SCUBA

Gamma-delta T cells: gene co-expression modules

Unconventional T cells with γδ receptors and little MHC restriction; enriched at epithelial surfaces, they sense stress ligands and respond immediately with cytotoxicity and IL-17.

SCUBA's reference network for Gamma-delta T cells holds 187 gene modules covering 3,937 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.

Cell cycle (8)

Cell Cycle Entry · 13 genes
DNA Replication Licensing · 11 genes
G1/S Entry · 24 genes
Mitosis Execution · 21 genes
Mitotic Spindle · 20 genes
Replication-Coupled Histones · 8 genes
S-phase Proliferation · 15 genes
S-phase Replication · 22 genes

Cytoskeletal (5)

Actin Cytoskeletal Regulation · 34 genes
Actin Remodeling · 19 genes
Actin-based Motility · 22 genes
Immune Synapse Cytoskeleton · 17 genes
Rho GTPase Signaling · 23 genes

cytotoxicity (8)

Cytotoxic Effector Actin · 23 genes
Cytotoxic Effector Program · 17 genes
Cytotoxic Effector Program · 23 genes
Effector IFN Response · 18 genes
NK Receptor Expression · 13 genes
NK-like Mature gd-T · 23 genes
NKG2D Cytotoxic Activation · 20 genes
XCL1/XCL2 Cytotoxic Activation · 15 genes

DNA/chromatin regulation (23)

Centrosome Organization · 32 genes
Chromatin Architecture · 18 genes
Chromatin Epigenetic Regulation · 26 genes
Chromatin Epigenetic Regulation · 33 genes
Chromatin Epigenetic Regulation · 24 genes
Chromatin Epigenetic Regulation · 27 genes
Chromatin Remodeling · 26 genes
Chromatin Remodeling Signaling · 32 genes
Chromatin Repression · 17 genes
Chromatin TF Regulation · 19 genes
Chromatin-Splicing Regulation · 22 genes
Circadian Clock · 14 genes
DNA Damage Repair · 24 genes
DNA Damage Repair · 17 genes
DNA Damage Response · 26 genes
DNA Damage Ubiquitin · 16 genes
Histone Demethylase Program · 13 genes
Polycomb Transcriptional Control · 26 genes
Stress Epigenetic Silencing · 17 genes
Transcription-RNA Coupling · 35 genes
Transcriptional Coactivation · 21 genes
Transcriptional Elongation Control · 28 genes
Transcriptional Repressor Complex · 23 genes

Exhaustion (4)

Housekeeping (16)

Anabolic Activation Response · 35 genes
Autophagy & Trafficking · 20 genes
Basal Cell Maintenance · 18 genes
Basal Lipid Metabolism · 15 genes
Cellular Homeostasis · 30 genes
Cholesterol Biosynthesis · 10 genes
DNA Repair Housekeeping · 19 genes
Endosomal Vesicle Trafficking · 20 genes
General Housekeeping Mixed · 13 genes
Glycolysis & Proteasome · 20 genes
Lymphocyte Homeostatic Regulation · 17 genes
Metabolic Housekeeping · 21 genes
Nuclear Pore Organization · 23 genes
Protein Homeostasis Chaperones · 15 genes
T Cell Homeostasis · 20 genes
Vesicular Trafficking · 19 genes

Immune regulation (8)

Inflammation (9)

Antiviral ISG Response · 15 genes
Effector Cytokine Secretion · 34 genes
IFN-gamma Receptor Signaling · 12 genes
Innate Stress Signaling · 32 genes
Interferon Antiviral Response · 23 genes
Interferon Stimulated Genes · 23 genes
Interferon Stimulated Response · 15 genes
NF-κB Activation · 22 genes
γδT17 Effector · 19 genes

migration & adhesion (4)

Mitochondrial & OxPhos (14)

Protein processing & ER (12)

Chaperone Protein Folding · 25 genes
ER Antigen Processing · 18 genes
ER Glycoprotein Quality Control · 18 genes
ER Protein Biogenesis · 19 genes
ER Protein Translocation · 21 genes
ER-Lysosomal Trafficking · 21 genes
Lysosomal Biogenesis · 23 genes
Proteasome Complex · 13 genes
Proteostasis/Chaperonin · 22 genes
Ubiquitin Protein Quality · 22 genes
Ubiquitin-p53 Regulation · 13 genes
Ubiquitin-Proteasome Trafficking · 17 genes

RNA processing & translation (23)

hnRNP Splicing Complex · 14 genes
Metabolic-Translational Coupling · 29 genes
mRNA Decay Regulation · 18 genes
mRNA Decay Trafficking · 13 genes
mRNA Splicing · 23 genes
mRNA Splicing · 22 genes
mRNA Splicing & Trafficking · 28 genes
mRNA Splicing Processing · 27 genes
mRNA Splicing Regulation · 19 genes
mRNA Splicing Regulation · 27 genes
Post-transcriptional RNA Regulation · 9 genes
Pre-mRNA Splicing · 17 genes
Pre-mRNA Splicing · 20 genes
RNA Binding/Splicing · 27 genes
RNA Processing · 21 genes
RNA Splicing Nuclear · 19 genes
RNA Splicing Processing · 25 genes
RNA Surveillance/NMD · 17 genes
snRNP Splicing · 25 genes
Spliceosome Regulation · 24 genes
SR Kinase & RNA · 26 genes
Translation & Proteostasis · 24 genes
Translation Initiation · 27 genes

Stress (13)

Activation Stress Response · 21 genes
AP-1 Immediate Early Response · 34 genes
Autophagy Stress Response · 20 genes
Death Receptor Apoptosis · 13 genes
ER Proteotoxic Stress · 22 genes
ER Stress Response · 22 genes
ER/Osmotic Stress · 16 genes
Heat Shock Response · 22 genes
Heat Stress Apoptotic · 14 genes
Hypoxia Stress Response · 25 genes
JNK/MAPK Stress Signaling · 28 genes
Osmotic Stress Response · 15 genes
Redox Stress Response · 14 genes

T cell maturation (19)

EOMES Effector Program · 34 genes
gd T Cell Identity · 15 genes
Immature T Cell · 16 genes
IRF4 T-cell Activation · 23 genes
Naive T cell quiescence · 19 genes
Naïve T Cell · 16 genes
Naïve T Cell State · 28 genes
NK-like Terminal Differentiation · 8 genes
NK/T Cell Identity · 33 genes
PLZF Innate-like Effector · 10 genes
T Cell Calcium-Cytoskeletal · 14 genes
T Cell Development · 13 genes
T Cell Identity Program · 14 genes
T Cell Maturation · 25 genes
T Cell Survival · 22 genes
T cell Survival · 35 genes
T-bet Effector Differentiation · 24 genes
Terminal T Differentiation · 19 genes
γδ T Cell Identity · 16 genes

TCR Signaling (17)

Tissue residence (4)