Thank you for visiting our site profiling our work on the developing tooth! This work includes ChIP-seq data we generated for the E13.5 incisor (GSE197645), single cell transcriptomic data from GSE142201 , bulk transcriptomic data from SRP308455, and GWAS data from the GWAS catalog. Detailed scripts for this project can be found at our github page.
This project also included the functional annotation (18 state chromatin segmentation) of all ENCODE mouse ChIP-seq datasets (performed by Alexis Hardy), which are available here.
To further explore our single cell transcriptomics 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 all analysis on biorxiv.
Integration of Multimodal Data To Prioritize Candidate Dental Disease Genes
By integrating the datasets mentioned above and outlined in detail in the following sections, we generated a prioritized gene list which can be explored in the following dropdown menu.
We validated AGAP1, a high-priority novel candidate gene which had previously been assayed as a loss of function whole-body knockout by the Knockout Mouse Project.
Exploration of Prioritized Dental Disease Genes
AGAP1 is a likely dental disease gene
Conserved Craniofacial Enhancers Contribute to Dental Development and Disease Risk
Hg19 Conserved Tooth Enhancer Explorer
Please find here an interactive UCSC genome browser session (hg19) of our human craniofacial 18 state chromatin segmentation tracks alongside our novel E13.5 mouse incisor enhancer calls.
Mm10 Conserved Tooth Enhancer Explorer
Please find here an interactive UCSC genome browser session (mm10) of our 18 state chromatin segmentation tracks of all mouse ENCODE alongside our novel E13.5 mouse incisor enhancer calls.