basic authoring tools, the concept of reproducible research is developed, and the concept of an executable document is presented.

In this framework reports are linked tightly to the underlying data and code, enhancing reproducibility and extensibility of completed analyses. We study out-of-memory approaches to the analysis of very large data resources, using relational databases or HDF5 as “back ends” with familiar R interfaces. Multiomic data integration is illustrated using a curated version of The Cancer Genome Atlas. Finally, we explore cloud-resident resources developed for the Encyclopedia of DNA Elements (the ENCODE project). These address transcription factor binding, ATAC-seq, and RNA-seq with CRISPR interference.

What you will learn?

  • Static and interactive visualization of genomic data
  • Reproducible analysis methods
  • Memory-sparing representations of genomic assays
  • Working with multiomic experiments in cancer
  • Targeted interrogation of cloud-scale genomic archives

Other Details

Course Instructors

Rafael Irizarry: Professor of Biostatistics, T.H. Chan School of Public Health
Michael Love: Assistant Professor, Departments of Biostatistics and Genetics, UNC Gillings School of Global Public Health
Vincent Carey: Professor of Medicine (Biostatistics) in the Channing Division of Network Medicine, Brigham and Women’s Hospital, Harvard Medical School

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