Closed gocentral closed 9 years ago
Original comment by: paolaroncaglia
First terms added:
GO:0097407 Bunina body GO:0097408 fibrillary inclusion GO:0097409 glial cytoplasmic inclusion
Original comment by: paolaroncaglia
More terms added:
GO:0097412 hyaline inclusion GO:0097413 Lewy body GO:0097414 classical Lewy body GO:0097415 cortical Lewy body GO:0097416 Lewy body-like hyaline inclusion GO:0097417 nematosome GO:0097418 neurofibrillary tangle GO:0097419 Pick body GO:0097420 skein-like inclusion GO:0097422 tubular endosome GO:0097423 mitochondrion-associated adherens complex GO:0097424 nucleolus-associated heterochromatin GO:0097425 smooth endoplasmic reticulum part GO:0097426 glial filament GO:0097427 microtubule bundle GO:1901588 dendritic microtubule GO:1901589 axon microtubule bundle
Original comment by: paolaroncaglia
More terms added: GO:0097433 dense body
GO:0097440 apical dendrite
GO:0097441 basilar dendrite
GO:0097442 CA3 pyramidal cell dendrite
GO:0097443 sorting endosome
GO:0097444 spine apparatus
GO:0097445 presynaptic active zone dense projection
GO:1990005 granular vesicle
GO:1990006 amorphous vesicle
GO:1990007 membrane stack
GO:1990008 neurosecretory vesicle
GO:1990011 laminated body
GO:1990012 complex laminated body
Original comment by: paolaroncaglia
More terms added:
GO:1990013 presynaptic grid GO:1990014 orthogonal array GO:1990015 ensheathing process GO:1990016 neck portion of tanycyte GO:1990017 somatic portion of tanycyte GO:1990018 tail portion of tanycyte
GO:0097447 dendritic tree GO:0097448 spine mat GO:0097449 astrocyte projection GO:0097450 astrocyte end-foot GO:0097451 glial limiting end-foot GO:0097453 mesaxon GO:0097454 Schwann cell microvillus GO:0097455 spiny bracelet of Nageotte GO:0097456 terminal loop GO:0097457 hippocampal mossy fiber GO:0097458 neuron part GO:0097462 Lewy neurite GO:0097463 gemmule GO:0097464 thorny excrescence GO:0097465 somatic spine
Other edits stemming from this project:
Added 'microvilli' as a related synonym of GO:0005902 microvillus
GO:0043209 myelin sheath: added narrow synonym 'astrocyte sheath'; changed synonym scope of 'Schwann Cell Myelin Sheath' to narrow (and edited lettercase)
Added/edited synonyms of GO:0043209 myelin sheath and GO:0043218 compact myelin
GO:0043219 lateral loop: Added 'Schwann cell paranodal termination', 'oligodendrocyte paranodal termination' and 'paranodal loop' as related synonyms
Made 'neuron projection' is_a 'neuron part'
Made the following terms is_a 'neuron part': dendritic tree Lewy body Lewy body-like hyaline inclusion nBAF complex neurofibrillary tangle neurofilament cytoskeleton neuronal cell body presynaptic active zone presynaptic membrane spine apparatus spine mat subplasmalemmal coating
Added the following link: spine apparatus part_of neuron spine
Deleted link subplasmalemmal coating part_of extrinsic to external side of plasma membrane, and made it part_of extrinsic to internal side of plasma membrane instead
Edited def. of GO:0043025 neuronal cell body
Added 'spine' as broad synonym of GO:0044309 neuron spine
Added the following as narrow synonym of GO:0043197 dendritic spine: branched dendritic spine mushroom dendritic spine sessile dendritic spine stubby dendritic spine thin dendritic spine
Original comment by: paolaroncaglia
More new terms:
GO:1990024 C bouton GO:1990025 F bouton GO:1990026 hippocampal mossy fiber expansion GO:1990027 S bouton
Added 'motor endplate' as a related synonym of GO:0043679 axon terminus and GO:0031594 neuromuscular junction.
Original comment by: paolaroncaglia
More done:
Added new terms: GO:1990030 pericellular basket GO:1990031 pinceau fiber GO:1990032 parallel fiber GO:1990033 dendritic branch point
Added 'terminal specialization' as related synonym of GO:0044292 dendrite terminus. Added 'trunk' as related synonym of GO:0043198 dendritic shaft.
Original comment by: paolaroncaglia
Also
GO:1990037 Lewy body core GO:1990038 Lewy body corona
Original comment by: paolaroncaglia
Added new terms: GO:1990039 hypolemmal cisterna GO:1990040 sub-surface cisterna
Added synonyms: Added 'cristae' as a broad synonym of GO:0030061 mitochondrial crista Added 'inner bounding mitochondrial membrane' as exact synonym of GO:0097002 mitochondrial inner boundary membrane Added 'pars fibrosa' as broad synonym of GO:0001651 dense fibrillar component Added 'pars granulosa' as broad synonym of GO:0001652 granular component
Original comment by: paolaroncaglia
Added new terms: GO:0097470 ribbon synapse GO:0097471 mossy fiber rosette
Added 'dense material' as a narrow synonym of GO:0097444 spine apparatus
GO:0005911 cell-cell junction: Added NIF_Subcellular: sao1395777368 as a synonym xref
GO:0005921 gap junction: Added 'gap junction plaque' and 'gap junction macula' as exact synonyms
GO:0045202 synapse: Added 'electrotonic synapse' and 'mixed synapse' as narrow synonym
Original comment by: paolaroncaglia
Changed synonym scope of 'electrotonic synapse' from narrow to related for GO:0045202 synapse. Added 'electrotonic synapse' and 'electrical synapse' as related synonyms of GO:0005921 gap junction.
Original comment by: paolaroncaglia
Original comment by: paolaroncaglia
Aim: integrate terms from the SAO (Subcellular Anatomy Ontology for the nervous system) in GO as Cellular Component terms. A table of SAO terms has been generated by Fahim Imam and is attached (NIF-Subcell-GO-CC.xlsx). Currently working with Chris, Jane, David H, Fahim and Maryann Martone going through the list - some terms are already in GO, others are being discussed wrt placement in GO vs. UBERON, others may be out of scope of GO. Will post an update when the final list of terms for GO is ready. This task is also in Jira, but I'm adding it in SF as well as it supercedes two previous items, that are now closed:
https://sourceforge.net/tracker/?func=detail&aid=2891344&group\_id=36855&atid=440764 https://sourceforge.net/tracker/?func=detail&aid=2891355&group\_id=36855&atid=440764
Note to self: create new grouping term "neuron part"?
Reported by: paolaroncaglia
Original Ticket: geneontology/ontology-requests/9752