The morphology and localization of structures inside the cell are often assumed to fit the ideal images found in biology textbooks. This interrupted case study using high-throughput microscopy data from the Allen Institute addresses this...
Does Organelle Shape Matter? Exploring Cell Shape through the Allen Cell Explorer and High-content Microscopy Datasets
This interrupted case study suitable for upper-level undergraduate and graduate students uses a realistic scenario and the Allen Cell Explorer to guide students through the analysis of a novel data set produced by the Allen Institute that uses a high-throughput label-free approach to determine the localization and morphology of organelles. The case has several sections that engage students in use of the web resources from the Cell Explorer to analyze a scenario.
The student learning outcomes for this case are:
- Define the function of the endoplasmic reticulum and high-content microscopy
- Explain in your own words the process the Allen Institute used to create a label-free prediction method for determining the location of 3D structures inside the cell, directly from transmitted light images.
- Access data from high-throughput discovery experiments from public databases
- Use the Cell Explorer 3D Cell Viewer tools to analyze image data to test your hypothesis
- Compare cell structures in the Allen 3D Cell Viewer.
- Evaluate the validity of this high-content imaging approach
- Design a future experiment to build on your findings
Cite this work
Researchers should cite this work as follows:
- Goller, C. C., Casimo, K. (2019). Does Organelle Shape Matter? Exploring Cell Shape through the Allen Cell Explorer and High-content Microscopy Datasets. HITS, QUBES Educational Resources. doi:10.25334/Q4RB3R
Draft 1. Needs Teaching Notes and Key. Tried Spring 2019 at NC State University.
PDF version of lesson included. Use the Google Docs link to make your own editable copy of the activity.