OIRM Workshops and Courses

OIRM will post information on its upcoming workshops as it becomes available.

Current workshops:

Genetic Tools
RNA-Seq Analysis

Genetic Tools Workshop

Applications Closed 

Date: April 24-26, 2017
Location: The Lunenfeld-Tanenbaum Research Institute, Toronto
Application Deadline: Wednesday February 22, 2017

This workshop is ideal for trainees who want to advance their biological knowledge and research projects through the use of cutting edge transgenic technologies. The taught techniques are valuable to both human and mouse stem cell research, modifying cells through a transgenic approach. The workshop will be 60% bench work and 40% classroom (talks and in silico analysis). By the end of the workshop trainees will be knowledgeable in designing and generating appropriate expression constructs and CRISPR/Cas9 strategies.  The course is tailored so that participants design and generate constructs for their very own research projects.

Skills and techniques taught on the course include;

● Genome modification by CRISPR mediated gene editing (applicable to knockouts and knock-ins).
● Strategies for generating reporter cell lines. (identifying the genomic region of interest, appropriate fluorescent protein, method of genomic integration and the genomic location).
● Human pluripotent cells culture, transfection, subcloning and genotyping.
● Gene over-expression with transposons in human and mouse stem cells (selecting a promoter, a method of genomic integration and identifying amenable genomic loci).

View the workshop agenda- coming soon!

Application Procedure & Registration Fees:

Space in this workshop is limited; therefore all those interested in participating must submit an application form (see below). Selected applicants will be notified by the middle of March, and will be instructed on how to proceed with registration for the workshop.

Applicants will be required to submit a resume as well as a brief project proposal outlining the specifics of their research and CRISPR project.

The registration fee for this workshop is $500 ($CAD).

The Ontario Institute for Regenerative Medicine (OIRM), The Stem Cell Network (SCN) and Medicine by Design (MbD) are offering a limited number of travel awards to enable eligible trainees to attend this workshop. All those who submit an application to attend will automatically be considered for trainee sponsorship and travel bursaries through the appropriate networks; OIRM, SCN or MbD. To check for eligibility and associated travel awards please click here.

Download the Workshop and Bursary Application Form here. Completed applications form should be send to oirmworkshops@oirm.ca by 11:59pm (sender's time) Wednesday, February 22, 2017.

Thank you to ThermoFisher, Stem Cell Network, Medicine by Design, Benchling and CCRM for help sponsoring this workshop.

For more information please contact: jodi.garner@oirm.ca

RNA-Seq Analysis Workshop

Applications Closed 

Date: May 8-10, 2017
Location: University of Ottawa, Ottawa 
Application Deadline: Wednesday February 22, 2017

Presented in collaboration with the Stem Cell Network

Unraveling the molecular mechanisms driving stem cell fate decisions still remains one of the major quests in stem cell biology. State-of-the-art -OMICS technologies has become an important tool to their discovery pipeline and has generated an increased interest among stem cell biologists to learn this technique. However, often technical and other pragmatic challenges limit the ability of stem cell biologists to maximize the amount of information that can be harnessed from large data sets. Such limitations include 1) a lack of understanding of how next generation sequencing (NGS) works and how raw NGS data is acquired, processed and analyzed, 2) issues surrounding proper experimental design, 3) low number of stem cells available for genomic analysis, and 4) a limited understanding of the tools available for analyzing and interpreting obscure gene lists.

Who Should Attend?
We are limiting this year’s -OMICS workshop to the design and analysis of RNA-sequencing (RNA-seq) data, with the expectation that trainees will develop a more in-depth understanding of the design and analysis of OMICS projects by focusing on RNA-seq, which is being widely adopted in the stem cell community. This -OMICS workshop is designed for stem cell biologists (and other end users) who are looking to gain an appreciation of the bioinformatics concepts and processes used to acquire, analyze and interpret NGS data.

Workshop Learning Objectives
Through a mixture of interactive lectures and computer lab exercises, participants will be exposed to the RNA-seq data acquisition and analysis pipeline, and will gain hands-on training with available tools for network and pathway analysis of -OMICS data (focused on RNA-seq data, but applicable to data obtained from other platforms such as ChIP-seq, microarray or mass spectrometry). Workshop participants will also have the opportunity to ask questions and network with other stem cell biologists and bioinformaticists over the course of this workshop. Key objectives addressed in the course are:

  • Introduction to Next Generation Sequencing technologies and workflow, concentrating on RNA-seq.
  • Learn how to process raw NGS RNA-seq data into gene lists.
  • Gain an understanding of the different statistical tests used to analyze gene sets.
  • Seminar and hands-on tutorials focused on single cell RNA-anaylsis
  • Hands-on training for determining functional enrichment of genes in a gene list using GSEA and gProfiler.
  • Hands-on training with network visualization tools including Cytoscape and Enrichment Maps.
  • Hands-on training with network and pathway analysis tools.

View the workshop agenda - coming soon!

Application Procedure & Registration Fees;

Space in this workshop is limited; therefore all those interested in participating must submit an application to attend the RNA-seq Analysis workshop by Wednesday, February 22, 2017. Selected applicants will be notified by Friday, March 17, 2017, and will be instructed on how to proceed with registration for the workshop.

The registration fees for this workshop are ($CAD):
• OIRM trainees*: $350
• Stem Cell Network trainees ‡: $350
• Stem Cell Network or OIRM investigators: $500
• Non-SCN and non-OIRM trainees or investigators: $700
• Industry scientists: $1,000

To check for eligibility and associated travel awards please click here.

Download the Workshop and Bursary Application Form here

Workshop Requirements:

Note that participants in this workshop are required to use their own laptop computers, and the laptop must be able to run Oracle Java 7. Please ensure that your laptop is able to run Oracle Java 7 before applying to for the OIRM / SCN travel award. Participants will also need to download free software tools before attending the workshop, and will be advised of what software is required following their registration in the workshop.

For further information on this workshop please contact jodi.garner@oirm.ca. For application related inquires, please contact Rebecca Cadwalader at rcadwalader@stemcellnetwork.ca.