Signaling nomenclature: Difference between revisions
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(Created page with " ==SIGNALING NOMENCLATURE== The diagram below shows how the signaling terms are linked to the 'response to' terms, and what the main signaling terms encompass: [[File:Signalin...") |
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Return to [http://wiki.geneontology.org/index.php/Signaling Signaling Main Page] | |||
==SIGNALING NOMENCLATURE== | ==SIGNALING NOMENCLATURE== | ||
[[File:Signaling_nomenclature. | [[File:Signaling_nomenclature.jpg]] | ||
'''RESPONSE TO..''' | |||
'''<font color="navy">RESPONSE TO..</font color>''' | |||
*Includes both the signaling pathway AND the downstream cellular process (e.g. transcription). | *Includes both the signaling pathway AND the downstream cellular process (e.g. transcription). | ||
*Note that ligand are included in the response. | *Note that ligand are included in the response. | ||
'''SIGNALING''' | |||
'''<font color="navy">SIGNALING</font color>''' | |||
*Begins with an active signal. Includes transport of the active signal from the signaling to the receiving cell AND signal transduction in the receiving cell. | *Begins with an active signal. Includes transport of the active signal from the signaling to the receiving cell AND signal transduction in the receiving cell. | ||
*Excludes synthesis of the signal (e.g. translation, or processing to form an active signal); these events are upstream of (and regulate) signaling. | |||
'''SIGNAL TRANSDUCTION''' | '''<font color="navy">SIGNAL TRANSDUCTION</font color>''' | ||
*Limited to events IN THE RECEIVING CELL. Begins with receptor-ligand interaction (E.g. binding) and ends with REGULATION of a downstream cellular process. | *Limited to events IN THE RECEIVING CELL. Begins with receptor-ligand interaction (E.g. binding) and ends with REGULATION of a downstream cellular process. | ||
*Note that ligands are included in signal transduction. Ligands are signals and are not signal transducers. | *Note that ligands are included in signal transduction. Ligands are signals and are not signal transducers. | ||
'''SIGNALING PATHWAY''' | |||
'''<font color="navy">SIGNALING PATHWAY</font color>''' | |||
*Specific instances of signal transduction, named after the receptor or the ligand (or both). | *Specific instances of signal transduction, named after the receptor or the ligand (or both). | ||
*Specific transcription factors are INCLUDED in the signaling pathway because they REGULATE transcription. | *Specific transcription factors are INCLUDED in the signaling pathway because they REGULATE transcription. | ||
*RNA polymerase and other basal transcription factors are NOT included in the signaling pathway because they are involved in transcription itself. | *RNA polymerase and other basal transcription factors are NOT included in the signaling pathway because they are involved in transcription itself. | ||
'''INTRACELLULAR SIGNAL TRANSDUCTION''' | |||
* | '''<font color="navy">INTRACELLULAR SIGNAL TRANSDUCTION</font color>''' | ||
*Any signaling in the intracellular region of the SIGNAL RECEIVING CELL. | |||
*Includes intracellular domains of a receptor signaling to downstream intracellular components. | |||
*Includes signaling cascades | *Includes signaling cascades | ||
'''SIGNALING CASCADE''' | |||
*A group of INTRACELLULAR signal transducers | '''<font color="navy">SIGNALING CASCADE</font color>''' | ||
* | *A group of INTRACELLULAR signal transducers where the signal is amplified | ||
*NB: Used to be used to refer to any intracellular signaling cassette/module, but this didn't reflect its use in the community, so was updated so that it's only used when a signal is amplified. | |||
[[Category:Ontology]] | |||
Latest revision as of 06:59, 8 January 2014
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SIGNALING NOMENCLATURE
RESPONSE TO..
- Includes both the signaling pathway AND the downstream cellular process (e.g. transcription).
- Note that ligand are included in the response.
SIGNALING
- Begins with an active signal. Includes transport of the active signal from the signaling to the receiving cell AND signal transduction in the receiving cell.
- Excludes synthesis of the signal (e.g. translation, or processing to form an active signal); these events are upstream of (and regulate) signaling.
SIGNAL TRANSDUCTION
- Limited to events IN THE RECEIVING CELL. Begins with receptor-ligand interaction (E.g. binding) and ends with REGULATION of a downstream cellular process.
- Note that ligands are included in signal transduction. Ligands are signals and are not signal transducers.
SIGNALING PATHWAY
- Specific instances of signal transduction, named after the receptor or the ligand (or both).
- Specific transcription factors are INCLUDED in the signaling pathway because they REGULATE transcription.
- RNA polymerase and other basal transcription factors are NOT included in the signaling pathway because they are involved in transcription itself.
INTRACELLULAR SIGNAL TRANSDUCTION
- Any signaling in the intracellular region of the SIGNAL RECEIVING CELL.
- Includes intracellular domains of a receptor signaling to downstream intracellular components.
- Includes signaling cascades
SIGNALING CASCADE
- A group of INTRACELLULAR signal transducers where the signal is amplified
- NB: Used to be used to refer to any intracellular signaling cassette/module, but this didn't reflect its use in the community, so was updated so that it's only used when a signal is amplified.