Table 1 Summary of dysregulated genes in early and late stage in each of the three molecular classes. The table shows significantly dysregulated genes with a log2 fold change greater than or less than 1. In early stage, there was a greater number of dysregulated genes as compared to late stage. The log2 fold change varied from 1-13 in early stages and 1-20 in late stages. In the case of late-stage ER/PR-/HER-2+, the analysis could not be done as there was no sample of NAT to compare with. The larger number of genes were found to be downregulated in all classes.
From: Dysregulated gene subnetworks in breast invasive carcinoma reveal novel tumor suppressor genes
Molecular class | No. of genes | Upregulated | Log2_fold change range | Downregulated | Log2_fold change range | |
|---|---|---|---|---|---|---|
(Log2_fold change >1; p-value < 0.05) | (Log2_fold change <-1; p-value < 0.05) | |||||
Early stage | ER/PR+/HER-2− | 13,507 | 2274 | 1–9 | 3511 | 1–9 |
ER/PR−/HER-2+ | 7754 | 503 | 1–13 | 5420 | 1–11 | |
TNBC | 9403 | 1631 | 1–13 | 4507 | 1–11 | |
Late stage | ER/PR+/HER-2− | 10,071 | 1997 | 1–18 | 3866 | 1–13 |
ER/PR−/HER-2+ | No NAT sample | |||||
TNBC | 3488 | 58 | 1–10.9 | 2859 | 1–20 | |
