Annotating ligand-receptor pathways

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 TO BE REVIEWED 


General ligand-receptor pathway

  Diag-annot-ligand-recep-pwy.gif

Stimulus

  • regulation of signaling pathway

Ligand

  • signaling pathway
  • regulation of other cellular processes

Receptor

  • signaling pathway
  • regulation of other cellular processes

Signaling molecules

  • signaling pathway
  • regulation of other process(es)
  • regulation of gene-specific transcription
  • regulation of translation
  • (regulation of) transcription in response to stimulus ligand
  • (regulation of) transcription involved in other process(es)
  • (regulation of ) other cellular process(es)

Transcription factors*

  • signaling pathway
  • regulation of transcription involved in other process(es)

Target

  • cellular response to stimulus
  • other process(es)
  • regulation of other processes
  • We would not consider annotating the core transcription machinery to the downstream (other) processes that the target is involved in unless the transcription factor is gene-specific, in which case we would annotate to regulation of transcription involved in other process(es)
   Regulation of glucose transport
   Diag-annot-gluc-transport.gif

Insulin (ligand)

  • insulin receptor signaling pathway
  • regulation of glucose transport/homeostasis

Insulin receptor (receptor)

  • Insulin receptor signaling pathway
  • Regulation of glucose transport/homeostasis

IRS1, PI3K, PDK1, PKC (signaling molecules)

  • Insulin receptor signaling pathway
  • Regulation of glucose transport/homeostasis
  • Protein localization at cell surface (NTR: involved in response to insulin)

GLUT4 (target)

  • Cellular response to insulin
  • Glucose transport/homeostasis