A preprint describes the production of a curated resource of 29 million single cells.
library(CuratedAtlasQueryR)
md = get_metadata()
md## # Source: SQL [?? x 56]
## # Database: DuckDB v0.10.2 [vincent@Linux 6.5.0-35-generic:R 4.4.0/:memory:]
## cell_ sample_ cell_type cell_type_harmonised confidence_class
## <chr> <chr> <chr> <chr> <dbl>
## 1 AAACCTGAGAGACGAA_1 689e2fe4f… basal ce… basal_cell 1
## 2 AAACCTGAGTTGTCGT_1 689e2fe4f… basal ce… basal_cell 1
## 3 AAACCTGCAGTCGATT_1 689e2fe4f… luminal … luminal_cell_of_pro… 1
## 4 AAACCTGCAGTTCATG_1 689e2fe4f… luminal … luminal_cell_of_pro… 1
## 5 AAACCTGGTCTAAACC_1 689e2fe4f… basal ce… basal_cell 1
## 6 AAACCTGTCGTACCGG_1 689e2fe4f… basal ce… basal_cell 1
## 7 AAACCTGTCTTGTACT_1 689e2fe4f… basal ce… basal_cell 1
## 8 AAACGGGAGTACGTTC_1 689e2fe4f… basal ce… basal_cell 1
## 9 AAACGGGAGTAGGTGC_1 689e2fe4f… luminal … luminal_cell_of_pro… 1
## 10 AAACGGGAGTGGGATC_1 689e2fe4f… basal ce… basal_cell 1
## # ℹ more rows
## # ℹ 51 more variables: cell_annotation_azimuth_l2 <chr>,
## # cell_annotation_blueprint_singler <chr>,
## # cell_annotation_monaco_singler <chr>, sample_id_db <chr>,
## # `_sample_name` <chr>, assay <chr>, assay_ontology_term_id <chr>,
## # file_id_db <chr>, cell_type_ontology_term_id <chr>,
## # development_stage <chr>, development_stage_ontology_term_id <chr>, …## # Source: SQL [?? x 2]
## # Database: DuckDB v0.10.2 [vincent@Linux 6.5.0-35-generic:R 4.4.0/:memory:]
## tissue n
## <chr> <dbl>
## 1 peripheral zone of prostate 74403
## 2 transition zone of prostate 191641
## 3 bronchus 17521
## 4 renal medulla 877939
## 5 epithelial cell of alveolus of lung (cell culture) 143015
## 6 ileum 80215
## 7 prostate gland 66245
## 8 muscle of abdomen 12284
## 9 cerebellum 1368270
## 10 breast 9770
## # ℹ more rows