Table 2 Summary of the experimental scRNA-seq datasets used for hyperparameter optimisation and method evaluation
From: Autoencoder-based cluster ensembles for single-cell RNA-seq data analysis
Repository | Source | # cell | # class | Ref. | Protocol | Purpose |
|---|---|---|---|---|---|---|
GSE60361 | Mouse cortex | 3005 | 7 | [33] | SMARTer | Optimisation |
GSE45719 | Mouse embryogenesis | 300 | 8 | [34] | SMART-seq2 | Optimisation |
GSE67835 | Adult and fetal human brain | 466 | 8 | [35] | SMARTer | Optimisation |
E_MTAB_3929 | Human embryogenesis | 1529 | 5 | [36] | SMART-seq2 | Optimisation |
GSE84371 | Mouse neurons | 1402 | 8 | [37] | Smart-seq2 | Evaluation |
GSE82187 | Mouse striatum | 705 | 10 | [38] | SMARTer & Smart-seq2 | Evaluation |
Broad portal | Human archived brain | 14963 | 19 | [39] | Drop-seq | Evaluation |
Broad portal | Mouse archived brain | 13313 | 26 | [39] | Drop-seq | Evaluation |