Colorectal carcinoma: gene co-expression modules

Malignant epithelial cells arising from colorectal crypts through stepwise APC, KRAS, and TP53 lesions; they show aberrant Wnt activity, invade the stroma, and remodel the immune microenvironment.

SCUBA's reference network for Colorectal carcinoma holds 91 gene modules covering 1,016 genes. Each module is a group of genes that rise and fall together across these cells, annotated with the biological process it most likely represents.

Ankiosis & adhesion (4)

• Epithelial Cell Adhesion · 0 genes
• Epithelial Cell Junctions · 0 genes
• Integrin Adhesion Signaling · 0 genes
• Tight Junction Integrity · 0 genes

Cell cycle (8)

• DNA Replication · 0 genes
• G2/M Entry & PLK1 · 0 genes
• G2/M Transition · 0 genes
• Kinetochore Assembly · 0 genes
• Late Mitosis/Cytokinesis · 0 genes
• Metaphase-Anaphase Transition · 0 genes
• Mitotic Spindle · 0 genes
• Nucleotide Biosynthesis · 0 genes

Cytoskeletal (3)

• Actin Cytoskeleton Regulation · 0 genes
• Epithelial Junctional Cytoskeleton · 0 genes
• Epithelial S100/Keratin · 0 genes

Dedifferentiation & EMT (2)

• Colonocyte Differentiation · 0 genes
• Gastric Mucous Metaplasia · 0 genes

DNA/chromatin regulation (5)

• Chromatin & DNA Repair · 0 genes
• Chromatin-coupled Splicing · 0 genes
• Nuclear Assembly · 0 genes
• RNA Pol I/III Transcription · 0 genes
• Transcriptional Ubiquitin Regulation · 0 genes

GF response (4)

• AP-1 IEG Activation · 0 genes
• IGF2 Growth Signaling · 0 genes
• STAT3 Oncogenic Signaling · 0 genes
• WNT Stem Cell · 0 genes

Glycolysis & Warburg effect (2)

• Aerobic Glycolysis Warburg · 0 genes
• Ceramide Lipid Metabolism · 0 genes

Housekeeping (20)

• Colonocyte Differentiation · 0 genes
• Core Cellular Machinery · 0 genes
• ER Lumenal Homeostasis · 0 genes
• ER Membrane Biogenesis · 0 genes
• ER Protein Processing · 0 genes
• ER Protein Processing · 0 genes
• ER Protein Processing · 0 genes
• ER-Golgi Membrane Maintenance · 0 genes
• Goblet Cell Secretory · 0 genes
• Golgi-Nuclear Organization · 0 genes
• Housekeeping Mixed · 0 genes
• Housekeeping Proteostasis · 0 genes
• Metabolic Enzyme Housekeeping · 0 genes
• Proteasome Degradation · 0 genes
• Proteasome Ubiquitin Degradation · 0 genes
• Protein Homeostasis · 0 genes
• SUMOylation Pathway · 0 genes
• TRiC Chaperonin Complex · 0 genes
• TRiC/CCT Core Complex · 0 genes
• Ubiquitin-Proteasome System · 0 genes

Hypoxia (1)

• Hypoxia Response · 0 genes

Immune evasion (2)

• Complement Immune Evasion · 0 genes
• IFN-γ Antigen Presentation · 0 genes

Inflammatory (3)

• Acute Phase Inflammatory · 0 genes
• NF-κB Chemokine Response · 0 genes
• Type I Interferon · 0 genes

Invasion & metastses (1)

• ECM Invasion Program · 0 genes

Mitochondrial & OxPhos (10)

• Mitochondrial Assembly · 0 genes
• Mitochondrial Beta-Oxidation · 0 genes
• Mitochondrial Import & Complex I · 0 genes
• Mitochondrial OXPHOS · 0 genes
• Mitochondrial Ribosome · 0 genes
• Mitochondrial Ribosome · 0 genes
• Mitoribosome Biogenesis · 0 genes
• Oxidative Phosphorylation ETC · 0 genes
• OxPhos & Mito Import · 0 genes
• OxPhos Complex III/IV · 0 genes

RNA processing & translation (11)

• eIF3 Translation Initiation · 0 genes
• hnRNP RNA Processing · 0 genes
• Post-transcriptional Regulation · 0 genes
• Pre-mRNA Splicing · 0 genes
• Pre-mRNA Splicing · 0 genes
• pre-mRNA Splicing · 0 genes
• Ribosome Biogenesis · 0 genes
• RNA Processing & Biogenesis · 0 genes
• RNA Splicing · 0 genes
• RNA-protein Transport · 0 genes
• Translation Initiation Factors · 0 genes

Stress (5)

• Epithelial Oxidative Stress · 0 genes
• ER Protein Folding UPR · 0 genes
• Growth Arrest Senescence · 0 genes
• Metabolic Stress Response · 0 genes
• Metallothionein Response · 0 genes

Technical artifact (1)

• Dissociation Stress Response · 0 genes

Vesicular traficking (9)

• Actin-Vesicle Coupling · 0 genes
• Clathrin-mediated Endocytosis · 0 genes
• Endolysosomal Autophagy · 0 genes
• Endosomal Vesicle Recycling · 0 genes
• ER Quality Control ERAD · 0 genes
• ER Signal Peptide Processing · 0 genes
• ER-Golgi Trafficking · 0 genes
• Lysosomal Autophagy Membrane · 0 genes
• Lysosomal Proteolysis ECM · 0 genes