Colonocytes: gene co-expression modules

Absorptive columnar epithelium of the colon; they reclaim water and electrolytes, oxidise microbial butyrate for energy, and form the tight-junction barrier separating the microbiota from the tissue.

SCUBA's reference network for Colonocytes holds 145 gene modules covering 3,635 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.

View the Colonocytes network in SCUBA

Absorption (3)

• Colonocyte Solute Transport · 0 genes
• Colonocyte Water Transport · 0 genes
• Mature Colonocyte Identity · 0 genes

Cell cycle (4)

• Cell Cycle Machinery · 0 genes
• DNA Replication S-phase · 0 genes
• G2/M Mitotic Entry · 0 genes
• Mitotic Spindle · 0 genes

chromatin regulation & transcription (10)

• Chromatin Regulatory Response · 0 genes
• Chromatin Transcriptional Control · 0 genes
• Chromatin-Coupled Splicing · 0 genes
• Epigenetic Remodeling Inflammation · 0 genes
• P-TEFb Transcription Control · 0 genes
• Stem Cell Epigenetic · 0 genes
• SUMOylation Chromatin · 0 genes
• SWI-SNF DNA Repair · 0 genes
• TGF-β Chromatin Regulation · 0 genes
• Transcriptional Golgi Remodeling · 0 genes

Cytoskeletal (9)

• Actin Cytoskeletal Regulation · 0 genes
• Actin-Motor Organization · 0 genes
• Arp2/3 Actin Branching · 0 genes
• Brush Border Cytoskeleton · 0 genes
• Colonocyte Cytoskeletal Contractility · 0 genes
• Cytoskeletal Remodeling · 0 genes
• Inflammatory Cytoskeletal Remodeling · 0 genes
• Junction Cytoskeletal Remodeling · 0 genes
• Membrane Cytoskeletal Remodeling · 0 genes

Epithelial development (13)

• BEST4 Colonocyte Identity · 0 genes
• BEST4 Colonocyte Identity · 0 genes
• BEST4 Colonocyte Identity · 0 genes
• BEST4+ Colonocyte Identity · 0 genes
• BEST4+ Survival Signaling · 0 genes
• BMP-ID Progenitor · 0 genes
• Colonocyte Differentiation · 0 genes
• Colonocyte HOX Identity · 0 genes
• Colonocyte HOX Identity · 0 genes
• Crypt Colonocyte Identity · 0 genes
• Crypt Colonocyte Identity · 0 genes
• KLF Differentiation Response · 0 genes
• Wound Regenerative Response · 0 genes

Housekeeping (3)

• DNA Repair Housekeeping · 0 genes
• Protein Homeostasis Housekeeping · 0 genes
• Vesicular Trafficking · 0 genes

Inflammation (20)

• AP-1 Stress Survival · 0 genes
• EGFR Wound Response · 0 genes
• Epithelial Innate Immunity · 0 genes
• Hypoxia-Inflammatory Reprogramming · 0 genes
• IFN-gamma Response · 0 genes
• IFN-γ Antiviral Response · 0 genes
• IFN-γ Metabolic Reprogramming · 0 genes
• Inflamed Barrier Remodeling · 0 genes
• Inflammasome Activation · 0 genes
• Inflammasome Activation · 0 genes
• Inflammasome Pyroptosis · 0 genes
• Inflammatory Colonocyte State · 0 genes
• Inflammatory Regenerative State · 0 genes
• Membrane Repair Response · 0 genes
• MHC II Antigen Presentation · 0 genes
• NF-kB Inflammatory Response · 0 genes
• Oxidative Inflammatory Remodeling · 0 genes
• TNF Apoptosis Resistance · 0 genes
• Type I Interferon · 0 genes
• Type I Interferon Response · 0 genes

migration & adhesion (4)

• Basement Membrane Remodeling · 0 genes
• Epithelial Junction Integrity · 0 genes
• Focal Adhesion Migration · 0 genes
• Integrin Adhesion Signaling · 0 genes

Mitochondrial & OxPhos (15)

• Complex IV Assembly · 0 genes
• Fatty Acid Oxidation · 0 genes
• Mitochondrial Biogenesis · 0 genes
• Mitochondrial Biogenesis · 0 genes
• Mitochondrial Maintenance · 0 genes
• Mitochondrial Membrane Dynamics · 0 genes
• Mitochondrial OxPhos · 0 genes
• Mitochondrial Peroxisomal Metabolism · 0 genes
• Mitochondrial Ribosome · 0 genes
• Mitochondrial Ribosome · 0 genes
• Mitochondrial Translation · 0 genes
• Oxidative Phosphorylation · 0 genes
• Oxidative Phosphorylation · 0 genes
• Oxidative Phosphorylation · 0 genes
• Oxidative Phosphorylation · 0 genes

Mucus production (1)

• Mucin Glycosylation Biosynthesis · 0 genes

Nutrient metabolism (13)

• BEST4+ Lipid Metabolism · 0 genes
• Cholesterol Biosynthesis · 0 genes
• Colonocyte Detoxification · 0 genes
• ER Stress & Lipid Metabolism · 0 genes
• Fatty Acid Oxidation · 0 genes
• Glycan Precursor Biosynthesis · 0 genes
• Lipid Metabolism · 0 genes
• Lipid Xenobiotic Metabolism · 0 genes
• Mature Colonocyte Metabolism · 0 genes
• Metabolic Homeostasis · 0 genes
• mTOR Lysosomal Sensing · 0 genes
• Nuclear Receptor Signaling · 0 genes
• PPARG Lipid Metabolism · 0 genes

Protein processing & ER (13)

• CCT Chaperonin Folding · 0 genes
• Chaperone Proteostasis · 0 genes
• ER Glycoprotein Folding · 0 genes
• ER Protein Processing · 0 genes
• ER Stress & Trafficking · 0 genes
• ER Stress & UPR · 0 genes
• ER-Golgi Trafficking · 0 genes
• ER-Golgi Trafficking · 0 genes
• Glycosylation & Membrane · 0 genes
• Proteasome Activity · 0 genes
• Proteasome Assembly · 0 genes
• Ubiquitin-Proteasome System · 0 genes
• Unfolded Protein Response · 0 genes

RNA processing & translation (13)

• eIF3 Translation Initiation · 0 genes
• Pre-mRNA Splicing · 0 genes
• Ribosome Biogenesis · 0 genes
• Ribosome Biogenesis · 0 genes
• Ribosome Biogenesis · 0 genes
• RNA Processing Translation · 0 genes
• RNA Splicing Processing · 0 genes
• RNA Splicing Regulation · 0 genes
• RNA-binding & Splicing · 0 genes
• snRNP Splicing · 0 genes
• Spliceosome Assembly · 0 genes
• Splicing Regulation · 0 genes
• Transcription-Coupled Splicing · 0 genes

Secretion (3)

• Endosomal Vesicle Trafficking · 0 genes
• GPCR Peptide Signaling · 0 genes
• Secretory Differentiation · 0 genes

Senescence & shedding (11)

• Cellular Senescence · 0 genes
• Colonocyte Senescence · 0 genes
• Colonocyte Senescence · 0 genes
• Colonocyte Senescence · 0 genes
• ESCRT Membrane Remodeling · 0 genes
• Senescent Cell Death · 0 genes
• Senescent Colonocyte Differentiation · 0 genes
• Senescent Colonocyte Identity · 0 genes
• Senescent Colonocyte Transcription · 0 genes
• Senescent Stress Signaling · 0 genes
• Senescent Surface Identity · 0 genes

Stress (9)

• DNA Damage Response · 0 genes
• Hypoxic Oxidative Stress · 0 genes
• Inflammatory Stress Response · 0 genes
• Integrated Stress Response · 0 genes
• Lysosomal Autophagy Trafficking · 0 genes
• Lysosomal Lipid Stress · 0 genes
• Metallothionein Response · 0 genes
• Stress RNA Methylation · 0 genes
• Ubiquitin Signaling Response · 0 genes

Technical artifact (1)

• Dissociation Stress Artifact · 0 genes