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Series GSE107451 Query DataSets for GSE107451
Status Public on Jun 13, 2018
Title A single-cell transcriptome atlas of the ageing Drosophila brain
Organism Drosophila melanogaster
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary The diversity of cell types and regulatory states in the brain, and how these change during ageing, remains largely unknown. We present a single-cell transcriptome atlas of the entire adult Drosophila melanogaster brain sampled across its lifespan. Cell clustering identified 87 initial cell clusters that are further subclustered and validated by targeted cell-sorting. Our data shows high granularity and identifies a wide range of cell types. Gene network analyses using SCENIC revealed regulatory heterogeneity linked to energy consumption. During ageing, RNA content declines exponentially without affecting neuronal identity in old brains. This single-cell brain atlas covers nearly all cells in the normal brain and provides the tools to study cellular diversity alongside other Drosophila and mammalian single-cell datasets in our unique single-cell analysis platform. These results allow comprehensive exploration of all transcriptional states of an entire ageing brain.
 
Overall design scRNA-seq (10x Genomics CHROMIUM Single Cell 3’ Solution V2 Chemistry and Drop-seq) of adult brains from Drosophila melanogaster at various ages; SMART-seq2 on FAC-sorted R23E10-Gal4 positive neurons of adult brains from Drosophila melanogaster; Adapted SMART-seq2 on FAC-sorted R23E10-Gal4 positive neurons of adult brains from Drosophila melanogaster; CEL-seq2 on FAC-sorted R23E10-Gal4 positive neurons of adult brains from Drosophila melanogaster; Bulk RNA-seq of adult brains from Drosophila melanogaster; ATAC-seq of young (0 days) and old (50 days) adult brains from Drosophila melanogaster

 
Contributor(s) Davie K, Janssens J, Koldere D, Aerts S
Citation(s) 29909982
Submission date Nov 28, 2017
Last update date Jun 01, 2020
Contact name Stein Aerts
E-mail(s) stein.aerts@kuleuven.vib.be
Organization name KULeuven/VIB
Department Center for Brain & Disease Research
Lab S. Aerts Lab of Computational Biology
Street address Herestraat 49, bus 602
City LEUVEN
ZIP/Postal code 3000
Country Belgium
 
Platforms (2)
GPL19132 Illumina NextSeq 500 (Drosophila melanogaster)
GPL21306 Illumina HiSeq 4000 (Drosophila melanogaster)
Samples (128)
GSM2867552 DGRP-551_0d_r1
GSM2867553 DGRP-551_0d_r2
GSM2867554 DGRP-551_1d_r1
Relations
BioProject PRJNA420091
SRA SRP125768

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
GSE107451_DGRP-551_0d_3f.bw 45.1 Mb (ftp)(http) BW
GSE107451_DGRP-551_0d_3m.bw 30.3 Mb (ftp)(http) BW
GSE107451_DGRP-551_0d_s2.bw 12.7 Mb (ftp)(http) BW
GSE107451_DGRP-551_0d_s22.bw 36.3 Mb (ftp)(http) BW
GSE107451_DGRP-551_50d_s11.bw 52.0 Mb (ftp)(http) BW
GSE107451_DGRP-551_WholeBrain_Drop-seq_0d_30d_DGEM.tsv.gz 976.1 Kb (ftp)(http) TSV
GSE107451_DGRP-551_w1118_WholeBrain_157k_0d_1d_3d_6d_9d_15d_30d_50d_10X_DGEM_MEX.mtx.tsv.tar.gz 379.2 Mb (ftp)(http) TAR
GSE107451_DGRP-551_w1118_WholeBrain_57k_0d_1d_3d_6d_9d_15d_30d_50d_10X_DGEM_MEX.mtx.tsv.tar.gz 209.1 Mb (ftp)(http) TAR
GSE107451_DGRP-551_w1118_WholeBrain_57k_Metadata.tsv.gz 4.4 Mb (ftp)(http) TSV
GSE107451_DGRP-551_w1118_WholeBrain_57k_Metadata_README.txt 569 b (ftp)(http) TXT
GSE107451_DGRP-820_0d_s10.bw 20.8 Mb (ftp)(http) BW
GSE107451_DGRP-820_50d_s12.bw 36.3 Mb (ftp)(http) BW
GSE107451_DGRP-907_0d_s8.bw 36.0 Mb (ftp)(http) BW
GSE107451_DGRP-907_50d_s13.bw 35.8 Mb (ftp)(http) BW
GSE107451_DGRP-913_0d_s9.bw 22.2 Mb (ftp)(http) BW
GSE107451_DGRP-913_50d_s14.bw 66.9 Mb (ftp)(http) BW
GSE107451_R23E10_Adapted_SMART-seq2_DGEM.tsv.gz 314.4 Kb (ftp)(http) TSV
GSE107451_R23E10_CEL-seq2_DGEM.tsv.gz 130.5 Kb (ftp)(http) TSV
GSE107451_R23E10_SMART-seq2_DGEM.tsv.gz 276.6 Kb (ftp)(http) TSV
GSE107451_WholeBrain_Bulk_RNA-seq_Comparison_DGEM_DESeq_Normalized.tsv.gz 494.6 Kb (ftp)(http) TSV
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Processed data are available on Series record
Raw data are available in SRA

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