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Series GSE116969 Query DataSets for GSE116969
Status Public on Aug 05, 2018
Title A GENETIC, GENOMIC, AND COMPUTATIONAL RESOURCE FOR EXPLORING NEURAL CIRCUIT FUNCTION
Organism Drosophila melanogaster
Experiment type Expression profiling by high throughput sequencing
Summary The anatomy of many neural circuits is being characterized with increasing resolution, but their molecular properties remain mostly unknown. Here, we characterize gene expression patterns in distinct neural cell types of the Drosophila visual system using genetic lines to access individual cell types, the TAPIN-seq method to measure their transcriptomes, and a probabilistic method to interpret these measurements. We used these tools to build a resource of high-resolution transcriptomes for 100 driver lines covering 67 cell types. Combining these transcriptomes with recently reported connectomes helps characterize how information is transmitted and processed across a range of scales, from individual synapses to circuit pathways. We describe examples that include identifying neurotransmitters, including cases of co-release, generating functional hypotheses based on receptor expression, as well as identifying strong commonalities between different cell types.
 
Overall design 266 RNA-seq samples including 242 nuclear RNA-seq libraries prepared from specific cell types using INTACT/TAPIN, 8 samples dissected from the optic lobe, and 16 control libraries to characterize the INTACT/TAPIN protocols.
 
Contributor(s) Davis FP, Nern A, Picard S, Reiser MB, Rubin GM, Eddy SR, Henry GL
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Submission date Jul 11, 2018
Last update date Dec 30, 2018
Contact name Fred P. Davis
E-mail Fred.davis@nih.gov
Organization name NIH
Department NIAMS
Street address 9000 Rockville Pike
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platforms (1)
GPL17275 Illumina HiSeq 2500 (Drosophila melanogaster)
Samples (266)
GSM3265452 L1L2_aFLAG_beads_rep1
GSM3265453 L1L2_aFLAG_beads_rep2
GSM3265454 no_driver_aGFP_beads_rep1
Relations
BioProject PRJNA480794
SRA SRP153159

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
GSE116969_README_dataTables.txt 3.2 Kb (ftp)(http) TXT
GSE116969_dataTable1.transcripts_x_samples_TPM.all_genes.txt.gz 11.9 Mb (ftp)(http) TXT
GSE116969_dataTable2.genes_x_samples_TPM.all_genes.txt.gz 6.9 Mb (ftp)(http) TXT
GSE116969_dataTable3.genes_x_samples_TPM.coding_genes.txt.gz 6.2 Mb (ftp)(http) TXT
GSE116969_dataTable4.genes_x_cells_TPM.coding_genes_QCpass.txt.gz 2.1 Mb (ftp)(http) TXT
GSE116969_dataTable5a.genes_x_samples_TPM.modeled_genes.txt.gz 4.5 Mb (ftp)(http) TXT
GSE116969_dataTable5b.genes_x_samples_p_expression.modeled_genes.txt.gz 1.3 Mb (ftp)(http) TXT
GSE116969_dataTable6a.genes_x_drivers_TPM.modeled_genes.txt.gz 2.3 Mb (ftp)(http) TXT
GSE116969_dataTable6b.genes_x_drivers_p_expression.modeled_genes.txt.gz 685.6 Kb (ftp)(http) TXT
GSE116969_dataTable7a.genes_x_cells_TPM.modeled_genes.txt.gz 1.9 Mb (ftp)(http) TXT
GSE116969_dataTable7b.genes_x_cells_p_expression.modeled_genes.txt.gz 586.5 Kb (ftp)(http) TXT
Raw data are available in SRA
Processed data are available on Series record

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