Difference between revisions of "Parasite Experiment ontology"
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[[Image:Snapshot_of_TcruziExperiri_ontology_in_Protege_toolkit.gif | right | frame | 303×800px | Snapshot of class hierarchy of Parasite Experiment ontology using Protege toolkit]] | [[Image:Snapshot_of_TcruziExperiri_ontology_in_Protege_toolkit.gif | right | frame | 303×800px | Snapshot of class hierarchy of Parasite Experiment ontology using Protege toolkit]] | ||
| − | table width=65% | + | <table width="65%"> |
| − | tr valign=top | + | <tr valign="top"> |
| − | td | + | <td> |
;A | ;A | ||
| − | ul | + | <ul> |
| − | li [[Accession Number]]/li | + | <li> [[Accession Number]]</li> |
| − | /li | + | </li> |
| − | /ul | + | </ul> |
;C | ;C | ||
| − | ul | + | <ul> |
| − | li[[Cell Cloning]]/li | + | <li>[[Cell Cloning]]</li> |
| − | li[[Cloned Sample]]/li | + | <li>[[Cloned Sample]]</li> |
| − | /ul | + | </ul> |
;D | ;D | ||
| − | ul | + | <ul> |
| − | li[[Drug]]/li | + | <li>[[Drug]]</li> |
| − | li[[Drug Concentration]]/li | + | <li>[[Drug Concentration]]</li> |
| − | li[[Drug Resistant Plasmid]]/li | + | <li>[[Drug Resistant Plasmid]]</li> |
| − | li[[Drug Selected Sample]]/li | + | <li>[[Drug Selected Sample]]</li> |
| − | li[[Drug Selection]]/li | + | <li>[[Drug Selection]]</li> |
| − | /ul | + | </ul> |
;G | ;G | ||
| − | ul | + | <ul> |
| − | li[[Gene Knockout Protocol]]/li | + | <li>[[Gene Knockout Protocol]]</li> |
| − | /ul | + | </ul> |
| − | br/ | + | <br/> |
;H | ;H | ||
| − | ul | + | <ul> |
| − | li[[Host organism]]/li | + | <li>[[Host organism]]</li> |
| − | li[[Hybridisation]]/li | + | <li>[[Hybridisation]]</li> |
| − | /ul | + | </ul> |
;K | ;K | ||
| − | ul | + | <ul> |
| − | li[[Knockout Construct Plasmid]]/li | + | <li>[[Knockout Construct Plasmid]]</li> |
| − | li[[Knockout Plasmid]]/li | + | <li>[[Knockout Plasmid]]</li> |
| − | /ul | + | </ul> |
;L | ;L | ||
| − | ul | + | <ul> |
| − | li[[Labelling]]/li | + | <li>[[Labelling]]</li> |
| − | li[[Lifecycle stage]]/li | + | <li>[[Lifecycle stage]]</li> |
| − | /ul | + | </ul> |
;M | ;M | ||
| − | ul | + | <ul> |
| − | li[[Medium]]/li | + | <li>[[Medium]]</li> |
| − | li[[Microarray Analysis]]/li | + | <li>[[Microarray Analysis]]</li> |
| − | li[[Microarray Plate Reader]]/li | + | <li>[[Microarray Plate Reader]]</li> |
| − | /ul | + | </ul> |
;N | ;N | ||
| − | ul | + | <ul> |
| − | li[[Nucleic Acid]]/li | + | <li>[[Nucleic Acid]]</li> |
| − | /ul | + | </ul> |
;O | ;O | ||
| − | ul | + | <ul> |
| − | li[[Organism]]/li | + | <li>[[Organism]]</li> |
| − | /ul | + | </ul> |
;P | ;P | ||
| − | ul | + | <ul> |
| − | li[[Phenotype]]/li | + | <li>[[Phenotype]]</li> |
| − | li[[Plasmid]]/li | + | <li>[[Plasmid]]</li> |
| − | li[[Plasmid Construction]]/li | + | <li>[[Plasmid Construction]]</li> |
| − | li[[Polymerase Chain Reaction]]/li | + | <li>[[Polymerase Chain Reaction]]</li> |
| − | li[[Prehybridisation]]/li | + | <li>[[Prehybridisation]]</li> |
| − | li[[Purity]]/li | + | <li>[[Purity]]</li> |
| − | /ul | + | </ul> |
;S | ;S | ||
| − | ul | + | <ul> |
| − | li[[Sample]]/li | + | <li>[[Sample]]</li> |
| − | li[[Sequence Extraction]]/li | + | <li>[[Sequence Extraction]]</li> |
| − | li[[Signal Intensity]]/li | + | <li>[[Signal Intensity]]</li> |
| − | li[[Strains]]/li | + | <li>[[Strains]]</li> |
| − | /ul | + | </ul> |
| − | /td | + | </td> |
| − | td | + | <td> |
| − | br/ | + | <br/> |
;T | ;T | ||
| − | ul | + | <ul> |
| − | li[[Tcruzi Sample]]/li | + | <li>[[Tcruzi Sample]]</li> |
| − | li[[Transcriptome Protocol]]/li | + | <li>[[Transcriptome Protocol]]</li> |
| − | li[[Transfected Sample]]/li | + | <li>[[Transfected Sample]]</li> |
| − | li[[Transfection]]/li | + | <li>[[Transfection]]</li> |
| − | li[[Transfection Buffer]]/li | + | <li>[[Transfection Buffer]]</li> |
| − | li[[Transfection Machine]]/li | + | <li>[[Transfection Machine]]</li> |
| − | /ul | + | </ul> |
| − | /td | + | </td> |
| − | /tr | + | </tr> |
| − | /table | + | </table> |
| − | br/ | + | <br/> |
| − | br/ | + | <br/> |
== Collaborating Institutions == | == Collaborating Institutions == | ||
* [http://knoesis.wright.edu Kno.e.sis Research Center, Wright State University] | * [http://knoesis.wright.edu Kno.e.sis Research Center, Wright State University] | ||
* [http://knoesis.wright.edu Tarleton Research Group, University of Georgia] | * [http://knoesis.wright.edu Tarleton Research Group, University of Georgia] | ||
| − | br/ | + | <br/> |
We invite new members to collaborate with us in extending this ontology. | We invite new members to collaborate with us in extending this ontology. | ||
== Feedback/Comments == | == Feedback/Comments == | ||
| − | Please add feedback/comments in [http://knoesis.wright.edu/internal/wiki/index.php?title=Talk: | + | Please add feedback/comments in [http://knoesis.wright.edu/internal/wiki/index.php?title=Talk:TcruziExperiri_ontology&action=edit Discussion Section] on the top of this wiki page. |
Revision as of 15:35, 11 March 2009
The ontology comprehensively models the processes, instruments, parameters, and sample details that will be used to annotate experimental results with “provenance” metadata (derivation history of results). For example, given a drug selected sample (a sample that has been grown under selective drug pressure. source: Parasite Experiment ontology), details about the drug, drug concentration, the duration for the drug selection process, and the transfected sample used as input to the drug selection process are modeled in the ontology. This extensive provenance metadata modeled in this ontology will enable publication of results in journals, conferences with details of the method used to arrive at the result. Parasite Experiment ontology currently has 71 classes and 15 properties with a DL expressivity of ALCHF(D) and incorporates concepts defined in Parasite Life Cycle ontology to maximize re-use of existing ontological resources.
List of ontology classes
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Collaborating Institutions
We invite new members to collaborate with us in extending this ontology.
Feedback/Comments
Please add feedback/comments in Discussion Section on the top of this wiki page.
