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:
- Carlos Christopher Goller, Kaitlyn Casimo (2020). Does Organelle Shape Matter? Exploring Cell Shape through the Allen Cell Explorer and High-content Microscopy Datasets. HITS, (Version 2.0). QUBES Educational Resources. doi:10.25334/QJ2B-JW15
Draft 2. Tried Spring 2019 at NC State University.
Word version of lesson included. Use the Google Docs link to make your own editable copy of the activity.