2012 Timeline: Difference between revisions
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|Amelia, Chris, David, Jane, Tanya, Becky, Paola | |Amelia, Chris, David, Jane, Tanya, Becky, Paola | ||
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*Manual: Identify MF reaction terms that can't be expressed using has_input: CHEBI:XXX / has_output: CHEBI:XXX; manually research and review | |||
*Automated: set up or augment script to produce has_input/has_output data for all rxns with RHEA xrefs (RHEA = EC rxns with CHEBI terms) | |||
*Automated: create system to check GO rxns are up to date wrt RHEA, EC, MetaCyc data. Alert on clashes between sources. | |||
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*Manual: continue review of non-conformant MF rxn terms | |||
*Automated: continue development of system to check GO rxns are up to date wrt RHEA, EC, MetaCyc data. Look at incorporating KEGG and UM-BBD data (no bulk downloads available) | |||
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*Manual: continue review of non-conformant MF rxn terms | |||
*Automated: continue development of GO rxn update system. | |||
*Automated: pull in MetaCyc pathway data - how to fit with GO BP? | |||
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*Manual: continue review of non-conformant MF rxn terms | |||
*Automated: look at other p'way databases (esp. those with BioPAX output) - fit with GO BP? | |||
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Revision as of 13:11, 7 November 2011
Project | Personnel | January | February | March | April | May | June | July | August | September | October | November | December |
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Chemical terms in GO. Phase I: metabolism, binding, transport | Harold, David, Tanya, Jane, Chris, Becky, Paola | Fix GO/goche misalignments - add CHEBI xps to GO | |||||||||||
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 |
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Chemical terms in GO. Phase III: biological roles | Chris, David, Jane, Tanya, Becky, Paola | ||||||||||||
Cell ontology cross-products | Paola, Chris, Jane, Alex | Review and improve biological_process_xp_cell | Make TG templates | Incorporate cell xps into GO | |||||||||
Internal Cross Products | David, Tanya, Jane, Chris, Paola, Becky | ||||||||||||
Behaviour: GO/NBO integration | Jane, Chris, George, Janna, David OS | Survey ontology consumers to examine the implications of including non-GO ids in GO | Generate file of mismatches between GO and NBO | Fix GO (and NBO) so they align | Replace GO ids with equivalent NBO ids and definitions | ||||||||
Signaling overhaul | Becky, Alex, Sandra, Peter, Ruth and others | Representing GPCR and second messenger signaling | Ligand-gated ion channels that signal | Define intracellular signaling start and stops | Ligand-mediated signaling pathways and receptor-mediated signaling pathways | ||||||||
Neurological processes and components | Jane, Chris, David and Paola | ||||||||||||
Cardiac Conduction Ontology Development | Ruth, Stan, Doug, David, Tanya, Becky, Paola and community experts | ||||||||||||
Apoptosis | Emily, Becky, Paola, Pablo and community experts | Revisiting second-level terms: feedback from experts | Revisiting existing annotations to second-level terms | Final overall structure: sanity checks and completion | Write paper | ||||||||
Viral processes | Jane, Philippe Le Mercier (SIB) and community experts |