Table 2. Exemplar genes differentially expressed in ESFs upon siRNA-mediated HAND2 knockdown.
Mean, base mean expression level. FC, log2 fold change. SE, standard error in log2 fold change. WS, Wald statistic. p-Value, Wald test p-value. Adj-p, Benjamini-Hochberg (BH) adjusted p-value. Function, function of gene inferred from Wikipathway 2019 human annotation. Association with preterm birth (PTB, HP:0001622) and premature rupture of membranes (PROM, HP:0001788) inferred from human phenotype ontology annotation*.
Table 2—source data 1. Differential expression of genes in RSA, IF and PE (in ESFs and DSCs) in relation to genes differentially expressed upon HAND2 knockdown in ESFs.
elife-61257-table2-data1.xlsx (12.3MB, xlsx)
| Gene | Mean | FC | SE | WS | p-Value | Adj-p | Function |
|---|---|---|---|---|---|---|---|
| ARNT2 | 44.47 | 1.20 | 0.28 | 4.30 | 1.73E-05 | 1.89E-03 | AHR signaling / Circadian rhythm |
| ARNTL | 42.52 | −2.95 | 0.80 | −3.67 | 2.46E-04 | 1.79E-02 | AHR signaling / Circadian rhythm |
| IL15 | 63.31 | 7.98 | 1.49 | 5.37 | 7.91E-08 | 1.49E-05 | Cell migration |
| BMP4 | 58.10 | −8.34 | 1.25 | −6.66 | 2.75E-11 | 8.28E-09 | Decidualization |
| GSK3B | 69.23 | −5.53 | 1.48 | −3.73 | 1.94E-04 | 1.49E-02 | Decidualization |
| HAND2 | 136.06 | −1.63 | 0.18 | −8.85 | 9.10E-19 | 7.64E-16 | Knocked down gene |
| CHUK | 765.77 | 0.44 | 0.14 | 3.14 | 1.67E-03 | 7.94E-02 | NFκB pathway |
| IκBKE | 9.91 | −5.41 | 1.65 | −3.27 | 1.06E-03 | 5.72E-02 | NFκB pathway |
| MYD88 | 95.02 | −0.93 | 0.26 | −3.55 | 3.88E-04 | 2.59E-02 | NFκB pathway |
| NFκBIE | 106.63 | −0.78 | 0.25 | −3.08 | 2.10E-03 | 9.53E-02 | NFκB pathway |
| RTKN2 | 50.64 | 8.02 | 1.33 | 6.02 | 1.75E-09 | 4.05E-07 | NFκB pathway |
| CRKL | 1278.85 | −0.31 | 0.09 | −3.31 | 9.21E-04 | 5.10E-02 | PTB |
| EOGT | 233.65 | −2.77 | 0.80 | −3.45 | 5.63E-04 | 3.38E-02 | PTB |
| LMNA | 773.24 | 6.97 | 1.57 | 4.44 | 8.92E-06 | 1.06E-03 | PTB; PROM |
| PEX11B | 181.31 | 10.05 | 1.12 | 9.00 | 2.28E-19 | 2.06E-16 | PTB |
| SERPINH1 | 1654.90 | −6.01 | 1.31 | −4.59 | 4.40E-06 | 5.61E-04 | PROM |
| SLC17A5 | 826.28 | 0.76 | 0.13 | 5.81 | 6.34E-09 | 1.40E-06 | PTB |
| ZMPSTE24 | 2140.67 | −0.19 | 0.05 | −4.10 | 4.10E-05 | 3.92E-03 | PTB; PROM |
*Extended list of genes associated with the pathologies of pregnancy and their expression levels can be found in Table 2—source data 1 used to generate Figures 2G and 4G. (GSE26787 = recurrent spontaneous abortion [RSA] and implantation failure [IF]; GSE91077 = ESFs and DSCs from women with preeclampsia [PE]).