NIF-Ontology
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SciCrunch
NIF Standard Ontologies (NIFSTD)
ull Stack Trace ----------------------------------------------------------------------------------------- org.semanticweb.owlapi.io.OWLOntologyCreationIOException: Operation timed out (Read failed) at uk.ac.manchester.cs.owl.owlapi.OWLOntologyFactoryImpl.loadOWLOntology(OWLOntologyFactoryImpl.java:231) at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.actualParse(OWLOntologyManagerImpl.java:1262) at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.loadOntology(OWLOntologyManagerImpl.java:1215) at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.loadOntologyFromOntologyDocument(OWLOntologyManagerImpl.java:1172) at org.protege.editor.owl.model.io.OntologyLoader.loadOntologyInternal(OntologyLoader.java:104) at org.protege.editor.owl.model.io.OntologyLoader.lambda$loadOntologyInOtherThread$0(OntologyLoader.java:62) at java.util.concurrent.FutureTask.run(FutureTask.java:266) at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617) at java.lang.Thread.run(Thread.java:745)...
ERROR: http://uri.interlex.org/waxholm/uris/sd/labels/95 has more than one label! cornu ammonis 1 (whssd) ERROR: http://uri.interlex.org/waxholm/uris/sd/labels/95 has more than one label! cornu ammonis 3 (whssd) ERROR: http://uri.interlex.org/waxholm/uris/sd/labels/98 has more than one label! cornu...
Add entry in processes.md to run ontload extras and deposit the outputs in the foundry.
Should be GABA receptor not GABA receptor role rdfs:label "Mammalia neocortex EGL (with-axon-in cortical layer I) Martinotti +GABA receptor role +Glutamate Receptor +SS +GABA interneuron" NeuronCUT and ((hasLayerLocationPhenotype some 'cortical...
Or whatever you want to call it and classify ACT neurons under that type
'Mouse Neocortex +Calca +Chrm2 +Cort +Gpr88 +Gucy1a3 +Gucy1b3 +Hcrtr1 +Kcnmb4 +NOS1 +Nos1 +Opn3 +Oxtr +Ped1a +Penk +Prkg2 +Ptn +Rln1 +SST +Slc7a3 +Sst +Syt4 +Syt5 +Syt6 +Tacr1 +Trpc6 +Unc5d +Wnt2 neuron...
Which makes it difficult to compare them: 'Mammalia neocortex +SOM +GABA intrinsic neuron' 'Mammalia striatum +SOM +NOS +GABA intrinsic neuron' 'Neocortex +SOM neuron' 'Rat S1 Bipolar (intersectionOf AC b) Regular...
Why does this have ChAT listed twice? We will have to have a unique phenotype notation for neurotransmitter. Where in the sequence is NT being recorded?
http://purl.obolibrary.org/obo/NCBITaxon_40674 http://purl.obolibrary.org/obo/UBERON_0002149 http://uri.interlex.org/tgbugs/uris/readable/BasketPhenotype http://uri.interlex.org/tgbugs/uris/readable/DoubleBouquetPhenotype http://uri.interlex.org/tgbugs/uris/readable/NeurogliaformPhenotype