TABLE 1.
Mined RNA-Seq and SILAC data from Vogt et al. (13) and microarray data collected by Giannakopoulou et al. (12)a
| Gene | Fold change data from Vogt et al. based on: |
Fold change data from Giannakopoulou et al. based on ΔcpxRA-WT microarrayc | Protein functiond | |
|---|---|---|---|---|
| RNA-Seqb | SILACb | |||
| htpX | 12.10 | 10.77 | −0.93 | Membrane-localized protease |
| yebE | 24.52 | 5.36 | −1.92 | Inner membrane protein with transmembrane domain |
| ygiB | 3.54 | 2.24 | −0.99 | Outer membrane protein |
| bssR | 3.72 | ND | −3.36 | Biofilm regulator involved in catabolite repression and stress response |
a
Values in bold indicate Padj < 0.05 (RNA-Seq), false discovery rate of <0.05 (SILAC), or P < 0.05 (microarray). WT, wild type; ND, not determined.
b
Wild type versus ΔcpxRA.
c
Negative values indicate higher expression in wild-type DBS100.
d
Protein function as described in UniProtKB for E. coli K-12.