Show threadBgee databaseNov 27, 2023
Single-cell provides very fine detail in anatomical enrichment tests of gene expression, for example genes with FlyBase phenotypes of reduced fertility: https://www.bgee.org/analysis/top-anat/55574711b6b7916fddcff5af83ce10200b88cb3f
Thus with Bgee you can do tests of enrichment of cell types over #FlyCellAtlas! #TopAnat
@SIB
Show threadBgee databaseNov 27, 2023
While the #FlyCellAtlas has been originally annotated with fly-specific vocabularies (i.e., FBbt ontology), Bgee reconnects these data to species-neutral terms (i.e., from Uberon and CL ontologies) to enhance comparisons between species, while still conserving precise fly-specific terms when necessary. @SIB
Bgee databaseNov 27, 2023
We are proud to annouce Bgee 15.1 with the integration of droplet-based #scRNAseq (e.g. 10x Genomics), after full-length #singlecell (e.g. Smart-Seq) in 15.0.
We focused on #Drosophila melanogaster, with notably integration of the #FlyCellAtlas. https://www.bgee.org/ @SIB
Bgee databaseJun 22, 2023
A few days left to register with early bird rate to our #BC2 #ISBSIB workshop "Standardization of single-cell metadata: an Open Research Data initiative" with Jason Hilton of #cellxgene & David Osumi-Sutherland #EBI #SingleCell #FAIRdata #bioinformatics #biocuration #HumanCellAtlas #FlyCellAtlas https://www.bc2.ch/tutorials-workshops
Tutorials & workshops

The [BC]2 Basel Computational Biology Conference is Switzerland's main event in the domain of Computational Biology and one of the major events of its kind in Europe. The conference unites scientists from academia, industry and healthcare.

Marc Robinson-RechaviApr 26, 2023
Nancy George presents the single cell atlas at #EBI, with fly cell atlas example. #flycellatlas seems to be a very popular study case for biocuration of #singlecell data at #biocuration2023 😁
https://www.ebi.ac.uk/gxa/sc/home
Home < Single Cell Expression Atlas < EMBL-EBI

EMBL-EBI Single Cell Expression Atlas, an open public repository of single cell gene expression data

Show threadMarc Robinson-RechaviApr 25, 2023
Sagane Joye-Dind: reannotation and standardization of #FlyCellAtlas to provide a gold reference for ML training on #SingleCell #biocuration2023
Bgee databaseApr 25, 2023
New platform to access all annotations by Bgee, including those not yet released in the database, with for now a focus on #FlyCellAtlas https://annotations.bgee.org/ #biocuration2023 #singlecell #SIB