Table 1 Details of the data sets used in this study.
| Â | No. of arrays | Â | Â | Â | Â | Â | ||
|---|---|---|---|---|---|---|---|---|
Mouse cell lines | ES | Diff | MEF | Time points for Diff | Chip type | Induction/mESC phenotype | Ref. | Acc no. |
J1 ES Cells | 3 | 3 | 0 | 5 days | Affy MOE430 | LIF removal/- | Â | Â |
V6.5 (P18) ES Cells | 3 | 15 | 0 | 6,12,18,24,36,48 hours,4,7,9,14 days | Affy MOE430 | LIF removal/RT-PCR | [51] | GSE3231 |
R1 ES Cells | 3 | 0 | 0 | NA | Affy U74Av2 | LIF removal/- | [52] | GSE2375 |
W9.5 ES Cells | 2 | 6 | 0 | 1,2,3,4,5,6 days | Affy U74Av2 | LIF removal/RT-PCR | [13] | E-MEXP-304 |
CCE ES Cells | 2 | 0 | 0 | NA | Affy U74Av2 | LIF removal/- | [53] | Info1 |
C57B1/6 ES Cells | 2 | 0 | 0 | NA | Affy U74Av2 | LIF removal/- | [44] | [54] |
E14 ES Cells | 2 | 0 | 2 | NA | Affy U74Av2 | LIF removal/- | [15] | [55] |
R1 ES Cells | 3 | 3 | 0 | 18,72 hours | Affy U74Av2 | LIF removal/RT-PCR & Functional assays | [18] | [56] |
DR4 Cells | 0 | 0 | 3 | NA | Affy MOE430 | - | [51] | GSE3232 |
NIH-3T3 Cells | 0 | 0 | 4 | NA | Affy U74Av2 | - | [57] | GSE2192 |
Primary MEFs from wild-type C57Bl/6 13.5 day embryos | 0 | 0 | 2 | NA | Affy MOE430 | - | [58] | GSE2684 |
T1/2 fibroblasts Cells | 0 | 0 | 3 | NA | Affy MOE430 | - | [51] | GSE3236 |
E14 ES Cells | 3 | 1 | 0 | 4 days | MPSS data sets – two sources | LIF removal/- | [51] | GSE1581; [59] |
CCE ES cells | 10 | 0 | 0 | NA | Whitehead-Jaenisch mouse operon 32k v4.1 | LIF removal/- | [51] | E-MEXP-501 |
R1 ES Cells | 3 | 0 | 0 | NA | NIA Agilent Mouse 44K Microarray v2.1 | LIF removal/- | [52] | E-MNIA-66 |
R1 ES Cells | 3 | 0 | 0 | NA | NIA mouse 22k Ver1 | LIF removal/- | [13] | E-MNIA-73 |
Array totals | 39 | 28 | 14 | Â | Â | Â | Â | Â |