v2023-09-21

Detailed differences for this release can be viewed at https://github.com/obophenotype/cell-ontology/blob/559d87b58bcb355a4364f8dc9f17a9a296581657/src/ontology/diffs/cl-diff.md

Note that three classes have been obsoleted:
'animal cell'
'native cell'
'somatic cell'

What's Changed

• Classified amacrine cells GABA vs glycine and dendrite field by @aleixpuigb in #2096
• Edited 'polyploid cell' by @bvarner-ebi in #2129
• Edited editing_guidelines.md regarding cross-references by @bvarner-ebi in #2130
• Updated synonym type on "subcapsular thymic epithelial cell" by @bvarner-ebi in #2131
• Removed synonyms that were the same as labels by @aleixpuigb in #2132
• Added label synonym polysemy check by @anitacaron in #2112
• Removed import folder in the root level by @anitacaron in #2135
• Added OMO as import by @anitacaron in #2134
• Refreshed imports 09-2023 by @bvarner-ebi in #2142
• Made plural synonym annotations consistent by @bvarner-ebi in #2143
• Added new term 'airway submucosal gland duct ciliated cell' by @aleixpuigb in #2145
• Edited text definition of 'L2/3 intratelencephalic projecting glutamatergic neuron of the primary motor cortex' by @bvarner-ebi in #2149
• Added synonym to 'luteal cell' by @aleixpuigb in #2146
• Obsoleted 'native cell' and 'animal cell' by @bvarner-ebi in #2147
• Obsoleted 'somatic cell' by @bvarner-ebi in #2151
• Shortened labels for BDS terms by @shawntanzk in #1806
• Added new term 'mesenchymal stem cell of orbital adipose tissue' by @paulacalipho in #2153
• Refreshed imports 09-2023 by @bvarner-ebi in #2156
• CL release 2023-09-21 by @bvarner-ebi in #2157

Full Changelog: v2023-08-24...v2023-09-21

v2023-08-24

What's Changed

• Released diff poster by @shawntanzk in #1732
• Edited editor guidelines regarding CL labels with anatomical references by @bvarner-ebi in #2078
• Changed telocyte and lymphoblast subclass to seperate subclass by @shawntanzk in #2087
• Replaced invalid DOI IRIs in xrefs with doi: CURIE strings by @balhoff in #2089
• Edited 'olfactory granule cell' by @bvarner-ebi in #2085
• Edited abbreviation related synonyms by @aleixpuigb in #2091
• Added new terms for retinal ganglion cells by @aleixpuigb in #2090
• Obsoleted 'acid secreting cell' and Edited 'parietal cell' by @bvarner-ebi in #2098
• Merged 'choroid plexus cell' into 'choroid plexus epithelial cell' by @bvarner-ebi in #2088
• Edited 'pain receptor cell' by @bvarner-ebi in #2104
• Added 'depicted by' statements to SwissBioPics by @lubianat in #2092
• Removed IAO from imports by @anitacaron in #2093
• Made additional edits to 'pain receptor cell' by @bvarner-ebi in #2105
• Edited editor guidelines regarding annotation property 'see also' by @bvarner-ebi in #2109
• Added "cell" to synonyms of 'syncytiotrophoblast cell' by @shawntanzk in #2108
• Removed horizontal cell parent term from amacrine cells by @aleixpuigb in #2107
• Edited editor guidelines regarding MeSH cross-references by @bvarner-ebi in #2115
• Edited editor guidelines regarding URL cross-references by @bvarner-ebi in #2116
• Edited MeSH Tree Number cross-references by @bvarner-ebi in #2114
• Added new term 'perivascular cell' by @aleixpuigb in #2120
• Edited 'lung neuroendocrine cell' by @bvarner-ebi in #2118
• Refreshed imports 08-2023 by @bvarner-ebi in #2123
• CL release 2023-08-24 by @bvarner-ebi in #2125

Full Changelog: v2023-07-20...v2023-08-24

v2023-07-20

What's Changed

• Added new design pattern GitHub issue template by @bvarner-ebi in #2038
• Updated CL issue templates by @bvarner-ebi in #2040
• Added new term 'eccentric medium spiny neuron' by @bvarner-ebi in #2041
• Added retina cell type synonyms by @bvarner-ebi in #2046
• Added has soma location 'retinal bipolar neuron' by @aleixpuigb in #2050
• Removed GSE dbxrefs by @bvarner-ebi in #2052
• Edited 'folliculostellate cell' by @aleixpuigb in #2047
• Replaced synapsed_by with 'synapsed by' in 'cartwheel cell' by @bvarner-ebi in #2055
• Deleted synapsed_by from CL by @bvarner-ebi in #2057
• Edited hierarchy 'bronchiolar smooth muscle cell' by @aleixpuigb in #2062
• Added logical definition and synonym to lung megakaryocyte by @aleixpuigb in #2060
• Updated editor guidelines re: standardising database_cross_reference and contributor annotations by @bvarner-ebi in #2058
• Added symbols for BDS terms by @shawntanzk in #1808
• Edited 'cerebellar granule cell' and 'granule cell precursor' by @bvarner-ebi in #2067
• Added SOP to create slims by @aleixpuigb in #2068
• Edited 'endothelial cell of respiratory system lymphatic vessel' by @aleixpuigb in #2072
• Edited 'dentate gyrus of hippocampal formation granule cell' by @bvarner-ebi in #2070
• Refreshed imports 07-2023 by @bvarner-ebi in #2073
• Edited 'pulmonary capillary endothelial cell' location by @aleixpuigb in #2075
• Refreshed imports 07-2023 (update) by @bvarner-ebi in #2076
• CL release 2023-07-20 by @bvarner-ebi in #2077

Full Changelog: v2023-06-22...v2023-07-20

v2023-06-22

What's Changed

• Defined 'follicle stem cell' and restricted it to arthropods. by @gouttegd in #1985
• Fixed myofibroblast part of connective tissue by @aleixpuigb in #1992
• Fixed platelet EA by @aleixpuigb in #1993
• Added new term 'von Economo neuron' by @bvarner-ebi in #1998
• Added new term 'CD8+ CD103+ lung TRM' by @aleixpuigb in #1995
• Added text definition to 'granule cell' by @bvarner-ebi in #2009
• Fixed dbxref URLs by @bvarner-ebi in #2011
• Updated definitions for bladder urothelial cell types by @bvarner-ebi in #2016
• Updated 'medium spiny neuron' by @bvarner-ebi in #2014
• Added NCIt mappings by @bvarner-ebi in #2017
• Added new dorsal striatum medium spiny neuron subtypes by @bvarner-ebi in #2005
• Added new term 'pre-type II pneumocyte' by @paulacalipho in #2003
• Added new urothelial cell types by @bvarner-ebi in #2024
• Updated relations_guide.md by @dosumis in #1824
• Added new ventral striatum medium spiny neuron subtypes by @bvarner-ebi in #2019
• Added some guidelines for term editors. by @gouttegd in #2010
• Updated 'urothelial cell' by @bvarner-ebi in #2025
• Added new alveolar macrophages by @aleixpuigb in #2023
• Updated 'basal cell of urothelium' by @bvarner-ebi in #2029
• Refreshed imports 06-2023 by @bvarner-ebi in #2035
• Added new lung terms by @aleixpuigb in #2033
• Added a general cell type upper slim by @aleixpuigb in #1979
• CL release 2023-06-22 by @bvarner-ebi in #2036

Full Changelog: v2023-05-22...2023-06-22

v2023-05-22

What's Changed

• Added new term 'tracheobronchial mucus secreting glandular cell' by @aleixpuigb in #1953
• Fixed text and logical definition 'club cell' by @aleixpuigb in #1934
• Fixed classification and definition choroidal cells by @bvarner-ebi in #1958
• Fixed the hemocytes hierarchy by @gouttegd in #1951
• Added definitions for FBbt-mapped terms by @gouttegd in #1948
• Fixed oenocyte definition by @aleixpuigb in #1954
• Added eye slim by @aleixpuigb in #1940
• Made 'taste receptor cell' taxon-neutral by @gouttegd in #1963
• Added IAO:0000233 to the list of allowed annotation properties. by @gouttegd in #1965
• Made 'CNS interneuron' taxon-neutral by @gouttegd in #1962
• Added new terms lung TRM by @aleixpuigb in #1959
• Added new term 'taste receptor cell of tongue' and Edited taste cell definition by @aleixpuigb in #1966
• Fixed chemoreceptors by @aleixpuigb in #1977
• Fixed 'glomerular mesangial cell' by @bvarner-ebi in #1978
• Fixed #1389 by @dosumis in #1803
• Refreshed imports by @bvarner-ebi in #1983
• Added new term 'catecholaminergic neuron' by @aleixpuigb in #1981
• CL release 2023-05-22 by @bvarner-ebi in #1987

Full Changelog: v2023-04-20...v2023-05-22

v2023-04-20

What's Changed

• Added Metazoan cell classes as subclasses to 'animal cell' by @bvarner-ebi in #1906
• Added expresses vimentin to cell type by @bvarner-ebi in #1907
• Added full stop to text definition by @bvarner-ebi in #1924
• Fixed typo amgydala excitatory neuron by @aleixpuigb in #1928
• Obsoleted 'primary pigment cell'. by @gouttegd in #1932
• Obsoleted clade-specific germ line stem cell terms by @gouttegd in #1937
• Fixed logical definition of 'Schwann cell' by @bvarner-ebi in #1936
• Updated definitions for 'rosehip neuron' by @bvarner-ebi in #1938
• Added blood_and_immune_upper_slim by @bvarner-ebi in #1917
• Added bipolar cell types by @aleixpuigb in #1922
• Added upper slim validation and coverage report by @ubyndr in #1939
• Added 3 new cell types by @paulacalipho in #1920
• CL release 2023-04-20 by @bvarner-ebi in #1952

New Contributors

• @paulacalipho made their first contribution in #1920

Full Changelog: v2023-03-21...v2023-04-20

v2023-03-21

What's Changed

• Documented policy on delegating import refresh to the tech support group. by @gouttegd in #1852
• Assigned numeric IDs to native CL object properties by @bvarner-ebi in #1854
• Normalised CL to Protege 5.6.1 by @bvarner-ebi in #1858
• Fixed all the alt-id violations and activating QC by @matentzn in #1862
• Addressed typo parasol GCR by @aleixpuigb in #1869
• Added 'retinal astrocyte' by @aleixpuigb in #1871
• Edited 'enteroendocrine cell' by @aleixpuigb in #1864
• Edited 'GnRH neuron' by @aleixpuigb in #1872
• Added 'CD24+, CD-133+, vimentin+ proximal tubular cell' by @bvarner-ebi in #1873
• Added photoreceptor synonyms by @bvarner-ebi in #1877
• Edited 'corneal endothelial cell' by @aleixpuigb in #1878
• Added 'anatomical structure' superclass to cell by @bvarner-ebi in #1882
• Refreshed imports by @bvarner-ebi in #1890
• Edited megakaryocyte by @aleixpuigb in #1891
• Refreshed imports by @bvarner-ebi in #1895
• Edited logical definition 'visceral muscle cell' by @aleixpuigb in #1893
• Edited 'paneth cell' part_of by @aleixpuigb in #1900
• Replaced lacks_part with CL:4030045 lacks_part by @bvarner-ebi in #1898
• Added new respiratory terms by @aleixpuigb in #1896
• Edited logical definition of 'endocrine cell' by @aleixpuigb in #1897
• Removed CHEBI import from ODK config by @anitacaron in #1903
• Release-2023-03-21b by @bvarner-ebi in #1904

Full Changelog: v2023-02-19...v2023-03-21

February 2023 release (no changes)

This is a technical normalisation release with the new ODK set up.

v2023-02-15

What's Changed (excerpt)

• Fixed text definition typo for iridophore by @aleixpuigb in #1792
• Edited 'stromal cell of endometrium' @bvarner-ebi in #1794
• Fixed typo and changed parent term for 'apocrine cell' by @aleixpuigb in #1801
• Fixed text definition typo in 'anterior lateral line neuromast mantle cell' by @aleixpuigb in #1797
• Added new term 'Axl dendritic cell' by @lubianat in #1687
• Changed has_completed to obo:RO_0002353 by @shawntanzk in #1770
• Changed 'memory T cell' has_completed by @shawntanzk in #1709
• Added 'dental pulp stem cell' and edited 'dental pulp cell' by @bvarner-ebi in #1790
• Changed definition of 'anterior horn motor neuron' by @shawntanzk in #1812
• Added synonym "metazoan cell" to 'animal cell' by @aleixpuigb in #1818
• Merged 'neuroendocrine cell' and 'neurosecretory neuron' by @aleixpuigb in #1804
• Updated mappings: Allow the use of semapv:crossSpeciesExactMatch by @gouttegd in #1821
• Added new terms early and late spermatid by @bvarner-ebi in #1825
• Added new term 'respiratory ciliated cell' by @bvarner-ebi in #1819
• Edited 'perineurial cell' by @bvarner-ebi in #1832
• Added branch status warning to diff report by @ubyndr in #1787
• Addressed trigger with comment added to branch-status by @ubyndr in #1839
• Added missing conditional statement to branch-status action by @ubyndr in #1840
• Added new term 'suprabasal keratinocyte' by @aleixpuigb in #1826
• Imported 'blood nerve barrier' from UBERON by @aleixpuigb in #1842
• Added new term 'peg cell' by @aleixpuigb in #1828
• Added new endometrial ciliated cell terms by @bvarner-ebi in #1843
• Added Compound terms for HubMap by @anitacaron in #1722
• Fixed typo "KDNy" by @bvarner-ebi in #1845
• Updated cl-idranges.owl by @aleixpuigb in #1847
• Removed CHEBI term and CHEBI import from CL by @bvarner-ebi in #1846
• Fixed logical definition of child terms of 'brush cell of tracheobronchial tree' by @aleixpuigb in #1836
• Release 2023-02-15 by @bvarner-ebi in #1848

Full Changelog: v2023-01-09...v2023-02-15

v2023-01-09

Major update

Due to increased file size, CL has changed the way it is released, please see internal documentation on how this is done now.

What's Changed

• change retina horizontal cell to use has_soma_location by @shawntanzk in #1777
• Add parasol and midget RGC by @shawntanzk in #1733
• Make gogoeditdiff manual trigger by @shawntanzk in #1771
• Add terms from adult human brain transcriptomics paper by @shawntanzk in #1748
• change hippocampal cells to relate to hippocampal formation by @shawntanzk in #1747
• Create cl-plus artefact by @shawntanzk in #1767
• 2023-01-09 release by @shawntanzk in #1786

Full Changelog: v2022-12-15...v2022-01-09