Bioinformatics Short Courses

The IIHG is not currently planning a 2018 Bioinformatics Short Course, however we are brainstorming education outreach options. Please contact us at iihg@uiowa.edu with suggestions or inquiries.

In May 2017, the Iowa Institute of Human Genetics is offering the 5th Annual Bioinformatics Short Course. This three-day course will cover both general bioinformatics topics and interactive bioinformatics workflows using popular platforms and applications - Galaxy, Ingenuity Pathway Analysis (IPA), RStudio, Kallisto and Sleuth and UCSC Genome Browser.

In the mornings, the Bioinformatics Talks are a series of lectures from on-campus and invited speakers to introduce basic concepts of bioinformatics tools. Lunch is provided between the morning and afternoon sessions. In the afternoon, the sessions will focus on hands-on interactive workshops will enable participants to analyze data from its generation to interpretation.

The morning Bioinformatics Talks will feature:

  • Levi Waldron, PhD, Assistant Professor of Biostatistics, CUNY Graduate School of Public Health and Health Policy
    • Microbiome data analysis
  • Claire Williams, Graduate Student, Parrish Lab, Department of Biology, University of Washington
    • Comparison of results from different RNASeq workflows

The afternoon Interactive Workshops:

  • Day 1: RNA-seq alignment and quantification
  • Day 2: Exploring differential expression in R
  • Day 3: Ingenuity Pathway Analysis (IPA) -Dr. Jeffrey Knight, Field Application Scientist, Qiagen Bioinformatics

    Ingenuity® Pathway Analysis (IPA®) is a powerful analysis and search tool that uncovers the significance of 'omics data and identifies new targets or candidate biomarkers within the context of biological systems. If you're working with 'omics experiments, such as RNA-seq, small RNA-seq, microarrays including miRNA and SNP, metabolomics and proteomics, you can use IPA for biological interpretation.  Access to IPA is made possible by the IIHG Iowa Institute of Human Genetics.

    This hands-on workshop is geared towards NEW users of IPA and will focus on uploading data, running a core analysis, and interpreting the results.

To use IPA:

  1. Login to your IPA account at least 48 hours before the training to ensure that you do not have any technical issues
  2. If you forgot your password, you can reset it on the login page.  Your user name is your institution email address.
  3. If you experience any technical issues, please contact the IPA support team at 650.381.5111 or support@ingenuity.com to resolve the issue prior to the training
  4. Bring your laptop to the training session if you would like to use your own computer. 

Past Bioinformatics Short Courses

Click on the titles to go to agenda and recordings for each course year.

  • 2016 Presentations: June 8-10, 2016
  • 2015 Presentations: May 18-20, 2015
  • 2014 Presentations: July 28-30, 2014
  • 2013 Presentations: ChIP-seq Analysis Using Next Generation Sequencing
    • Next Generation DNA sequencing technologies have ushered in a wave of analytical techniques which are intimidating due to their size and complexity. However, for those trained in generating and analyzing these data sets these technologies offer powerful and innovative approaches to genome-wide investigations routine.

      In the summer of 2013, the Iowa Institute of Human Genetics will offer a Bioinformatics Short Course. The course will focus on the most popular next-generation sequencing platforms - the Illumina HiSeq and MiSeq systems, in conjunction with the powerful Galaxy framework to allow investigators to import, QC, align and analyze their data. A series of lectures to introduce basic concepts of data management within Galaxy will be interwoven with practical examples of data analysis specifically tailored to ChIP-seq analysis. Hands-on sessions will enable participants to analyze data from its generation to interpretation. This class will be valuable for both those wanting to learn the basic operations within the Galaxy frame work and also for those wanting to further understand ChIP-seq analysis.
  • 2012 Presentations: Mutation Detection Using Massively Parallel Sequencing: From Data Generation to Variant Annotation
    • Massively parallel DNA sequencing technologies have ushered in the next wave of the genomics revolution. The clinical application of these technologies will make personalized genomic medicine a reality; in the research laboratory, these technologies are making innovative approaches to genome-wide investigations routine. In the summer of 2012, the Iowa Institute of Human Genetics offered a Bioinformatics Short Course. The course focused on most popular next-generation sequencing platforms - the Illumina HiSeq and MiSeq systems. After completing this course, participants understand the design of a next generation sequencing experiment and the workflow to achieve a particular result. A series of lectures introduced basic concepts interwoven with practical examples of data generation and analysis. Hands-on sessions enabled participants to analyze data from its generation to interpretation