Single Cell RNA Sequencing of the Adult Drosophila Eye Reveals Distinct Clusters and Novel Marker Genes for All Major Cell Types

Experiment ID:SRP400422
Technology:scRNA-Seq
Description:Although the adult Drosophila eye is an important model system for phototransduction and human disease research, high quality single cell resolution transcriptome data is lacking for this tissue. To address this, we performed single cell RNA-sequencing on wild-type Canton-S adult eyes from 1 day old male and female, 3-day and 7-day old male flies. These data sets will serve as an valuable resource for future research using the adult eye. Overall design: Adult eyes of Canton-S flies were dissected and dissociated into single cell solution with collagenase. Single cells were analyzed with 10x Chromium based scRNA-seq
DOI:10.1038/s42003-022-04337-1
Source:SRP400422 SRA
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scRNA-Seq droplet-based processed expression values per cell population in Drosophila melanogasterscRNA-Seq droplet-based H5AD data per cell in Drosophila melanogaster

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Library ID
Identifier of the RNA-Seq library
Cell type ID
ID of the cell type of the sample
Cell type name
Name of the cell type of the sample
Cell type author annotation
Free text annotation of cell type as provided by authors
Anat. entity ID
ID of the anatomical localization of the sample
Anat. entity name
Name of the anatomical localization of the sample
Anat. entity author annotation
Free text annotation of anatomical localization of the sample as provided by authors
Stage ID
ID of the developmental and life stage of the sample
Stage name
Name of the developmental and life stage of the sample
Stage author annotation
Free text annotation of the developmental and life stage of the sample as provided by authors
Sex
Annotation of the sex of the sample
Strain
Annotation of the strain of the sample
Time
Free text annotation of the time of sampling as provided by authors
Time unit
Unit for the time of sampling as provided by authors
Species
Physiological status
Physiological status of the organism at time of sampling
Technology
Sequencing platform
Sequenced transcript part
Possible values are: full length, all parts of the transcript are sequenced; 3': only the 3' end of the transcript is sequenced; 5': only the 5' end of the transcript is sequenced.
Fractionation
Possible values are: cell, transcripts are extracted from the cell; nuclei, transcripts are extracted from the nucleus.
Fragmentation
Size of the RNA fragmentation
Run sequencing type
Paired-end or single-read run
Total read count
Total number of reads for the library.
Mapped read count
Number of reads that could be mapped to the transcriptome.
Total UMI count
Total number of individual RNA molecules (UMI) for the annotated sample. Only applicable for libraries producing UMIs.
Mapped UMI count
Number of UMIs that could be mapped to the transcriptome. Only applicable for libraries producing UMIs.
Distinct rank count
When performing a fractional ranking of the genes in the annotated sample, based on their expression level, number of distinct ranks observed, to have a value of the power for distinguishing expression levels. Used as a weight to compute a weighted mean rank accross samples for each gene and compute expression scores in Bgee.
Max rank
When performing a fractional ranking of the genes in the annotated sample, based on their expression level, maximum rank attained in the sample. Used to normalize ranks accross samples and compute expression scores in Bgee.
Link to processed expression values
See the processed expression value results for this assay
SRX17760875FBbt:00006009 eye photoreceptor cell (Drosophila)R1-6UBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage1 day after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired582854699288829079035635959319412181Browse results
SRX17760875FBbt:00004225 photoreceptor cell R7 (Drosophila)R7UBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage1 day after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired582854699288829079021464476277511996Browse results
SRX17760875FBbt:00004227 photoreceptor cell R8 (Drosophila)R8UBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage1 day after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired58285469928882907907599120183211602Browse results
SRX17760875CL:0000718 compound eye cone cellConeUBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage1 day after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired58285469928882907909812323410016Browse results
SRX17760875FBbt:00004231 primary pigment cell (Drosophila)1_PigmentUBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage1 day after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired582854699288829079049250243710823.5Browse results
SRX17760875FBbt:00007250 inter-ommatidial cell (Drosophila)2,3_PigmentsUBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage1 day after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired582854699288829079012009809219012072Browse results
SRX17760876FBbt:00004231 primary pigment cell (Drosophila)1_PigmentUBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage3 days after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired267363440253979953081239546910571.5Browse results
SRX17760876CL:0000718 compound eye cone cellConeUBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage3 days after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired267363440253979953015805826110104.5Browse results
SRX17760876FBbt:00004227 photoreceptor cell R8 (Drosophila)R8UBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage3 days after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired26736344025397995303641936128211181.5Browse results
SRX17760876FBbt:00004225 photoreceptor cell R7 (Drosophila)R7UBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage3 days after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired267363440253979953010207407191911555Browse results
SRX17760876FBbt:00006009 eye photoreceptor cell (Drosophila)R1-6UBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage3 days after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired267363440253979953020558082243511761Browse results
SRX17760876FBbt:00007250 inter-ommatidial cell (Drosophila)2,3_PigmentsUBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage3 days after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired26736344025397995304673384143811623.5Browse results
SRX17760877FBbt:00007250 inter-ommatidial cell (Drosophila)2,3_PigmentsUBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage7 days after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired1041248519710102502284539103811305Browse results
SRX17760877FBbt:00006009 eye photoreceptor cell (Drosophila)R1-6UBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage7 days after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired1041248519710102507306958156811413.5Browse results
SRX17760877FBbt:00004225 photoreceptor cell R7 (Drosophila)R7UBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage7 days after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired1041248519710102503222355114811132Browse results
SRX17760877FBbt:00004227 photoreceptor cell R8 (Drosophila)R8UBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage7 days after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired104124851971010250161578884910850.5Browse results
SRX17760877CL:0000718 compound eye cone cellConeUBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage7 days after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired104124851971010250445291679468.5Browse results
SRX17760877FBbt:00004231 primary pigment cell (Drosophila)1_PigmentUBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage7 days after eclosionmaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired10412485197101025022806528610134.5Browse results
SRX17760878FBbt:00006009 eye photoreceptor cell (Drosophila)R1-6UBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage1 day after eclosionfemaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired570818615538028692039971187314511992.5Browse results
SRX17760878FBbt:00007250 inter-ommatidial cell (Drosophila)2,3_PigmentsUBERON:0000018 compound eyeAdult compound eyeUBERON:0000066 fully formed stage1 day after eclosionfemaleCanton-SNANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMECELL0paired57081861553802869204881141153211627Browse results

Showing 1 to 20 of 22 entries

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