Fig 1.
Raw RNA-Seq data of advanced-stage and early-stage gene expression of gene x in two cancer types.
Cancer type 1 and cancer type 2 show a gene expression fold increase of 4 and 1, respectively, from early to advanced-stage cancer.
Table 1.
The cancer cohorts were limited according to clinical or tumor stage and the primary site involved in each cancer. Patient samples were categorized in early-stage and advanced-stage, as well as the primary sites.
Fig 2.
Heatmap of uncorrected RNA-Seq data illustrating module expression within cancer clusters.
The colour bar on the left shows modules identified by WGCNA and enriched for functional pathway annotations. The rows are further composed of protein-coding genes with raw count values. Clusters of similar cancer cohorts are indicated across the top, and cancer cohorts are displayed by the colour bar along the top with the key on the right. *Primary sites abbreviations: CESC = Cervical squamous cell carcinoma; DLBCL = Diffuse Large B-cell Lymphoma; LIHC = Liver Hepatocellular Carcinoma; LUAD = Lung Adenocarcinoma; TGCT = Testicular Germ Cell Tumors.
Fig 3.
WikiPathways enrichment of gene modules detected by WGCNA from the tissue-corrected dataset using the ORA, WebGestalt.
Fig 4.
Heatmap of tissue-corrected RNA-Seq data illustrating module expression within cancer clusters.
The colour bar on the left shows modules identified by WGCNA and enriched for functional pathway annotations. The rows are further composed of protein-coding genes with expression values obtained after data normalization. Clusters of similar cancer cohorts are indicated across the top and the cancer cohort are displayed by the colour bar along the top with the key on the right. *Primary sites abbreviations: CESC = Cervical squamous cell carcinoma; DLBCL = Diffuse Large B-cell Lymphoma; LIHC = Liver Hepatocellular Carcinoma; LUAD = Lung Adenocarcinoma; TGCT = Testicular Germ Cell Tumors.
Fig 5.
Boxplot of gene MAP4K1 from cervical cancer samples categorized in the brown module by WGCNA.
The red box plot, constructed with Cluster 5 samples, shows upregulation of gene MAP4K1, while the blue box plot, constructed with Cluster 6 samples, shows downregulation of MAP4K1 gene.
Fig 6.
Kaplan-Meier of MAP4K1 gene in cervical cancer patients.
Analysis shows the correlation between normalized gene expression level and patient survival in days. Patients were divided as detected in Clusters 5 and 6 after clustering according to transcript profiling.