Intestinal stem cells and transit amplifying cells: gene co-expression modules

Crypt-base stem cells and their rapidly dividing transit-amplifying progeny; sustained by Wnt and Notch signals, they renew the entire epithelium every few days and regenerate it after injury.

SCUBA's reference network for Intestinal stem cells and transit amplifying cells holds 96 gene modules covering 1,084 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 Intestinal stem cells and transit amplifying cells network in SCUBA

absorptive cell development (7)

• Absorptive Colonocyte Differentiation · 0 genes
• Absorptive Colonocyte Function · 0 genes
• Absorptive Colonocyte Identity · 0 genes
• BEST4+ TA · 0 genes
• Colonocyte Differentiation · 0 genes
• Distal Colonocyte Identity · 0 genes
• Mature Colonocyte · 0 genes

Antiviral (2)

• IFN-gamma Response · 0 genes
• MHC-I Antigen Presentation · 0 genes

Cell cycle (13)

• Centrosome Biogenesis · 0 genes
• DNA Repair S-phase · 0 genes
• DNA Replication Fork · 0 genes
• DNA Replication/Repair · 0 genes
• G2/M Kinase · 0 genes
• G2/M Mitosis · 0 genes
• Lagging Strand Synthesis · 0 genes
• Mitotic Spindle · 0 genes
• Mitotic Spindle · 0 genes
• Replication Initiation · 0 genes
• Replication Stress Response · 0 genes
• S-phase Progression · 0 genes
• S/G2 Transition · 0 genes

chromatin regulation & transcription (5)

• Chromatin RNA Processing · 0 genes
• DNA Damage Repair · 0 genes
• MYB Progenitor Transcription · 0 genes
• Nuclear Architecture · 0 genes
• P-TEFb Transcriptional Pause · 0 genes

Cytoskeletal (4)

• Actin Cytoskeletal Dynamics · 0 genes
• Cytoskeletal Housekeeping · 0 genes
• Cytoskeletal Junction · 0 genes
• Thymosin-S100 Cytoskeletal · 0 genes

Epithelial development (3)

• EGFR-mediated Repair · 0 genes
• Progenitor Eph Activation · 0 genes
• Regenerative Epithelial · 0 genes

Housekeeping (7)

• Epithelial Lipid Homeostasis · 0 genes
• Epithelial Metabolic Homeostasis · 0 genes
• Housekeeping Transcription · 0 genes
• Metabolic Housekeeping · 0 genes
• Metabolic Housekeeping · 0 genes
• Metabolic Housekeeping · 0 genes
• Nuclear Housekeeping · 0 genes

Inflamation (8)

• Epithelial Barrier Innate Immunity · 0 genes
• Epithelial Oxidative Stress · 0 genes
• Inflammatory Colonocyte · 0 genes
• Inflammatory Lipid Stress · 0 genes
• MHC-II Antigen Presentation · 0 genes
• NF-κB Chemokine Response · 0 genes
• NF-κB Secondary Response · 0 genes
• STAT3 Epithelial Remodeling · 0 genes

migration & adhesion (2)

• EGFR Wound Migration · 0 genes
• Epithelial Cell Adhesion · 0 genes

Mitochondrial & OxPhos (13)

• Mitochondrial Biogenesis · 0 genes
• Mitochondrial Complex I · 0 genes
• Mitochondrial Cristae Organization · 0 genes
• Mitochondrial Fatty Acid Oxidation · 0 genes
• Mitochondrial Membrane · 0 genes
• Mitochondrial Metabolism · 0 genes
• Mitochondrial OxPhos · 0 genes
• Mitochondrial Stress Adaptation · 0 genes
• Mitochondrial Sulfur Detox · 0 genes
• Oxidative Phosphorylation · 0 genes
• Oxidative Phosphorylation · 0 genes
• Oxidative Phosphorylation · 0 genes
• TCA Cycle OxPhos · 0 genes

Protein processing & ER (12)

• Co-translational Chaperoning · 0 genes
• ER Membrane Organization · 0 genes
• ER Protein Folding · 0 genes
• ER Protein Processing · 0 genes
• ER Protein Trafficking · 0 genes
• ER Protein Translocation · 0 genes
• ER Stress UPR · 0 genes
• ER Stress UPR · 0 genes
• ER Targeting & Trafficking · 0 genes
• Golgi Secretory Processing · 0 genes
• Protein Glycosylation · 0 genes
• TRiC Chaperonin Complex · 0 genes

RNA processing & translation (7)

• Nuclear RNA Transport · 0 genes
• RNA Processing Translation · 0 genes
• snRNP RNA Processing · 0 genes
• snRNP Splicing Complex · 0 genes
• Splicing Regulation · 0 genes
• SUMOylation & Splicing · 0 genes
• Translation Initiation · 0 genes

Stemness (4)

• Intestinal Progenitor Identity · 0 genes
• Intestinal Stem Cell Identity · 0 genes
• LGR5+ Stem Cell · 0 genes
• Quiescent Progenitor State · 0 genes

Stress (8)

• Antimicrobial Barrier Stress · 0 genes
• Epithelial Stress Repair · 0 genes
• Glycolytic Barrier Stress · 0 genes
• Heat Shock Response · 0 genes
• Hypoxia Response · 0 genes
• Immediate Early Response · 0 genes
• Oxidative Inflammatory Stress · 0 genes
• S100 Cytoskeletal Stress · 0 genes

WNT pathway (1)

• WNT Progenitor Quiescence · 0 genes