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Series GSE235110 Query DataSets for GSE235110
Status Public on Aug 30, 2023
Title A Single Cell Genomics Atlas of the Drosophila Larval Eye Reveals Distinct Developmental Timelines and Novel Markers for All Photoreceptor Subtypes
Organism Drosophila melanogaster
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary The Drosophila eye is a powerful model system to study the dynamics of cell differentiation, cell state transitions, cell maturation, and pattern formation. However, a high-resolution single cell genomics resource that accurately profiles all major cell types of the larval eye disc and their spatiotemporal relationships is lacking. Here, we report transcriptomic and chromatin accessibility data for all known cell types in the developing eye. Photoreceptors appear as strands of cells that represent dynamic developmental timelines. Photoreceptor subtypes are transcriptionally distinct when they begin to differentiate, but then appear to assume a common transcriptome as they mature. We identify novel cell type maturation genes, enhancers, and potential regulators, as well as genes with distinct R3 or R4 photoreceptor specific expression. Finally, we observe that photoreceptor chromatin accessibility is more permissive than non-neuronal lens-secreting cone cells, which show a more restrictive chromatin profile. These single cell genomics atlases will greatly enhance the power of the Drosophila eye as a model system.
Overall design The Drosophila larval eye disc was dissected and dissociated into single cells using collagensae and dispase.
Contributor(s) Raja KK, Yeung K, Shim Y, Li Y, Chen R, Mardon G
Citation(s) 37938573
Submission date Jun 16, 2023
Last update date Dec 05, 2023
Contact name Komal Kumar Bollepogu Raja
Phone 2169260218
Organization name baylor college of medicine
Department Pathology and Immunology
Street address One Baylor plaza
City Houston
State/province TX
ZIP/Postal code 77030
Country USA
Platforms (1)
GPL25244 Illumina NovaSeq 6000 (Drosophila melanogaster)
Samples (5)
GSM7495429 eye disc,replicate1, scRNA
GSM7495430 eye disc,replicate2, scRNA
GSM7495431 eye disc,replicate1, snATAC
BioProject PRJNA984608

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SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE235110_Larval_eye_scRNA.rds.gz 1.6 Gb (ftp)(http) RDS
GSE235110_Larval_eye_snATAC.rds.gz 1.3 Gb (ftp)(http) RDS
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Raw data are available in SRA
Processed data are available on Series record

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