Single Cell Transcriptomic Analysis of the Developing Tooth

Welcome!

Thank you for visiting our site profiling our work in scRNAseq of the developing molar! Raw data for this work was obtained from GSE142201and re-analyzed using a pipeline of kallisto-bustools, Seurat, and clusterProfiler. Detailed scripts for this project can be found at our github page.

To further explore our clustering analyses, please check out our Shiny Server! This allows you to explore expression of your favorite genes, scores of our custom modules, gene ontology classifications, cluster makeup percentages, and more.

Please check out our preprint of this work on biorxiv. 

scRNA-seq of 4 E14 molars results in 16 distinct cell populations

scRNA-seq of 4 E14 molars results in 16 distinct cell populations

Re-alignment and clustering of 4 E14 molars shows 16 distinct cell populations. 33,886 cells passed quality control filters for the number of features and percent mitochondrial reads. Each replicate contributed approximately equally to all cell types.

GO-based annotation

GO-based annotation

Gene ontology-based cluster classification provides a reliable and unbiased biological annotations of cell populations in the E14 molar. Examination of marker genes from adult mouse incisor cell types shows a correlation between equivalent cell types in the E14 molar.

Identifying cells of the enamel knot

Identifying cells of the enamel knot

Publicly available lists of genes expressed in the enamel knot are useful to identify the presence of the enamel knot based on combinatorial expression scores. Subclustering of the epithelium reveals a distinct subcluster of cells with a significantly higher expression of known EK marker genes Shh and Wnt10b, which are also enriched for other known EK genes. This cluster is considered to be cells of the enamel knot.

EK marker genes

EK marker genes

Marker genes of the enamel knot (EK) are more highly enriched and specific to the structure than publicly available EK gene lists.

The section below is an interactive table categorizing our validation of the top most enriched enamel knot marker genes! If you would like to maximize the table for further exploration or to download, click here.

Enamel Knot Marker Genes ISH