Difference between revisions of "Signaling Workshop February 2010"

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(Created page with 'Return to GOC Main Page Return to Signaling Main Page Please suggest agenda items, relevant papers and other information relating to signaling GO terms that y…')
 
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Return to [[Main_Page|GOC Main Page]]
 
Return to [[Main_Page|GOC Main Page]]
  
Return to [[Signaling Main Page]]
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Return to Signaling Main Page [[http://wiki.geneontology.org/index.php/Signaling]]
  
 
Please suggest agenda items, relevant papers and other information relating to signaling GO terms that you would like discussed at this workshop.
 
Please suggest agenda items, relevant papers and other information relating to signaling GO terms that you would like discussed at this workshop.
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{| class="wikitable" border="1"
 
{| class="wikitable" border="1"
 
|-
 
|-
!  GO annotators
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!  GO Annotators
 
!  GO Editors
 
!  GO Editors
Heart Development Experts
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Signaling Experts
 
|-
 
|-
 
|  Dr Ruth Lovering (BHF-UCL)<br/>Dr Varsha Khodiyar (BHF-UCL)<br/>Dr Sandra Orchard (Intact)<br/>Dr Peter D'Eustachio (Reactome) <br/>Dr Rachael Huntley(GOA)  <br/>Dr Val Wood (PombeBase)<br/>Dr Alex Diehl (MGI) (TBC)  
 
|  Dr Ruth Lovering (BHF-UCL)<br/>Dr Varsha Khodiyar (BHF-UCL)<br/>Dr Sandra Orchard (Intact)<br/>Dr Peter D'Eustachio (Reactome) <br/>Dr Rachael Huntley(GOA)  <br/>Dr Val Wood (PombeBase)<br/>Dr Alex Diehl (MGI) (TBC)  
 
|  Dr Rebecca Foulger (GO Editorial)<br/>Dr Midori Harris (GO Editorial)
 
|  Dr Rebecca Foulger (GO Editorial)<br/>Dr Midori Harris (GO Editorial)
|  Dr Andrea Townsend-Nicholson (UCL)<br/><br/>Dr Andrew Winter (Univeristy Edinburgh)<br/>Dr Andrew Chatr-aryamontri (University Edinburgh)  
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|  Dr Andrea Townsend-Nicholson (UCL)<br/>Dr Andrew Winter (Univeristy Edinburgh)<br/>Dr Andrew Chatr-aryamontri (University Edinburgh)  
 
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|}
  
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== Minutes ==
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== Relevant papers and other resources ==
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Biochemistry of Signal Tranduction and Regulation. Gerhard Krauss. ISBN:3-527-29241-1
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== Topics ==
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*<font color="blue">How the signaling node should be split</font color>
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**cellular vs tissue vs organismal?
 +
**pathway vs process?
 +
 
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*<font color="purple">Defining and placing:</font color>
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**signal transduction
 +
**signal transmission
 +
**signaling pathway
 +
 
 +
*<font color="green">Connecting the networks</font color>
 +
**How to connect the cell surface receptors with the intracellular 'modules' they signal through
 +
 
 +
*<font color="red">Dealing with ligand-receptor signaling that is not 1:1</font color>
  
 +
*<font color="magenta">What is a signal transducer?</font color>
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**adaptor proteins?
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**receptors?
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**ligands?
  
== Relevant papers and other resources ==
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*<font color="burgundy">Should ligand-gated ion channels be given receptor parents?</font color>
  
  
 
== SourceForge Signaling Items ==
 
== SourceForge Signaling Items ==
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 +
receptors and HAS_PART: http://sourceforge.net/tracker/?func=detail&aid=3103037&group_id=36855&atid=440764
 +
 +
receptor signaling proteins: http://sourceforge.net/tracker/?func=detail&aid=3101487&group_id=36855&atid=440764
 +
 +
purigenic receptors: http://sourceforge.net/tracker/?func=detail&aid=3088079&group_id=36855&atid=440764
 +
 +
MAPKKK cascade: http://sourceforge.net/tracker/?func=detail&aid=3085150&group_id=36855&atid=440764
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Calcium-mediated signaling; http://sourceforge.net/tracker/?func=detail&aid=3077377&group_id=36855&atid=440764
 +
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morphogen: http://sourceforge.net/tracker/?func=detail&aid=3026415&group_id=36855&atid=440764
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norrin signaling (example of non 1:1 receptor:ligand signaling) : http://sourceforge.net/tracker/?func=detail&aid=3041964&group_id=36855&atid=440764
 +
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hormone and hormone receptor signaling: http://sourceforge.net/tracker/?func=detail&aid=2974691&group_id=36855&atid=440764
 +
 +
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Connecting up receptors and intracellular modules:
 +
 +
wnt signaling via hippo cascade: http://sourceforge.net/tracker/?func=detail&aid=3032564&group_id=36855&atid=440764
 +
 +
wnt signaling via JNK cascade: http://sourceforge.net/tracker/?func=detail&aid=3023417&group_id=36855&atid=440764
 +
 +
 +
== Minutes ==
 +
  
  

Revision as of 07:09, 5 November 2010

Return to GOC Main Page

Return to Signaling Main Page [[1]]

Please suggest agenda items, relevant papers and other information relating to signaling GO terms that you would like discussed at this workshop.



Participants

GO Annotators GO Editors Signaling Experts
Dr Ruth Lovering (BHF-UCL)
Dr Varsha Khodiyar (BHF-UCL)
Dr Sandra Orchard (Intact)
Dr Peter D'Eustachio (Reactome)
Dr Rachael Huntley(GOA)
Dr Val Wood (PombeBase)
Dr Alex Diehl (MGI) (TBC)
Dr Rebecca Foulger (GO Editorial)
Dr Midori Harris (GO Editorial)
Dr Andrea Townsend-Nicholson (UCL)
Dr Andrew Winter (Univeristy Edinburgh)
Dr Andrew Chatr-aryamontri (University Edinburgh)


Where and When

Date: Wednesday 16th February and Thursday 17th February, 2011.

Where: EMBL-EBI.

Wednesday: A2-33 Thursday: Courtyard room

  • Travel instructions to the EBI, The Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD [2]
  • Please let EBI reception know you have arrived, and Rebecca will come and meet you.


Programme

Wednesday 16th February

9:15am Tea and Coffee
9:30am Welcome and introduction Rebecca
9:35am Introduction to GO Rebecca
9:50am
11am Coffee break
11:45am
12:30pm Lunch @ on-site campus restaurant
2pm
3:00 pm Coffee break
5pm Close


Thrusday 17th February

9:15am Tea and Coffee
9:30am Recap of decisions made on Day 1. Rebecca
10am
11am Coffee break
12:30pm Lunch @ on-site campus restaurant
3:00 pm Close


Relevant papers and other resources

Biochemistry of Signal Tranduction and Regulation. Gerhard Krauss. ISBN:3-527-29241-1


Topics

  • How the signaling node should be split
    • cellular vs tissue vs organismal?
    • pathway vs process?
  • Defining and placing:
    • signal transduction
    • signal transmission
    • signaling pathway
  • Connecting the networks
    • How to connect the cell surface receptors with the intracellular 'modules' they signal through
  • Dealing with ligand-receptor signaling that is not 1:1
  • What is a signal transducer?
    • adaptor proteins?
    • receptors?
    • ligands?
  • Should ligand-gated ion channels be given receptor parents?


SourceForge Signaling Items

receptors and HAS_PART: http://sourceforge.net/tracker/?func=detail&aid=3103037&group_id=36855&atid=440764

receptor signaling proteins: http://sourceforge.net/tracker/?func=detail&aid=3101487&group_id=36855&atid=440764

purigenic receptors: http://sourceforge.net/tracker/?func=detail&aid=3088079&group_id=36855&atid=440764

MAPKKK cascade: http://sourceforge.net/tracker/?func=detail&aid=3085150&group_id=36855&atid=440764

Calcium-mediated signaling; http://sourceforge.net/tracker/?func=detail&aid=3077377&group_id=36855&atid=440764

morphogen: http://sourceforge.net/tracker/?func=detail&aid=3026415&group_id=36855&atid=440764

norrin signaling (example of non 1:1 receptor:ligand signaling) : http://sourceforge.net/tracker/?func=detail&aid=3041964&group_id=36855&atid=440764

hormone and hormone receptor signaling: http://sourceforge.net/tracker/?func=detail&aid=2974691&group_id=36855&atid=440764


Connecting up receptors and intracellular modules:

wnt signaling via hippo cascade: http://sourceforge.net/tracker/?func=detail&aid=3032564&group_id=36855&atid=440764

wnt signaling via JNK cascade: http://sourceforge.net/tracker/?func=detail&aid=3023417&group_id=36855&atid=440764


Minutes

Notes

Definition Adjustments:

Obsoleted Terms:

Moved Terms:

New Terms: