Droplet barcoding-based single cell transcriptomics of adult mammalian tissues

Bioinformatics

in Workflow

5 hours ago
106 Views

The analysis of single cell gene expression across thousands of individual cells within a tissue or microenvironment is a valuable tool for identifying cell composition, discrimination of functional states, and molecular pathways underlying observed tissue functions and animal behaviors. However, the isolation of intact, healthy single cells from adult mammalian tissues for subsequent downstream single cell molecular analysis can be challenging. Researchers from the University of Calgary describe the general processes and quality control checks necessary to obtain high-quality adult single cell preparations from the nervous system or skin that enabled subsequent unbiased single cell RNA sequencing and analysis. Guidelines for downstream bioinformatic analysis are also provided.

Flow chart

rna-seq

Steps from whole animal preparation to analyzing single cell RNA-Seq datasets to submitting final datasets to a publicly available repository. Gel beads in Emulsion (GEMs) refer to beads with barcoded oligonucleotides which encapsulate thousands of single cells.


Stratton JA, Sinha S, Shin W, Labit E, Chu TH, Shah PT, Midha R, Biernaskie J. (2019) Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues. J Vis Exp 2019 Jan 10;(143). [article]

Articles You May Like

BioVR: a platform for virtual reality assisted biological data integration and visualization
Convergent perturbation of the human domain-resolved interactome by viruses and mutations inducing similar disease phenotypes
Can we repair the brain? The promise of stem cell technologies for treating Parkinson’s disease
Andreas Ekström: Can We Solve For Bias In Tech?
Tidal tails: The beginning of the end of an open star cluster

Leave a Reply

Your email address will not be published. Required fields are marked *