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Series GSE136049 Query DataSets for GSE136049
Status Public on Aug 21, 2019
Title Molecular topography of an entire nervous system
Organism Caenorhabditis elegans
Experiment type Expression profiling by high throughput sequencing
Summary Nervous systems are constructed from a deep repertoire of neuron types but the underlying gene expression programs that specify individual neuron identities are poorly understood. To address this deficit, we have produced an expression profile of all 302 neurons of the C. elegans nervous system that matches the single cell resolution of its anatomy and wiring diagram. Our results suggest that individual neuron classes can be solely identified by combinatorial expression of specific gene families. For example, each neuron class expresses unique codes of ~23 neuropeptide-encoding genes and ~36 neuropeptide receptors thus pointing to an expansive "wireless" signaling network. To demonstrate the utility of this uniquely comprehensive gene expression catalog, we used computational approaches to (1) identify cis-regulatory elements for neuron-specific gene expression across the nervous system and (2) reveal adhesion proteins with potential roles in synaptic specificity and process placement. These data are available at cengen.org and can be interrogated at the web application CengenApp. We expect that this neuron-specific directory of gene expression will spur investigations of underlying mechanisms that define anatomy, connectivity and function throughout the C. elegans nervous system.
 
Overall design Single-cell RNA-sequencing profiles from L4 C. elegans larvae from strains labeling subgroups of neuron types.
 
Contributor(s) Taylor SR, Miller DM
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Submission date Aug 20, 2019
Last update date Jan 12, 2021
Contact name David Miller
E-mail(s) david.miller@vanderbilt.edu
Phone 615-343-3447
Organization name Vanderbilt University
Department Cell and Developmental Biology
Street address 465 21st Avenue South
City Nashville
State/province TN
ZIP/Postal code 37212
Country USA
 
Platforms (1)
GPL26672 Illumina NovaSeq 6000 (Caenorhabditis elegans)
Samples (17)
GSM4040097 Pan-neural 1
GSM4040098 Pan-neural 2
GSM4040099 GABAergic neurons 1
Relations
BioProject PRJNA561108
SRA SRP218876

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE136049_c_elegans.PRJNA13758.WS273.canonical_geneset.extend3UTR_optimized.gtf.gz 9.8 Mb (ftp)(http) GTF
GSE136049_cell_annotations.csv.gz 425.3 Kb (ftp)(http) CSV
GSE136049_gene_annotations.csv.gz 133.7 Kb (ftp)(http) CSV
GSE136049_gene_by_cell_counts_Matrix.mtx.gz 147.6 Mb (ftp)(http) MTX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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