Difference between revisions of "How WormBase writes a concise description"

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Line 15: Line 15:
 
  <Gene> encodes .....;
 
  <Gene> encodes .....;
 
  '''Orthology/Similarity'''
 
  '''Orthology/Similarity'''
  <Gene> is to .....;
+
  <Gene> is <orthologous, similar) to .....;
 
  '''Process/Pathway'''
 
  '''Process/Pathway'''
  <Gene> is <required,functions,regulates,is involved in,is part of> .....;
+
  <Gene> is <required, functions, regulates, is involved in, is part of> .....;
 
  '''Genetic interaction with respect to Process or Pathway'''
 
  '''Genetic interaction with respect to Process or Pathway'''
  <Gene> interacts genetically with respect to ........;
+
  <Gene> interacts genetically with ..... in <Process, Pathway>;
 
  '''Physical interaction'''
 
  '''Physical interaction'''
 
  <Protein> physically interacts <invitro, invivo> with .......;
 
  <Protein> physically interacts <invitro, invivo> with .......;
 
  '''Molecular Function'''
 
  '''Molecular Function'''
  <Protein> has or ……… activity;
+
  <Protein> has or ……… activity in <in vitro, in vivo> assays;
 
  '''Tissue Expression'''
 
  '''Tissue Expression'''
 
  <Gene/Protein> is expressed in …………and expression in ......is (positively, negatively)  
 
  <Gene/Protein> is expressed in …………and expression in ......is (positively, negatively)  

Revision as of 22:56, 1 April 2013

Writing a concise description for a C. elegans gene

Key facts captured in a concise description:

  • Molecular identity
  • Orthology
  • Process/Pathway
  • Genetic interactions
  • Physical interactions
  • Function/Molecular Activity
  • Tissue Expression
  • Sub cellular localization


Molecular identity
<Gene> encodes .....;
Orthology/Similarity
<Gene> is <orthologous, similar) to .....;
Process/Pathway
<Gene> is <required, functions, regulates, is involved in, is part of> .....;
Genetic interaction with respect to Process or Pathway
<Gene> interacts genetically with ..... in <Process, Pathway>;
Physical interaction
<Protein> physically interacts <invitro, invivo> with .......;
Molecular Function
<Protein> has or ……… activity in <in vitro, in vivo> assays;
Tissue Expression
<Gene/Protein> is expressed in …………and expression in ......is (positively, negatively) 
regulated by   .......;
Cellular Component/sub-cellular localization 
<Protein> is localized to <sub-cellular component> or .......and expression in 
<sub-cellular  component> is <positively, negatively> regulated by ........