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| − | ''' | + | = The Arthropod Anatomy Ontology wiki = |
| + | |||
| + | == Who are we? == | ||
| + | |||
| + | We are a consortium of arthropod anatomy ontologists, working together to improve and harmonise our individual, phylogenetically-specific anatomy ontologies and to build a common arthropod anatomy ontology. This is voluntary effort, facilitated by the NSF-funded [http://www.phenotypercn.org/ Phenotype Research Co-ordination Network] | ||
| + | |||
| + | === Members === | ||
| + | |||
| + | * Andy Deans (Penn State, Hymenoptera Anatomy Ontology project) | ||
| + | * David Osumi-Sutherland (Drosophila anatomy ontology) | ||
| + | * Jo Wolfe (interested in arthropod evolution) | ||
| + | * Peter Midford (NESCent/Phenoscape) | ||
| + | * Stefan Richter (University of Rostock, circulatory system) | ||
| + | * Aaron Smith (Arizona State University; systematics of Coleoptera | ||
| + | * Matt Yoder (Illinois Natural History Survey, University of Illinois; Hymenoptera Anatomy Ontology project) | ||
| + | * Nico Franz (Coleoptera) | ||
| + | * Aaron Smith (Coleoptera - in particular evolution of defensive glands) | ||
| + | * Pantelis Topalis (mosquito anatomy ontology.) | ||
| + | * Cassandra Extavour (internal anatomy of arthropods) | ||
| + | * István Mikó (Hymenoptera; Musculature - and its relationship to sclerites (insertions sites)) | ||
| + | * Martín Ramírez (spider anatomy ontology) | ||
| + | * Paul Selden (spiders, paleontology) | ||
| + | * Shaun Winterton (Neoptera) | ||
| + | |||
| + | === Ontologies === | ||
| + | |||
| + | * '''[http://code.google.com/p/arthropod-anatomy-ontology/ Common arthropod anatomy ontology]''' | ||
| + | * [http://obofoundry.org/cgi-bin/detail.cgi?id=fly_anatomy Drosophila Anatomy Ontology] | ||
| + | * [http://obofoundry.org/cgi-bin/detail.cgi?id=fly_development Drosophila Development Ontology] | ||
| + | * [http://obofoundry.org/cgi-bin/detail.cgi?id=mosquito_anatomy Mosquito Anatomy Ontology] | ||
| + | * [http://obofoundry.org/cgi-bin/detail.cgi?id=spider_anatomy Tick Anatomy Ontology] | ||
| + | * [http://obofoundry.org/cgi-bin/detail.cgi?id=spider_anatomy Spider Anatomy Ontology] | ||
| + | * [http://hymglossary.tamu.edu/projects/32/public/ontology/ Hymenoptera Anatomy Ontology] | ||
| + | * Coleoptera Anatomy Ontology | ||
| + | * Neoptera Anatomy Ontology | ||
| + | * [http://www.frontiersinzoology.com/content/7/1/29 Glossary of invertebrate neuro-anatomy terms] | ||
| + | |||
| + | == AIMS (draft) == | ||
| + | |||
| + | === Ultimate Aim === | ||
| + | |||
| + | '''A unified structure for all arthropod anatomy ontologies - with all ontologies conforming to a general upper ontology.''' | ||
| + | |||
| + | * This structure should be scaleable, consistent and allow flexible queries that include those identified as a priority for the group. | ||
| + | * Terms should be easy to find and have clear definitions, linked to the relevant literature. | ||
| + | |||
| + | |||
| + | === Short to medium term aims === | ||
| + | |||
| + | * '''A basic classification and partonomy for gross arthropod body parts (segments, tagma, appendages, appendage segments)''' Note - we expect the number of terms and relationships for arthropods in general to be rather small. More detailed classifications and partonomies will be possible for more phylogenetically restricted groupings , e.g. ''Insecta'', ''Araneae''. | ||
| + | |||
| + | * '''A set of design patterns for defining classes of structures of interest to the work of group members.''' As source material for this work, we will use existing textual definitions from various arthropod anatomy ontologies. By analyzing these we will derive lists of classification properties that will provide the basis for formalization. | ||
| + | |||
| + | |||
| + | ==Join us!== | ||
| + | |||
| + | * We meet on the third Friday of every month, at 5:00pm GMT (12:00am CT) via Skype. Please feel free to join us; requests can be sent through the Arthropod Anatomy Mailing list: | ||
| + | * [https://groups.google.com/forum/?fromgroups#!forum/obo-arthropod-anatomy Arthropod anatomy Mailing list] (also [https://lists.sourceforge.net/lists/listinfo/obo-arthropod-anatomyaccessible via Sourceforge]) - useful for discussion and for setting up monthly chat | ||
| + | * [http://code.google.com/p/arthropod-anatomy-ontology/issues/list Term request tracker] for the common arthropod anatomy ontology. | ||
| + | |||
| + | == Resources == | ||
| + | |||
| + | * [http://code.google.com/p/arthropod-anatomy-ontology/issues/list Term request tracker] for the common arthropod anatomy ontology. | ||
| + | |||
| + | * Potential sources of common arthropod terms and definitions | ||
| + | ** [http://dx.doi.org/10.1016/j.asd.2009.10.002 Edgecomb, 2010 Arthropod Structure & Development 39, pp 74-–87] | ||
| + | *** [[Edgecomb|Discussion and CMAP sketch based on Edgecomb]] | ||
| + | ** Wheeler - synapomorphies | ||
| + | *** [CMAP sketch based on Wheeler synapomorphies] | ||
Latest revision as of 09:13, 20 July 2012
Contents |
[edit] The Arthropod Anatomy Ontology wiki
[edit] Who are we?
We are a consortium of arthropod anatomy ontologists, working together to improve and harmonise our individual, phylogenetically-specific anatomy ontologies and to build a common arthropod anatomy ontology. This is voluntary effort, facilitated by the NSF-funded Phenotype Research Co-ordination Network
[edit] Members
- Andy Deans (Penn State, Hymenoptera Anatomy Ontology project)
- David Osumi-Sutherland (Drosophila anatomy ontology)
- Jo Wolfe (interested in arthropod evolution)
- Peter Midford (NESCent/Phenoscape)
- Stefan Richter (University of Rostock, circulatory system)
- Aaron Smith (Arizona State University; systematics of Coleoptera
- Matt Yoder (Illinois Natural History Survey, University of Illinois; Hymenoptera Anatomy Ontology project)
- Nico Franz (Coleoptera)
- Aaron Smith (Coleoptera - in particular evolution of defensive glands)
- Pantelis Topalis (mosquito anatomy ontology.)
- Cassandra Extavour (internal anatomy of arthropods)
- István Mikó (Hymenoptera; Musculature - and its relationship to sclerites (insertions sites))
- Martín Ramírez (spider anatomy ontology)
- Paul Selden (spiders, paleontology)
- Shaun Winterton (Neoptera)
[edit] Ontologies
- Common arthropod anatomy ontology
- Drosophila Anatomy Ontology
- Drosophila Development Ontology
- Mosquito Anatomy Ontology
- Tick Anatomy Ontology
- Spider Anatomy Ontology
- Hymenoptera Anatomy Ontology
- Coleoptera Anatomy Ontology
- Neoptera Anatomy Ontology
- Glossary of invertebrate neuro-anatomy terms
[edit] AIMS (draft)
[edit] Ultimate Aim
A unified structure for all arthropod anatomy ontologies - with all ontologies conforming to a general upper ontology.
- This structure should be scaleable, consistent and allow flexible queries that include those identified as a priority for the group.
- Terms should be easy to find and have clear definitions, linked to the relevant literature.
[edit] Short to medium term aims
- A basic classification and partonomy for gross arthropod body parts (segments, tagma, appendages, appendage segments) Note - we expect the number of terms and relationships for arthropods in general to be rather small. More detailed classifications and partonomies will be possible for more phylogenetically restricted groupings , e.g. Insecta, Araneae.
- A set of design patterns for defining classes of structures of interest to the work of group members. As source material for this work, we will use existing textual definitions from various arthropod anatomy ontologies. By analyzing these we will derive lists of classification properties that will provide the basis for formalization.
[edit] Join us!
- We meet on the third Friday of every month, at 5:00pm GMT (12:00am CT) via Skype. Please feel free to join us; requests can be sent through the Arthropod Anatomy Mailing list:
- Arthropod anatomy Mailing list (also via Sourceforge) - useful for discussion and for setting up monthly chat
- Term request tracker for the common arthropod anatomy ontology.
[edit] Resources
- Term request tracker for the common arthropod anatomy ontology.
- Potential sources of common arthropod terms and definitions
- Edgecomb, 2010 Arthropod Structure & Development 39, pp 74-–87
- Wheeler - synapomorphies
- [CMAP sketch based on Wheeler synapomorphies]
