Table 1.
Overview of the datasets used in the studies on normalization and PCA. The following information is given: accession number, number of observations, number of variables, proportion of observations in the smaller class, data type
| Study | Label/ | Num. of | Num. of | Prop. smaller | Data type | ID |
|---|---|---|---|---|---|---|
| acc. number | observ. | variables | class | |||
| Normalization | E-GEOD-10320 | 100 | 22283 | 0.42 | transcription | 1 |
| Normalization | E-GEOD-47552 | 74 | 32321 | 0.45 | transcription | 2 |
| Normalization | E-GEOD-25639 | 57 | 54675 | 0.46 | transcription | 3 |
| Normalization | E-GEOD-29044 | 54 | 54675 | 0.41 | transcription | 4 |
| Normalization | E-MTAB-57 | 47 | 22283 | 0.47 | transcription | 5 |
| Normalization | E-GEOD-19722 | 46 | 54675 | 0.39 | transcription | 6 |
| Normalization | E-MEXP-3756 | 40 | 54675 | 0.50 | transcription | 7 |
| Normalization | E-GEOD-34465 | 26 | 32321 | 0.35 | transcription | 8 |
| Normalization | E-GEOD-30174 | 20 | 54675 | 0.50 | transcription | 9 |
| Normalization | E-GEOD-39683 | 20 | 32321 | 0.40 | transcription | 10 |
| Normalization | E-GEOD-40744 | 20 | 20706 | 0.50 | transcription | 11 |
| Normalization | E-GEOD-46053 | 20 | 54675 | 0.40 | transcription | 12 |
| PCA | E-GEOD-37582 | 121 | 48766 | 0.39 | transcription | 13 |
| PCA | ProstatecTranscr | 102 | 12625 | 0.49 | transcription | 14 |
| PCA | GSE20189 | 100 | 22277 | 0.49 | transcription | 15 |
| PCA | E-GEOD-57285 | 77 | 27578 | 0.45 | DNA methyl. | 16 |
| PCA | E-GEOD-48153 | 71 | 23232 | 0.48 | proteomic | 17 |
| PCA | E-GEOD-42826 | 68 | 47323 | 0.24 | transcription | 18 |
| PCA | E-GEOD-31629 | 62 | 13737 | 0.35 | transcription | 19 |
| PCA | E-GEOD-33615 | 60 | 45015 | 0.35 | transcription | 20 |
| PCA | E-GEOD-39046 | 57 | 392 | 0.47 | transcription | 21 |
| PCA | E-GEOD-32393 | 56 | 27578 | 0.41 | DNA methyl. | 22 |
| PCA | E-GEOD-42830 | 55 | 47323 | 0.31 | transcription | 23 |
| PCA | E-GEOD-39345 | 52 | 22184 | 0.38 | transcription | 24 |
| PCA | GSE33205 | 50 | 22011 | 0.50 | transcription | 25 |
| PCA | E-GEOD-36769 | 50 | 54675 | 0.28 | transcription | 26 |
| PCA | E-GEOD-43329 | 48 | 887 | 0.40 | transcription | 27 |
| PCA | E-GEOD-42042 | 47 | 27578 | 0.49 | DNA methyl. | 28 |
| PCA | E-GEOD-25609 | 41 | 1145 | 0.49 | transcription | 29 |
| PCA | GSE37356 | 36 | 47231 | 0.44 | transcription | 30 |
| PCA | E-GEOD-49641 | 36 | 33297 | 0.50 | transcription | 31 |
| PCA | E-GEOD-37965 | 30 | 485563 | 0.50 | DNA methyl. | 32 |
ArrayExpress accession numbers have the prefix E-GEOD-, NCBI GEO accession numbers have the prefix GSE