Discover the power of EmptyDrops and LIGER in single-cell RNA sequencing data analysis. Learn how these tools can help remove ambient RNA and uncover new cell types, with proper precautions and justification. Dive into the world of variable gene expression in cell subpopulations with single-cell RNA-seq software.
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Presentation Transcript
2020-08-28 Cmp. Mtg. Rosen/Tsai lab Kush Attal Summer Intern Washington and Lee University
EmptyDrops Lun, A. T. L., Riesenfeld, S., Andrews, T., Dao, T. P., Gomes, T., & Marioni, J. C. (2019). EmptyDrops: Distinguishing cells from empty droplets in droplet-based single-cell RNA sequencing data. Genome Biology, 20(1)
Final Thoughts EmptyDrops can be a powerful tool to remove ambient RNA; however, there needs to be certain precautions LIGER may lead to new discoveries of certain cell types as long as factors are removed with proper justification Single cell RNA-seq software is a powerful tool for exploring variable gene expression in cell subpopulations
Acknowledgements Tsai Lab Linus Tsai, MD, PhD Christopher Jacobs, PhD Harini Srinivasan, MS Amrita Kar, PhD Margo Emont, PhD (Rosen) Deepti Pant, BS Funding Washington and Lee Johnson Opportunity Grant
