For more OAK examples, see
$ pip install oaklib
$ alias cl="runoak -i sqlite:obo:cl"
This uses the sqlite version of CL. Note the first time this is executed there will be a lag
$ cl definitions CL:0000540 CL:0000099
| id | definition |
|---|---|
| CL:0000540 | The basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system. |
| CL:0000099 | Most generally any neuron which is not motor or sensory. Interneurons may also refer to neurons whose axons remain within a particular brain region as contrasted with projection neurons which have axons projecting to other brain regions. |
$ cl definitions CL:0000540 CL:0000099 -O yaml
definition: The basic cellular unit of nervous tissue. Each neuron consists of a body,
an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses
in the nervous system.
id: CL:0000540
---
definition: Most generally any neuron which is not motor or sensory. Interneurons
may also refer to neurons whose axons remain within a particular brain region as
contrasted with projection neurons which have axons projecting to other brain regions.
id: CL:0000099To get definitions for ALL neurons (truncated):
cl definitions .desc//p=i CL:0000540 | head -20
| id | definition |
|---|---|
| CL:0000705 | None |
| CL:4023094 | A pyramidal neuron which has a distinctive tuft formation, distal from the soma. |
| CL:4023108 | A magnocellular neurosecretory cell that is capable of producing and secreting oxytocin. |
| CL:1000606 | None |
| CL:1000380 | A type I vestibular sensory cell that is part of the epithelium of macula of saccule of membranous labyrinth. |
| CL:1001582 | Neuron of lateral ventricle. |
| CL:0000555 | None |
| CL:4023128 | a KDNy neuron that is located in the rostral periventricular region of the third ventricle. |
| CL:2000049 | Any pyramidal cell that is part of a primary motor cortex. |
| CL:0000119 | Large intrinsic neuron located in the granule layer of the cerebellar cortex that extends its dendrites into the molecular layer where they receive contact from parallel fibers. The axon of the Golgi cell ramifies densely in the granule layer and enters into a complex arrangement with mossy fiber terminals and granule cell dendrites to form the cerebellar glomerulus. Llinas, Walton and Lang. In The Synaptic Organization of the Brain. 5th ed. 2004. |
| CL:0000687 | None |
| CL:0001031 | Granule cell that is part of the cerebellum. |
| CL:4023027 | A sst GABAergic cortical interneuron with a soma found in L5 and possesses 'T-shaped' Martinotti morphologies with local axonal plexus in L5a and translaminar axons restricted to the uppermost part of L1. They show low-threshold spiking patterns with strong rebound firing, and inhibit the L1 apical tuft of nearby pyramidal cells. |
| CL:4023009 | A glutamatergic neuron located in the cerebral cortex that projects to structures not derived from telencephalon. |
| CL:0010022 | A neuron that has its soma in the heart. |
| CL:0000287 | None |
| CL:0000488 | A photoreceptor cell that detects visible light. |
| CL:4023169 | A neuron that is responsible for sensation in the face or motor functions such as biting and chewing. Trigeminal neurons extend a single axon shaft along the lateral white matter of the hindbrain and spinal cord. The highly branched axons innervate the integument of the head. |
| CL:0005007 | Kolmer-Agduhr neurons are ciliated GABAergic neurons that contact the central canal of the spinal cord and have ipsilateral ascending axons. |
$ runoak -i ontobee:cl definitions CL:0000540
This should give the same answer as above (though in theory the backends may be out of sync with the latest version)
$ runoak -i ubergraph:cl definitions CL:0000540
again, same results.
This is just to demonstrate backend neutrality