Table 2 Batched datasets used in this work
Dataset | Authors | Tissue | Disease | n samples | n groups | n batches | Sample filtering |
|---|---|---|---|---|---|---|---|
GSE120099 | Lo Sardo et al. [24] | Vascular smooth muscle cells | Cardiovascular diseases | 29 | 2 | 3 | Only WT cells |
GSE61491 | Sugathan et al. [25] | Neural progenitor cells | Memory disorders | 54 | 2 (3) | 2 | No |
GSE82177 | Wijetunga et al. [26] | Liver | Carcinoma, hepatocellular | 27 | 3 | 2 | No |
GSE117970 | Cassetta et al. [27] | Breast | Breast neoplasms | 53 | 3 | 5 | Only breast related samples |
GSE173078 | Hyunijin Kim et al. [28] | Periodontium | Periodontitis, gingivitis | 36 | 3 | 2 | No |
GSE162760 | Farias et al. [29] | Whole blood | Leishmaniasis, cutaneous | 128 | 2 | 6 | No |
GSE171343 | Bowles et al. [30] | IPSC derived cerebral organoids | Dementia | 36 | 3 | 3 | Only of one Type: GIH-6-C1-(delta)A02 |
GSE153380 | Alvarez-Benayas et al. [31] | Primary plasma—and myeloma cells | Muliple myeloma | 33 | 2 | 3 | Only primary cells |
GSE163214 | Procida et al. [32] | HeLa Kyoto cell line | None | 10 | 2 | 2 | No |
GSE182440 | Lim et al. [33] | Brain | Alcoholism | 24 | 2 | 2 | No |
GSE163857 | Moser et al. [34] | Microglia | 24 | 3 | 2 | Only human samples | |
GSE144736 | Roth et al. [35] | iPSC-derived patient neuroepithelium | Microcephaly | 52 | 3 | 2 | No |