Difference between revisions of "2011 Timeline (Archived)"

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[[Category:Timelines]] [[Category:Archived]]
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*[[2010_Timeline]]
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*[[2012_Timeline]]
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<br>
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{|border="1" cell spacing="0" cellpadding="5" align="center"
 
{|border="1" cell spacing="0" cellpadding="5" align="center"
 
!Project
 
!Project
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!December
 
!December
 
|-
 
|-
|[[Chemical terms in GO]]
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|[[Chemical terms in GO]]. Phase I: metabolism, binding, transport
 
|Harold, David, Tanya, Jane, Chris
 
|Harold, David, Tanya, Jane, Chris
 
|
 
|
 
|
 
|
|Meet in Hinxton to plan out strategy <font color ="red">(DONE)
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|All GOCHE terms in CHEBI <font color ="red">(DONE)
 
|
 
|
 
|
 
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|Manually Curate GO implicit ontology (GOCHE)<font color ="red">(DONE)
 
|Meet in CA to refine GOCHE, Align GOCHE with CHEBI (4 days)
 
|Implement GOCHE in GO
 
|Submit paper about aligning chemical representations in 2 ontologies
 
|
 
|
 
|
 
|-
 
|[[Cross_Product_Guide|Internal Cross Products]]
 
|David, Tanya, Jane, Chris
 
|BPxBP regulates set committed <font color ="red">(DONE)
 
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|
 
|
 
|CCxCC (part_of only set committed)<font color ="red">(DONE)
 
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|BPxBP (part_of only set committed)
 
 
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|GOCHE checked and correct <font color ="red">(DONE)
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|Meet with CHEBI in London - submit paper
 
|
 
|
 
|-
 
|-
|[[Function-Process Links]]
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|[[Chemical terms in GO]]. Phase II: improve enzyme functions, align with external databases inc. Rhea, MF-BP links for enzymes/metabolic processes
|David, Tanya
+
|Amelia, Chris, David, Jane, Tanya, Becky, Paola
|
 
|
 
|
 
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|Transporter activity- transport <font color ="red">(DONE)
 
|
 
|Transcription (David & Karen)
 
|
 
 
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|Catalytic activity-metabolic process
 
|-
 
|[[GO slim overhaul|Generic GO slim Overhaul]]
 
|Jane, Val
 
 
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|First revision <font color ="red">(DONE)
 
 
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|testing
 
 
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|Final release
 
 
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|
 
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|-
 
|-
|IMG mapping
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|Cell ontology cross-products
|needs personnel
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|Paola, Chris, Jane, Alex
 
|
 
|
 
|
 
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|
 
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|-
 
|-
|Taxon Checks
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|[[Cross_Product_Guide|Internal Cross Products]]
|Jane, Jen,Chris
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|David, Tanya, Jane, Chris, Paola, Becky
|
 
| First version of file <font color ="red">(DONE)
 
|
 
|
 
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|Paper written <font color ="red">(DONE)
 
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|-
 
|[[Virus terms|Virus-related term overhaul]]
 
|Michelle, Jane, Candace, Ariane Toussaint, Brenley, Alex & others
 
 
|
 
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|BPxCC occurs_in only <font color ="red">(DONE)
 
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|Draft terms finished <font color ="red">(DONE)
 
 
|
 
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|Terms integrated in to main ontology
 
|Virus annotation guidelines written
 
|
 
|Paper written
 
 
|
 
|
 
|
 
|
 +
|MFxCC?
 
|-
 
|-
 
|[[Signaling |Signaling overhaul]]
 
|[[Signaling |Signaling overhaul]]
|Becky, Alex, Sandra, Peter, Ruth and others
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|Jen, Becky, Alex, Sandra, Peter, Ruth and others
|
+
|define FUNCTION signaling molecule terms
|New high-level structure <font color ="red">(DONE)
 
|Clean-up of lower level terms
 
|
 
 
|
 
|
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|Redefine receptor terms and standardise parentage/children <font color ="red">(DONE)
 
|
 
|
 
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|
 +
|Adding ligand binding HAS_PART relationships to receptors
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|Cleaning up receptors that aren't functions
 
|
 
|
 
|-
 
|-
|[[Transcription |Transcription & transcription factor activity overhaul]]  
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|[[Kidney Development]]
|David, Karen
+
|David, Doug, Becky, Yasmin and community experts
 
|
 
|
 
|
 
|
 
|
 
|
 
|
 
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|Preliminary analysis <font color ="red">(DONE)
 
|Karen attends transcription meeting in Spain <font color ="red">(DONE)
 
|Ontology revisions
 
 
|
 
|
 
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|
 
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|
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|-
 
|[[Kidney Development]]
 
|David, Doug, Becky, Yasmin and community experts
 
|Meeting with experts <font color ="red">(DONE)
 
|
 
|Generic kidney terms in GO <font color ="red">(DONE)
 
|metanephros terms <font color ="red">(DONE)
 
|pronephros terms <font color ="red">(DONE)
 
|mesonephros terms
 
|fly renal terms
 
|
 
|submit paper
 
 
|
 
|
 
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 +
|Paper submitted <font color ="red">(DONE)
 
|
 
|
 
|-
 
|-
|PAMGO collaboration
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|Protein complexes in GO
|Jane, PAMGO
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|Harold
|ongoing
 
 
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 +
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|-
 
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|[[Ontology_Quality_Control|GO reasoner-based quality control]]
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|[[Neurobiology Project|Neurological processes and components]]
|David, Tanya, Chris
+
|Jane, Chris, David and Paola
 
|
 
|
 
|  
 
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|Automated QC on regulates terms <font color ="red">(implemented)
 
 
|
 
|
 
|
 
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|Automated QC on CCxCC cross-products <font color ="red">(implemented)
 
|Automated QC on BPxBP cross-products
 
|Abduced links reports
 
 
|
 
|
 +
|
 +
|Added/rearranged some synapse-related GO terms
 
|
 
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|-
 
|SF tracker items
 
|Everyone, Jane coordinates
 
 
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 +
|-
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|[[Transcription]] overhaul
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|David, Karen
 +
|Term Additions <font color ="red">(DONE)
 
|
 
|
 
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 +
|Term Obsoletions <font color ="red">(DONE)
 
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|<font color ="red">(DONE). <font color ="black">Some ongoing improvments
 
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|-
 
|-
|[[Cognition and Sensory perception]]
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|Cardiac Conduction Ontology Development
|David, Tanya, community experts
+
|Ruth, Stan, Doug, David, Tanya, Becky, Paola and community experts
 
|
 
|
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|Initial meetings with experts from The Jackson Laboratory <font color ="red">(DONE)
 
|Meeting with MGI phenotype group to coordinate effort
 
 
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|Protein complexes in GO
 
|Harold
 
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 +
|Content meeting at UCL
 
|
 
|
 +
|-
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|Apoptosis
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|Emily, Becky, Paola, Pablo and community experts
 
|
 
|
 
|
 
|
 
|
 
|
 
|
 
|
 +
|Interest meeting with experts @ EBI
 
|
 
|
 
|
 
|
 
|
 
|
 +
|Collect feedback from experts at APO-SYS meeting
 +
|Revisiting caspase-related terms (phase I) <font color ="red">(DONE)
 +
|Revisiting top-level terms and existing annotations <font color ="red">(IN PROGRESS)
 +
|Revisiting caspase-related terms (phase II) and existing annotations
 
|-
 
|-
|[[Neurobiology Project|Neurological processes]]
+
|[[Virus_terms|Viral processes]]
|TBD
+
|Jane, Philippe Le Mercier (SIB) and community experts
 
|
 
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|Terms integrated in to live GO

Latest revision as of 06:26, 8 April 2019


Project Personel January February March April May June July August September October November December
Chemical terms in GO. Phase I: metabolism, binding, transport Harold, David, Tanya, Jane, Chris All GOCHE terms in CHEBI (DONE) GOCHE checked and correct (DONE) Meet with CHEBI in London - submit paper
Chemical terms in GO. Phase II: improve enzyme functions, align with external databases inc. Rhea, MF-BP links for enzymes/metabolic processes Amelia, Chris, David, Jane, Tanya, Becky, Paola
Cell ontology cross-products Paola, Chris, Jane, Alex
Internal Cross Products David, Tanya, Jane, Chris, Paola, Becky BPxCC occurs_in only (DONE) MFxCC?
Signaling overhaul Jen, Becky, Alex, Sandra, Peter, Ruth and others define FUNCTION signaling molecule terms Redefine receptor terms and standardise parentage/children (DONE) Adding ligand binding HAS_PART relationships to receptors Cleaning up receptors that aren't functions
Kidney Development David, Doug, Becky, Yasmin and community experts Paper submitted (DONE)
Protein complexes in GO Harold
Neurological processes and components Jane, Chris, David and Paola Added/rearranged some synapse-related GO terms
Transcription overhaul David, Karen Term Additions (DONE) Term Obsoletions (DONE) (DONE). Some ongoing improvments
Cardiac Conduction Ontology Development Ruth, Stan, Doug, David, Tanya, Becky, Paola and community experts Content meeting at UCL
Apoptosis Emily, Becky, Paola, Pablo and community experts Interest meeting with experts @ EBI Collect feedback from experts at APO-SYS meeting Revisiting caspase-related terms (phase I) (DONE) Revisiting top-level terms and existing annotations (IN PROGRESS) Revisiting caspase-related terms (phase II) and existing annotations
Viral processes Jane, Philippe Le Mercier (SIB) and community experts Terms integrated in to live GO