Table 5.
Differential Expression Identified by RNA-seq in Blastocyst-Stage SCNT Embryos Treated with HDACi, Scriptaid, ISAHA, and SAHA after Fusion and Activation
| Comparison with statistical significance | Mean normalized reads Scriptaid | Mean normalized Reads SAHA | Mean normalized Reads ISAHA | Fold change (Log) | EdgeR p value | FDR | GenBank accession no. | Annotation |
|---|---|---|---|---|---|---|---|---|
| Scriptaid/SAHA | 529.5 | 8.5 | 93.2 | 6.0 | 2.62E-06 | 0.024 | XM_003355640.2 | PREDICTED: Sus scrofa histone deacetylase 7-like (LOC100627559) |
| Scriptaid/SAHA | 3764.8 | 21687.5 | 17554.5 | –2.5 | 9.94E-08 | 0.002 | NM_001244086.1 | Sus scrofa eukaryotic translation initiation factor 3, subunit L (EIF3L), mRNA |
| Scriptaid/SAHA | 0.0 | 60.9 | 8.4 | n/c | 4.58E-06 | 0.028 | NM_001243765.1 | Homo sapiens RAB GTPase activating protein 1 variant 4, mRNA |
| SAHA/ISAHA | 2.7 | 0.0 | 108.9 | n/c | 2.66E-06 | 0.049 | XM_001928419.2 | PREDICTED: Sus scrofa TruB pseudouridine (psi) synthase homolog 2 (Escherichia coli) (TRUB2) |
| Scriptaid/ISAHA | 153.0 | 0.0 | 19.5 | n/c | 7.88E-07 | 0.015 | XM_003130920.2 | PREDICTED: Sus scrofa stAR-related lipid transfer transfer protein 13-like (LOC100155651) |
SCNT, somatic cell nuclear transfer; HDACi, histone deacetylase inhibitor; ISAHA, 4-iodo-suberoylanilide hydroxamic acid; SAHA, suberoylanilide hydroxamic acid; FDR, false discovery rate; n/c, not calculated as log fold change cannot be determined if one sample does not contain normalized reads.