The Fly Cell Atlas: single-cell transcriptomes of the entire adult Drosophila - 10x dataset

Experiment ID:ERP129698
Technology:scRNA-Seq
Description:Single-cell technologies have ushered in a new era for Drosophila research, allowing researchers to obtain transcriptomes for all stable cell types and dynamic cell states. Here we present the first release of the adult Fly Cell Atlas (FCA), which includes 580k cells from 15 individually dissected sexed tissues, as well as from the entire head and body. We annotated more than 250 distinct cell types across all tissues. Few cell types were uniquely detected in the entire head and body samples, suggesting high cell-type saturation. We provide an in-depth analysis of gene signatures and transcription factor combinations, as well as sexual dimorphism, across the whole animal. Finally, we studied cell type lineages that are shared between tissues, such as blood cells and muscle cells, allowing the retrieval of rare cell types and tissue- specific subtypes. This atlas provides a valuable resource for the entire Drosophila community as a reference to study genetic perturbations and disease models at single-cell resolution.
Cell count:313,564
DOI:10.1126/science.abk2432
Source:ERP129698  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
ERX5671923FBbt:00013774 distal medullary amacrine neuron Dm8 (Drosophila)distal medullary amacrine neuron Dm8UBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired11495574241081792792001629325.5Browse results
ERX5671923FBbt:00047836 ensheathing glial cellensheathing glial cellUBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired11495574241081792792002469910Browse results
ERX5671923FBbt:00047841 adult astrocyte-like glial celladult reticular neuropil associated glial cellUBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired11495574241081792792002229895Browse results
ERX5671923FBbt:00049916 transmedullary neuron Tm29transmedullary neuron Tm29UBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired1149557424108179279200627898.5Browse results
ERX5671923FBbt:00058205 adult cholinergic neuronNAUBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired114955742410817927920049811159.5Browse results
ERX5671923FBbt:00100000 Johnston organ neuron (Drosophila)Johnston organ neuronUBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired11495574241081792792001979735Browse results
ERX5671923FBbt:00100214 dopaminergic PAM neuron (Drosophila)dopaminergic PAM neuronUBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired11495574241081792792001208939.5Browse results
ERX5671923FBbt:00100247 gamma Kenyon cell (Drosophila)gamma Kenyon cellUBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired114955742410817927920030710145Browse results
ERX5671923FBbt:00100249 alpha'/beta' Kenyon cell (Drosophila)NAUBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired114955742410817927920031910256Browse results
ERX5671923FBbt:00100482 lobula columnar neuron Lcn10 (Drosophila)lobula columnar neuron LC10UBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired1149557424108179279200848492.5Browse results
ERX5671923FBbt:00100501 adult cell body glial cell (Drosophila)adult brain cell body glial cellUBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired1149557424108179279200277615.5Browse results
ERX5671923FBbt:00100506 adult brain perineurial glial cell (Drosophila)adult brain perineurial glial cellUBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired11495574241081792792002079990Browse results
ERX5671923FBbt:00100525 adult optic chiasma glial cell (Drosophila)adult optic chiasma glial cellUBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired11495574241081792792001048777Browse results
ERX5671923FBbt:00110065 lamina wide-field cell Lawf2 (Drosophila)lamina wide-field 2 neuronUBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired11495574241081792792001218683.5Browse results
ERX5671923FBbt:00110074 transmedullary neuron Tm5c (Drosophila)transmedullary neuron Tm5cUBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired1149557424108179279200858547Browse results
ERX5671923FBbt:00110135 distal medullary amacrine neuron Dm1-5 (Drosophila)distal medullary amacrine neuron Dm10UBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired1149557424108179279200918420Browse results
ERX5671923FBbt:00111271 distal medullary amacrine neuron Dm9distal medullary amacrine neuron Dm9UBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired1149557424108179279200838280Browse results
ERX5671923FBbt:00111273 distal medullary amacrine neuron Dm12distal medullary amacrine neuron Dm12UBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired1149557424108179279200407844Browse results
ERX5671923FBbt:00111282 proximal medullary amacrine neuron Pm4proximal medullary amacrine neuron Pm4UBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired1149557424108179279200938543.5Browse results
ERX5671923FBbt:00111285 medullary intrinsic neuron Mi15medullary intrinsic neuron Mi15UBERON:6000004 insect headheadFBdv:00007080 day 5 of adulthood (fruit fly)5mixedw1118NANADrosophila melanogasterNA10X Genomics V3Illumina NovaSeq 6000THREE_PRIMENUCLEUS0paired11495574241081792792001308940Browse results

Showing 41 to 60 of 1518 entries