Table 3 Driving signatures and ontologies of gene clusters on different matrixes
From: Analysis of the interaction of extracellular matrix and phenotype of bladder cancer cells
Cluster | Driving signature | Ontology |
|---|---|---|
Matrigel_1 | J82 underexpressed | negative regulation of biological process |
Matrigel_2 | JP underexpressed | mRNA processing |
Matrigel_3 | HUC & JB overexpressed | mismatch repair; transcription factor activity |
Matrigel_4 | HUC underexpressed | anti-apoptosis; induction of apoptosis by extracellular signals; protein binding; protein serine/threonine kinase activity |
Matrigel_5 | JB underexpressed | regulation of cyclin dependent protein kinase activity; mitotic control; negative regulation of cell proliferation |
Matrigel_6 | JB & J82 underexpressed | Â |
Matrigel_7 | J82 & JP overexpressed | regulation of cyclin dependent protein kinase activity; anti-apoptosis; negative regulation of cell proliferation; positive regulation of cell proliferation; extracellular space |
Plastic_1 | JP underexpressed | induction of apoptosis |
Plastic_2 | JP underexpressed RT4 overexpressed | immune response |
Plastic_3 | TCCSUP & J82 overexpressed | negative regulation of cell cycle |
Plastic_4 | TCCSUP underexpressed | protein kinase cascade; meiotic recombination; cell cycle arrest; anti-apoptosis; induction of apoptosis by extracellular signals; protein ubiquitination; nucleotide-excision repair; protein binding; nucleus |
Plastic_5 | Â | mitotic cell cycle; chromosome |
Plastic_6 | J82 underexpressed | cell cycle arrest; nucleus |
Plastic_7 | HUC underexpressed | negative regulation of cellular process; antioxidant activity; extracellular matrix |
SISgel_1 | J82 & JP overexpressed | cell cycle; induction of apoptosis; extracellular matrix |
SISgel_2 | HUC underexpressed J82 overexpressed | regulation of cell cycle; negative regulation of cell proliferation; inflammatory response |
SISgel_3 | JB underexpressed | induction of apoptosis by extracellular signals; DNA replication; purine nucleotide biosynthesis; ligase activity, forming carbon-nitrogen bonds; cytoskeleton |
SISgel_4 | JB overexpressed | Â |
SISgel_5 | RT4 underexpressed | negative regulation of cell cycle |
SISgel_6 | J82 underexpressed | cell division; protein complex assembly |