The CeNGEN project

Second data release coming up on November 1st!

The second data release comes with an updated preprint, as well as an updated Web App including all neuron classes.

First Data Release! Single-cell RNA-Seq data are now available to explore at

We are pleased to release the first round of single cell RNA-Seq data in our web application SCeNGEA. The data can be downloaded as an R object in the monocle CellDataSet format on the downloads page. For detailed methods and initial description of the data, see our preprint on bioRxiv, The FASTQ files have been deposited at GEO under accession number GSE136049.

Differential gene expression defines individual neuron types and determines how each contributes to circuit physiology and responds to injury and disease. The C. elegans Neuronal Gene Expression Map & Network (CeNGEN) will establish a comprehensive gene expression atlas of an entire nervous system at single-neuron resolution.

Two approaches are being used:

1) single-cell RNA-Sequencing, which allows the identification of each neuronal class;

2) deep bulk RNA sequencing of sorted neurons from each class enables full characterization of its transcriptome and of non-coding RNAs.

You can find a full description in Hammarlund, Marc et al., Neuron, Volume 99, Issue 3 430-433, doi:10.1016/j.neuron.2018.07.042

This project was made possible by the support of the NIH NINDS (grant R01NS100547) and the C. elegans research community.