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Table 2 List of predefined interaction types

From: The Transcription Factor Encyclopedia

Interaction type Gene Ligand
Acts on upstream signaling pathway   •
Competitive inhibition • •
Genetic • •
Indirect • •
Multimerization • •
Not specified • •
Physical: deacetylation • •
Physical: dephosphorylation • •
Physical: desumoylation • •
Physical: deubiqiutination • •
Physical: enzyme modification: acetylation • •
Physical: enzyme modification: methylation • •
Physical: enzyme modification: phosphorylation • •
Physical: enzyme modification: protein cleavage • •
Physical: enzyme modification: sumoylation • •
Physical: indirect altering posttranslational modifications • •
Physical: sequestering • •
Physical: translocation • •
Physical: ubiquitination • •
Physical: undefined direct interaction • •
Physical: with another TF •  
Physical: with another TF: complex binds DNA •  
Physical: with co-activator affecting recruitment • •
Physical: with co-repressor affecting recruitment • •
Regulatory: decreases expression of this TF • •
Regulatory: increases expression of this TF • •
Unknown • •
  1. When a protein-to-protein or protein-to-ligand is added to a TFe article either by the author or automatically from BioGRID, the author of that article has the option to define the interaction type if this information is known. To promote a standardized vocabulary for describing interaction types, a list of possible interaction types between proteins and ligands is provided to the author. This list continues to be adjusted and expanded based on need and author feedback.
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Genome Biology

ISSN: 1474-760X

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