Switching has_(not)_completed to RO terms

[shawntanzk]

Switch has_completed to output_of
Switch has_not_completed to capable_of
See oborel/obo-relations#574
Related to #1481
tagging @bpeters42
will not merge unless we have approval from @addiehl

[github-actions]

Here's a diff of how these changes impact the classified ontology:

Ontology comparison

Left

• Ontology IRI: http://purl.obolibrary.org/obo/cl.owl
• Version IRI: http://purl.obolibrary.org/obo/cl/releases/2022-03-09/cl.owl
• Loaded from: file:/__w/cell-ontology/cell-ontology/src/ontology/cl-master.owl/cl.owl

Right

• Ontology IRI: http://purl.obolibrary.org/obo/cl.owl
• Version IRI: http://purl.obolibrary.org/obo/cl/releases/2022-03-09/cl.owl
• Loaded from: file:/__w/cell-ontology/cell-ontology/src/ontology/cl-pr.owl/cl.owl

Ontology imports

Ontology annotations

Bm4 B cell http://purl.obolibrary.org/obo/CL_0000966

Removed

• Bm4 B cell EquivalentTo germinal center B cell and (has plasma membrane part some ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1) and (has_completed some somatic hypermutation of immunoglobulin genes) and (lacks_plasma_membrane_part some IgD immunoglobulin complex) and (lacks_plasma_membrane_part some lactosylceramide 4-alpha-galactosyltransferase)

• Bm4 B cell SubClassOf has_completed some somatic hypermutation of immunoglobulin genes

Added

• Bm4 B cell EquivalentTo germinal center B cell and (has plasma membrane part some ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1) and (output of some somatic hypermutation of immunoglobulin genes) and (lacks_plasma_membrane_part some IgD immunoglobulin complex) and (lacks_plasma_membrane_part some lactosylceramide 4-alpha-galactosyltransferase)

• Bm4 B cell SubClassOf output of some somatic hypermutation of immunoglobulin genes

Bm5 B cell http://purl.obolibrary.org/obo/CL_0000967

Removed

• Bm5 B cell EquivalentTo memory B cell and (has_completed some germinal center B cell differentiation) and (has_completed some somatic hypermutation of immunoglobulin genes) and (lacks_plasma_membrane_part some IgD immunoglobulin complex)

• Bm5 B cell SubClassOf has_completed some somatic hypermutation of immunoglobulin genes

• Bm5 B cell SubClassOf has_completed some germinal center B cell differentiation

Added

• Bm5 B cell EquivalentTo memory B cell and (output of some germinal center B cell differentiation) and (output of some somatic hypermutation of immunoglobulin genes) and (lacks_plasma_membrane_part some IgD immunoglobulin complex)

• Bm5 B cell SubClassOf output of some somatic hypermutation of immunoglobulin genes

• Bm5 B cell SubClassOf output of some germinal center B cell differentiation

CD27-negative gamma-delta T cell http://purl.obolibrary.org/obo/CL_0002125

Removed

• CD27-negative gamma-delta T cell EquivalentTo mature gamma-delta T cell and (has part some nuclear receptor ROR-gamma isoform 2) and (capable of some interleukin-17 production) and (has_completed some T cell differentiation) and (lacks_plasma_membrane_part some CD27 molecule)

• CD27-negative gamma-delta T cell SubClassOf has_completed some T cell differentiation

Added

• CD27-negative gamma-delta T cell EquivalentTo mature gamma-delta T cell and (has part some nuclear receptor ROR-gamma isoform 2) and (capable of some interleukin-17 production) and (output of some T cell differentiation) and (lacks_plasma_membrane_part some CD27 molecule)

• CD27-negative gamma-delta T cell SubClassOf output of some T cell differentiation

CD27-positive gamma-delta T cell http://purl.obolibrary.org/obo/CL_0002124

Removed

• CD27-positive gamma-delta T cell EquivalentTo mature gamma-delta T cell and (has plasma membrane part some CD27 molecule) and (capable of some interferon-gamma production) and (has_completed some T cell differentiation)

• CD27-positive gamma-delta T cell SubClassOf has_completed some T cell differentiation

Added

• CD27-positive gamma-delta T cell EquivalentTo mature gamma-delta T cell and (has plasma membrane part some CD27 molecule) and (capable of some interferon-gamma production) and (output of some T cell differentiation)

• CD27-positive gamma-delta T cell SubClassOf output of some T cell differentiation

CD4-positive helper T cell http://purl.obolibrary.org/obo/CL_0000492

Removed

• CD4-positive helper T cell SubClassOf has_completed some T cell differentiation

Added

• CD4-positive helper T cell SubClassOf output of some T cell differentiation

CD4-positive, alpha-beta cytotoxic T cell http://purl.obolibrary.org/obo/CL_0000934

Removed

• CD4-positive, alpha-beta cytotoxic T cell EquivalentTo CD4-positive, alpha-beta T cell and (capable of some T cell mediated cytotoxicity) and (has_completed some T cell differentiation)

• CD4-positive, alpha-beta cytotoxic T cell SubClassOf has_completed some T cell differentiation

Added

• CD4-positive, alpha-beta cytotoxic T cell EquivalentTo CD4-positive, alpha-beta T cell and (capable of some T cell mediated cytotoxicity) and (output of some T cell differentiation)

• CD4-positive, alpha-beta cytotoxic T cell SubClassOf output of some T cell differentiation

CD4-positive, alpha-beta memory T cell http://purl.obolibrary.org/obo/CL_0000897

Removed

• CD4-positive, alpha-beta memory T cell EquivalentTo CD4-positive, alpha-beta T cell and (bearer of some increased life span) and (has_completed some T cell activation involved in immune response) and (has_completed some memory T cell differentiation)

Added

• CD4-positive, alpha-beta memory T cell EquivalentTo CD4-positive, alpha-beta T cell and (bearer of some increased life span) and (output of some T cell activation involved in immune response) and (output of some memory T cell differentiation)

CD4-positive, alpha-beta memory T cell, CD45RO-positive http://purl.obolibrary.org/obo/CL_0001204

Removed

• CD4-positive, alpha-beta memory T cell, CD45RO-positive EquivalentTo CD4-positive, alpha-beta memory T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RO) and (has plasma membrane part some interleukin-7 receptor subunit alpha) and (only_in_taxon some Homo sapiens) and (has_completed some memory T cell differentiation) and (has_high_plasma_membrane_amount some CD44 molecule) and (has_high_plasma_membrane_amount some interleukin-2 receptor subunit beta) and (lacks_plasma_membrane_part some interleukin-2 receptor subunit alpha)

Added

• CD4-positive, alpha-beta memory T cell, CD45RO-positive EquivalentTo CD4-positive, alpha-beta memory T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RO) and (has plasma membrane part some interleukin-7 receptor subunit alpha) and (only_in_taxon some Homo sapiens) and (output of some memory T cell differentiation) and (has_high_plasma_membrane_amount some CD44 molecule) and (has_high_plasma_membrane_amount some interleukin-2 receptor subunit beta) and (lacks_plasma_membrane_part some interleukin-2 receptor subunit alpha)

CD8-positive, alpha-beta cytokine secreting effector T cell http://purl.obolibrary.org/obo/CL_0000908

Removed

• CD8-positive, alpha-beta cytokine secreting effector T cell EquivalentTo CD8-positive, alpha-beta T cell and (has plasma membrane part some CD69 molecule) and (has plasma membrane part some interleukin-2 receptor subunit alpha) and (capable of some cytokine production) and (has_completed some T cell differentiation) and (lacks_plasma_membrane_part some L-selectin) and (lacks_plasma_membrane_part some interleukin-7 receptor subunit alpha)

• CD8-positive, alpha-beta cytokine secreting effector T cell SubClassOf has_completed some T cell differentiation

Added

• CD8-positive, alpha-beta cytokine secreting effector T cell EquivalentTo CD8-positive, alpha-beta T cell and (has plasma membrane part some CD69 molecule) and (has plasma membrane part some interleukin-2 receptor subunit alpha) and (capable of some cytokine production) and (output of some T cell differentiation) and (lacks_plasma_membrane_part some L-selectin) and (lacks_plasma_membrane_part some interleukin-7 receptor subunit alpha)

• CD8-positive, alpha-beta cytokine secreting effector T cell SubClassOf output of some T cell differentiation

CD8-positive, alpha-beta cytotoxic T cell http://purl.obolibrary.org/obo/CL_0000794

Removed

• CD8-positive, alpha-beta cytotoxic T cell EquivalentTo CD8-positive, alpha-beta T cell and (has part some perforin-1) and (has part some granzyme B) and (capable of some T cell mediated cytotoxicity) and (capable of some granzyme B localization to T cell secretory granule) and (has_completed some T cell differentiation)

• CD8-positive, alpha-beta cytotoxic T cell SubClassOf has_completed some T cell differentiation

Added

• CD8-positive, alpha-beta cytotoxic T cell EquivalentTo CD8-positive, alpha-beta T cell and (has part some perforin-1) and (has part some granzyme B) and (capable of some T cell mediated cytotoxicity) and (capable of some granzyme B localization to T cell secretory granule) and (output of some T cell differentiation)

• CD8-positive, alpha-beta cytotoxic T cell SubClassOf output of some T cell differentiation

CD8-positive, alpha-beta memory T cell http://purl.obolibrary.org/obo/CL_0000909

Removed

• CD8-positive, alpha-beta memory T cell EquivalentTo CD8-positive, alpha-beta T cell and (bearer of some increased life span) and (has_completed some T cell activation involved in immune response) and (has_completed some memory T cell differentiation)

Added

• CD8-positive, alpha-beta memory T cell EquivalentTo CD8-positive, alpha-beta T cell and (bearer of some increased life span) and (output of some T cell activation involved in immune response) and (output of some memory T cell differentiation)

CD8-positive, alpha-beta memory T cell, CD45RO-positive http://purl.obolibrary.org/obo/CL_0001203

Removed

• CD8-positive, alpha-beta memory T cell, CD45RO-positive EquivalentTo CD8-positive, alpha-beta memory T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RO) and (has plasma membrane part some interleukin-7 receptor subunit alpha) and (only_in_taxon some Homo sapiens) and (has_completed some memory T cell differentiation) and (has_high_plasma_membrane_amount some CD44 molecule) and (has_high_plasma_membrane_amount some interleukin-2 receptor subunit beta) and (lacks_plasma_membrane_part some interleukin-2 receptor subunit alpha)

Added

• CD8-positive, alpha-beta memory T cell, CD45RO-positive EquivalentTo CD8-positive, alpha-beta memory T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RO) and (has plasma membrane part some interleukin-7 receptor subunit alpha) and (only_in_taxon some Homo sapiens) and (output of some memory T cell differentiation) and (has_high_plasma_membrane_amount some CD44 molecule) and (has_high_plasma_membrane_amount some interleukin-2 receptor subunit beta) and (lacks_plasma_membrane_part some interleukin-2 receptor subunit alpha)

Fraction C precursor B cell http://purl.obolibrary.org/obo/CL_0002049

Removed

• Fraction C precursor B cell EquivalentTo Fraction B/C precursor B cell and (has part some immunoglobulin iota chain) and (has part some immunoglobulin lambda-like polypeptide 1) and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RABC) and (has plasma membrane part some signal transducer CD24) and (has plasma membrane part some glutamyl aminopeptidase) and (has plasma membrane part some V(D)J recombination-activating protein 1) and (has plasma membrane part some V(D)J recombination-activating protein 2) and (has_not_completed some immunoglobulin heavy chain V-D-J recombination)

• Fraction C precursor B cell SubClassOf has_not_completed some immunoglobulin heavy chain V-D-J recombination

Added

• Fraction C precursor B cell EquivalentTo Fraction B/C precursor B cell and (has part some immunoglobulin iota chain) and (has part some immunoglobulin lambda-like polypeptide 1) and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RABC) and (has plasma membrane part some signal transducer CD24) and (has plasma membrane part some glutamyl aminopeptidase) and (has plasma membrane part some V(D)J recombination-activating protein 1) and (has plasma membrane part some V(D)J recombination-activating protein 2) and (capable of some immunoglobulin heavy chain V-D-J recombination)

• Fraction C precursor B cell SubClassOf capable of some immunoglobulin heavy chain V-D-J recombination

Fraction D precursor B cell http://purl.obolibrary.org/obo/CL_0002052

Removed

• Fraction D precursor B cell EquivalentTo precursor B cell and (has plasma membrane part some CD19 molecule) and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RABC) and (has plasma membrane part some interleukin-2 receptor subunit alpha) and (has plasma membrane part some signal transducer CD24) and (has plasma membrane part some complement component C1q receptor) and (has plasma membrane part some glutamyl aminopeptidase) and (has_low_plasma_membrane_amount some leukosialin) and (has_not_completed some immunoglobulin light chain V-J recombination) and (lacks_plasma_membrane_part some pre-B cell receptor complex)

• Fraction D precursor B cell SubClassOf has_not_completed some immunoglobulin light chain V-J recombination

Added

• Fraction D precursor B cell EquivalentTo precursor B cell and (has plasma membrane part some CD19 molecule) and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RABC) and (has plasma membrane part some interleukin-2 receptor subunit alpha) and (has plasma membrane part some signal transducer CD24) and (has plasma membrane part some complement component C1q receptor) and (has plasma membrane part some glutamyl aminopeptidase) and (capable of some immunoglobulin light chain V-J recombination) and (has_low_plasma_membrane_amount some leukosialin) and (lacks_plasma_membrane_part some pre-B cell receptor complex)

• Fraction D precursor B cell SubClassOf capable of some immunoglobulin light chain V-J recombination

Gr1-positive, CD43-positive monocyte http://purl.obolibrary.org/obo/CL_0002398

Added

• Gr1-positive, CD43-positive monocyte SubClassOf monopoietic cell

class switched memory B cell http://purl.obolibrary.org/obo/CL_0000972

Removed

• class switched memory B cell EquivalentTo memory B cell and (has plasma membrane part some CD27 molecule) and (has_completed some isotype switching) and (lacks_plasma_membrane_part some IgM immunoglobulin complex)

• class switched memory B cell SubClassOf has_completed some isotype switching

Added

• class switched memory B cell EquivalentTo memory B cell and (has plasma membrane part some CD27 molecule) and (output of some isotype switching) and (lacks_plasma_membrane_part some IgM immunoglobulin complex)

• class switched memory B cell SubClassOf output of some isotype switching

effector T cell http://purl.obolibrary.org/obo/CL_0000911

Removed

• effector T cell EquivalentTo mature T cell and (bearer of some normal life span) and (has_completed some T cell differentiation) and (has_completed some T cell selection)

• effector T cell SubClassOf has_completed some T cell differentiation

Added

• effector T cell EquivalentTo mature T cell and (bearer of some normal life span) and (output of some T cell differentiation) and (output of some T cell selection)

• effector T cell SubClassOf output of some T cell differentiation

effector memory CD4-positive, alpha-beta T cell, terminally differentiated http://purl.obolibrary.org/obo/CL_0001087

Removed

• effector memory CD4-positive, alpha-beta T cell, terminally differentiated EquivalentTo CD4-positive, alpha-beta memory T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RA) and (in taxon some Homo sapiens) and (has_completed some memory T cell differentiation) and (lacks_plasma_membrane_part some receptor-type tyrosine-protein phosphatase C isoform CD45RO) and (lacks_plasma_membrane_part some C-C chemokine receptor type 7)

Added

• effector memory CD4-positive, alpha-beta T cell, terminally differentiated EquivalentTo CD4-positive, alpha-beta memory T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RA) and (in taxon some Homo sapiens) and (output of some memory T cell differentiation) and (lacks_plasma_membrane_part some receptor-type tyrosine-protein phosphatase C isoform CD45RO) and (lacks_plasma_membrane_part some C-C chemokine receptor type 7)

effector memory CD8-positive, alpha-beta T cell, terminally differentiated http://purl.obolibrary.org/obo/CL_0001062

Removed

• effector memory CD8-positive, alpha-beta T cell, terminally differentiated EquivalentTo CD8-positive, alpha-beta memory T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RA) and (in taxon some Homo sapiens) and (has_completed some memory T cell differentiation) and (lacks_plasma_membrane_part some receptor-type tyrosine-protein phosphatase C isoform CD45RO) and (lacks_plasma_membrane_part some C-C chemokine receptor type 7)

Added

• effector memory CD8-positive, alpha-beta T cell, terminally differentiated EquivalentTo CD8-positive, alpha-beta memory T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RA) and (in taxon some Homo sapiens) and (output of some memory T cell differentiation) and (lacks_plasma_membrane_part some receptor-type tyrosine-protein phosphatase C isoform CD45RO) and (lacks_plasma_membrane_part some C-C chemokine receptor type 7)

has_completed http://purl.obolibrary.org/obo/cl#has_completed

Removed

• has_completed label "has_completed"^^string

• ObjectProperty: has_completed

has_not_completed http://purl.obolibrary.org/obo/cl#has_not_completed

Removed

• has_not_completed label "has_not_completed"^^string

• ObjectProperty: has_not_completed

immature B cell http://purl.obolibrary.org/obo/CL_0000816

Removed

• immature B cell EquivalentTo B cell, CD19-positive and (has plasma membrane part some IgM immunoglobulin complex) and (has plasma membrane part some membrane-spanning 4-domains subfamily A member 1) and (has_not_completed some isotype switching) and (lacks_plasma_membrane_part some IgD immunoglobulin complex)

• immature B cell SubClassOf has_not_completed some isotype switching

Added

• immature B cell EquivalentTo B cell, CD19-positive and (has plasma membrane part some IgM immunoglobulin complex) and (has plasma membrane part some membrane-spanning 4-domains subfamily A member 1) and (capable of some isotype switching) and (lacks_plasma_membrane_part some IgD immunoglobulin complex)

• immature B cell SubClassOf capable of some isotype switching

immature T cell http://purl.obolibrary.org/obo/CL_0002420

Removed

• immature T cell EquivalentTo T cell and (has_not_completed some T cell selection)

• immature T cell SubClassOf has_not_completed some T cell selection

Added

• immature T cell EquivalentTo T cell and (capable of some T cell selection)

• immature T cell SubClassOf capable of some T cell selection

immature alpha-beta T cell http://purl.obolibrary.org/obo/CL_0000790

Removed

• immature alpha-beta T cell EquivalentTo alpha-beta T cell and (has_not_completed some T cell selection)

Added

• immature alpha-beta T cell EquivalentTo alpha-beta T cell and (capable of some T cell selection)

immature gamma-delta T cell http://purl.obolibrary.org/obo/CL_0000799

Removed

• immature gamma-delta T cell EquivalentTo gamma-delta T cell and (has_not_completed some gamma-delta T cell differentiation) and (has_not_completed some T cell selection)

• immature gamma-delta T cell SubClassOf has_not_completed some gamma-delta T cell differentiation

Added

• immature gamma-delta T cell EquivalentTo gamma-delta T cell and (capable of some gamma-delta T cell differentiation) and (capable of some T cell selection)

• immature gamma-delta T cell SubClassOf capable of some gamma-delta T cell differentiation

• immature gamma-delta T cell SubClassOf progenitor cell

intermediate monocyte http://purl.obolibrary.org/obo/CL_0002393

Removed

• intermediate monocyte EquivalentTo monocyte and (has_not_completed some monocyte differentiation) and (lacks_plasma_membrane_part some CD19 molecule) and (lacks_plasma_membrane_part some CD3 epsilon) and (lacks_plasma_membrane_part some C-C chemokine receptor type 2) and (lacks_plasma_membrane_part some membrane-spanning 4-domains subfamily A member 1)

• intermediate monocyte SubClassOf has_not_completed some monocyte differentiation

Added

• intermediate monocyte EquivalentTo monocyte and (capable of some monocyte differentiation) and (lacks_plasma_membrane_part some CD19 molecule) and (lacks_plasma_membrane_part some CD3 epsilon) and (lacks_plasma_membrane_part some C-C chemokine receptor type 2) and (lacks_plasma_membrane_part some membrane-spanning 4-domains subfamily A member 1)

• intermediate monocyte SubClassOf capable of some monocyte differentiation

mature B cell http://purl.obolibrary.org/obo/CL_0000785

Removed

• mature B cell EquivalentTo B cell, CD19-positive and (capable of some antigen processing and presentation of peptide or polysaccharide antigen via MHC class II) and (capable of some B cell activation) and (has_completed some mature B cell differentiation)

• mature B cell SubClassOf has_completed some mature B cell differentiation

Added

• mature B cell EquivalentTo B cell, CD19-positive and (capable of some antigen processing and presentation of peptide or polysaccharide antigen via MHC class II) and (capable of some B cell activation) and (output of some mature B cell differentiation)

• mature B cell SubClassOf output of some mature B cell differentiation

mature NK T cell http://purl.obolibrary.org/obo/CL_0000814

Removed

• mature NK T cell EquivalentTo mature alpha-beta T cell and (has plasma membrane part some KLRB1-like protein) and (capable of some MHC class Ib receptor activity) and (capable of some innate immune response) and (has_completed some T cell differentiation)

• mature NK T cell SubClassOf has_completed some T cell differentiation

Added

• mature NK T cell EquivalentTo mature alpha-beta T cell and (has plasma membrane part some KLRB1-like protein) and (capable of some MHC class Ib receptor activity) and (capable of some innate immune response) and (output of some T cell differentiation)

• mature NK T cell SubClassOf output of some T cell differentiation

mature T cell http://purl.obolibrary.org/obo/CL_0002419

Removed

• mature T cell EquivalentTo T cell and (has plasma membrane part some T cell receptor complex) and (has_completed some T cell selection)

• mature T cell SubClassOf has_completed some T cell selection

Added

• mature T cell EquivalentTo T cell and (has plasma membrane part some T cell receptor complex) and (output of some T cell selection)

• mature T cell SubClassOf output of some T cell selection

mature alpha-beta T cell http://purl.obolibrary.org/obo/CL_0000791

Removed

• mature alpha-beta T cell EquivalentTo alpha-beta T cell and (has_completed some T cell selection)

Added

• mature alpha-beta T cell EquivalentTo alpha-beta T cell and (output of some T cell selection)

mature gamma-delta T cell http://purl.obolibrary.org/obo/CL_0000800

Removed

• mature gamma-delta T cell EquivalentTo gamma-delta T cell and (has_completed some T cell selection)

Added

• mature gamma-delta T cell EquivalentTo gamma-delta T cell and (output of some T cell selection)

memory B cell http://purl.obolibrary.org/obo/CL_0000787

Removed

• memory B cell EquivalentTo mature B cell and (has plasma membrane part some MHC class II protein complex) and (has plasma membrane part some membrane-spanning 4-domains subfamily A member 1) and (has_completed some B cell affinity maturation) and (lacks_plasma_membrane_part some syndecan-1)

• memory B cell SubClassOf has_completed some B cell affinity maturation

Added

• memory B cell EquivalentTo mature B cell and (has plasma membrane part some MHC class II protein complex) and (has plasma membrane part some membrane-spanning 4-domains subfamily A member 1) and (output of some B cell affinity maturation) and (lacks_plasma_membrane_part some syndecan-1)

• memory B cell SubClassOf output of some B cell affinity maturation

memory T cell http://purl.obolibrary.org/obo/CL_0000813

Removed

• memory T cell EquivalentTo mature T cell and (bearer of some increased life span) and (has_completed some T cell activation involved in immune response) and (has_completed some memory T cell differentiation)

• memory T cell SubClassOf has_completed some memory T cell differentiation

Added

• memory T cell EquivalentTo mature T cell and (bearer of some increased life span) and (output of some T cell activation involved in immune response) and (output of some memory T cell differentiation)

• memory T cell SubClassOf output of some memory T cell differentiation

memory regulatory T cell http://purl.obolibrary.org/obo/CL_0002678

Removed

• memory regulatory T cell EquivalentTo CD4-positive, CD25-positive, alpha-beta regulatory T cell and (has_completed some memory T cell differentiation)

Added

• memory regulatory T cell EquivalentTo CD4-positive, CD25-positive, alpha-beta regulatory T cell and (output of some memory T cell differentiation)

mucosal invariant T cell http://purl.obolibrary.org/obo/CL_0000940

Removed

• mucosal invariant T cell EquivalentTo mature alpha-beta T cell and (capable of some innate immune response in mucosa) and (capable of some MHC class Ib receptor activity) and (has_completed some T cell differentiation)

• mucosal invariant T cell SubClassOf has_completed some T cell differentiation

Added

• mucosal invariant T cell EquivalentTo mature alpha-beta T cell and (capable of some innate immune response in mucosa) and (capable of some MHC class Ib receptor activity) and (output of some T cell differentiation)

• mucosal invariant T cell SubClassOf output of some T cell differentiation

naive B cell http://purl.obolibrary.org/obo/CL_0000788

Removed

• naive B cell EquivalentTo mature B cell and (has plasma membrane part some IgD immunoglobulin complex) and (has plasma membrane part some IgM immunoglobulin complex) and (has plasma membrane part some membrane-spanning 4-domains subfamily A member 1) and (has_not_completed some B cell affinity maturation) and (lacks_plasma_membrane_part some CD27 molecule)

• naive B cell SubClassOf has_not_completed some B cell affinity maturation

Added

• naive B cell EquivalentTo mature B cell and (has plasma membrane part some IgD immunoglobulin complex) and (has plasma membrane part some IgM immunoglobulin complex) and (has plasma membrane part some membrane-spanning 4-domains subfamily A member 1) and (capable of some B cell affinity maturation) and (lacks_plasma_membrane_part some CD27 molecule)

• naive B cell SubClassOf capable of some B cell affinity maturation

naive T cell http://purl.obolibrary.org/obo/CL_0000898

Removed

• naive T cell EquivalentTo mature T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RA) and (has plasma membrane part some C-C chemokine receptor type 7) and (has plasma membrane part some interleukin-7 receptor subunit alpha) and (has_completed some T cell selection) and (has_high_plasma_membrane_amount some L-selectin) and (has_low_plasma_membrane_amount some CD44 molecule)

Added

• naive T cell EquivalentTo mature T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RA) and (has plasma membrane part some C-C chemokine receptor type 7) and (has plasma membrane part some interleukin-7 receptor subunit alpha) and (output of some T cell selection) and (has_high_plasma_membrane_amount some L-selectin) and (has_low_plasma_membrane_amount some CD44 molecule)

non-classical monocyte http://purl.obolibrary.org/obo/CL_0000875

Removed

• non-classical monocyte EquivalentTo monocyte and (bearer of some decreased size) and (capable of some lymphocyte costimulation) and (has_completed some monocyte differentiation) and (has_high_plasma_membrane_amount some CX3C chemokine receptor 1) and (lacks_plasma_membrane_part some CD19 molecule) and (lacks_plasma_membrane_part some CD3 epsilon) and (lacks_plasma_membrane_part some membrane-spanning 4-domains subfamily A member 1)

• non-classical monocyte SubClassOf has_completed some monocyte differentiation

Added

• non-classical monocyte EquivalentTo monocyte and (bearer of some decreased size) and (capable of some lymphocyte costimulation) and (output of some monocyte differentiation) and (has_high_plasma_membrane_amount some CX3C chemokine receptor 1) and (lacks_plasma_membrane_part some CD19 molecule) and (lacks_plasma_membrane_part some CD3 epsilon) and (lacks_plasma_membrane_part some membrane-spanning 4-domains subfamily A member 1)

• non-classical monocyte SubClassOf output of some monocyte differentiation

pre-B-II cell http://purl.obolibrary.org/obo/CL_0000955

Removed

• pre-B-II cell EquivalentTo precursor B cell and (has_completed some immunoglobulin heavy chain V-D-J recombination) and (lacks_part some DNA nucleotidylexotransferase) and (lacks_plasma_membrane_part some CD34 molecule)

• pre-B-II cell SubClassOf has_completed some immunoglobulin heavy chain V-D-J recombination

Added

• pre-B-II cell EquivalentTo precursor B cell and (output of some immunoglobulin heavy chain V-D-J recombination) and (lacks_part some DNA nucleotidylexotransferase) and (lacks_plasma_membrane_part some CD34 molecule)

• pre-B-II cell SubClassOf output of some immunoglobulin heavy chain V-D-J recombination

preBCR-negative large pre-B-II cell http://purl.obolibrary.org/obo/CL_0000953

Removed

• preBCR-negative large pre-B-II cell EquivalentTo large pre-B-II cell and (has_not_completed some immunoglobulin light chain V-J recombination) and (lacks_plasma_membrane_part some pre-B cell receptor complex) and (lacks_plasma_membrane_part some immunoglobulin iota chain) and (lacks_plasma_membrane_part some immunoglobulin lambda-like polypeptide 1)

• preBCR-negative large pre-B-II cell SubClassOf has_not_completed some immunoglobulin light chain V-J recombination

Added

• preBCR-negative large pre-B-II cell EquivalentTo large pre-B-II cell and (capable of some immunoglobulin light chain V-J recombination) and (lacks_plasma_membrane_part some pre-B cell receptor complex) and (lacks_plasma_membrane_part some immunoglobulin iota chain) and (lacks_plasma_membrane_part some immunoglobulin lambda-like polypeptide 1)

• preBCR-negative large pre-B-II cell SubClassOf capable of some immunoglobulin light chain V-J recombination

preBCR-positive large pre-B-II cell http://purl.obolibrary.org/obo/CL_0000952

Removed

• preBCR-positive large pre-B-II cell EquivalentTo large pre-B-II cell and (has plasma membrane part some pre-B cell receptor complex) and (has plasma membrane part some immunoglobulin iota chain) and (has plasma membrane part some immunoglobulin lambda-like polypeptide 1) and (has_not_completed some immunoglobulin light chain V-J recombination)

• preBCR-positive large pre-B-II cell SubClassOf has_not_completed some immunoglobulin light chain V-J recombination

Added

• preBCR-positive large pre-B-II cell EquivalentTo large pre-B-II cell and (has plasma membrane part some pre-B cell receptor complex) and (has plasma membrane part some immunoglobulin iota chain) and (has plasma membrane part some immunoglobulin lambda-like polypeptide 1) and (capable of some immunoglobulin light chain V-J recombination)

• preBCR-positive large pre-B-II cell SubClassOf capable of some immunoglobulin light chain V-J recombination

primary oocyte http://purl.obolibrary.org/obo/CL_0000654

Removed

• primary oocyte EquivalentTo oocyte and (has_not_completed some meiotic cell cycle)

• primary oocyte SubClassOf has_not_completed some meiotic cell cycle

Added

• primary oocyte EquivalentTo oocyte and (capable of some meiotic cell cycle)

• primary oocyte SubClassOf capable of some meiotic cell cycle

secondary oocyte http://purl.obolibrary.org/obo/CL_0000655

Removed

• secondary oocyte EquivalentTo oocyte and (has_not_completed some female meiosis II)

• secondary oocyte SubClassOf has_not_completed some female meiosis II

Added

• secondary oocyte EquivalentTo oocyte and (capable of some female meiosis II)

• secondary oocyte SubClassOf capable of some female meiosis II

thymocyte http://purl.obolibrary.org/obo/CL_0000893

Removed

• thymocyte EquivalentTo T cell and (part_of some thymus) and (has_not_completed some T cell selection)

Added

• thymocyte EquivalentTo T cell and (part_of some thymus) and (capable of some T cell selection)

transitional stage B cell http://purl.obolibrary.org/obo/CL_0000818

Removed

• transitional stage B cell EquivalentTo B cell, CD19-positive and (has plasma membrane part some IgM immunoglobulin complex) and (has plasma membrane part some membrane-spanning 4-domains subfamily A member 1) and (has_high_plasma_membrane_amount some ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1) and (has_high_plasma_membrane_amount some signal transducer CD24) and (has_not_completed some mature B cell differentiation)

• transitional stage B cell SubClassOf has_not_completed some mature B cell differentiation

Added

• transitional stage B cell EquivalentTo B cell, CD19-positive and (has plasma membrane part some IgM immunoglobulin complex) and (has plasma membrane part some membrane-spanning 4-domains subfamily A member 1) and (capable of some mature B cell differentiation) and (has_high_plasma_membrane_amount some ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1) and (has_high_plasma_membrane_amount some signal transducer CD24)

• transitional stage B cell SubClassOf capable of some mature B cell differentiation

• transitional stage B cell SubClassOf progenitor cell

[github-actions]

Here's a diff of your edit file (unreasoned)

Ontology comparison

Left

• Ontology IRI: http://purl.obolibrary.org/obo/cl.owl
• Version IRI: None
• Loaded from: file:/__w/cell-ontology/cell-ontology/master/src/ontology/cl-edit.owl

Right

• Ontology IRI: http://purl.obolibrary.org/obo/cl.owl
• Version IRI: None
• Loaded from: file:/__w/cell-ontology/cell-ontology/src/ontology/cl-edit.owl

Ontology imports

Ontology annotations

Bm4 B cell http://purl.obolibrary.org/obo/CL_0000966

Removed

• Bm4 B cell EquivalentTo germinal center B cell and (has plasma membrane part some ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1) and (has_completed some somatic hypermutation of immunoglobulin genes) and (lacks_plasma_membrane_part some IgD immunoglobulin complex) and (lacks_plasma_membrane_part some lactosylceramide 4-alpha-galactosyltransferase)

Added

• Bm4 B cell EquivalentTo germinal center B cell and (has plasma membrane part some ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1) and (output of some somatic hypermutation of immunoglobulin genes) and (lacks_plasma_membrane_part some IgD immunoglobulin complex) and (lacks_plasma_membrane_part some lactosylceramide 4-alpha-galactosyltransferase)

Bm5 B cell http://purl.obolibrary.org/obo/CL_0000967

Removed

• Bm5 B cell EquivalentTo memory B cell and (has_completed some germinal center B cell differentiation) and (has_completed some somatic hypermutation of immunoglobulin genes) and (lacks_plasma_membrane_part some IgD immunoglobulin complex)

Added

• Bm5 B cell EquivalentTo memory B cell and (output of some germinal center B cell differentiation) and (output of some somatic hypermutation of immunoglobulin genes) and (lacks_plasma_membrane_part some IgD immunoglobulin complex)

CD27-negative gamma-delta T cell http://purl.obolibrary.org/obo/CL_0002125

Removed

• CD27-negative gamma-delta T cell EquivalentTo mature gamma-delta T cell and (has part some nuclear receptor ROR-gamma isoform 2) and (capable of some interleukin-17 production) and (has_completed some T cell differentiation) and (lacks_plasma_membrane_part some CD27 molecule)

Added

• CD27-negative gamma-delta T cell EquivalentTo mature gamma-delta T cell and (has part some nuclear receptor ROR-gamma isoform 2) and (capable of some interleukin-17 production) and (output of some T cell differentiation) and (lacks_plasma_membrane_part some CD27 molecule)

CD27-positive gamma-delta T cell http://purl.obolibrary.org/obo/CL_0002124

Removed

• CD27-positive gamma-delta T cell EquivalentTo mature gamma-delta T cell and (has plasma membrane part some CD27 molecule) and (capable of some interferon-gamma production) and (has_completed some T cell differentiation)

Added

• CD27-positive gamma-delta T cell EquivalentTo mature gamma-delta T cell and (has plasma membrane part some CD27 molecule) and (capable of some interferon-gamma production) and (output of some T cell differentiation)

CD4-positive helper T cell http://purl.obolibrary.org/obo/CL_0000492

Removed

• CD4-positive helper T cell SubClassOf has_completed some T cell differentiation

Added

• CD4-positive helper T cell SubClassOf output of some T cell differentiation

CD4-positive, alpha-beta cytotoxic T cell http://purl.obolibrary.org/obo/CL_0000934

Removed

• CD4-positive, alpha-beta cytotoxic T cell EquivalentTo CD4-positive, alpha-beta T cell and (capable of some T cell mediated cytotoxicity) and (has_completed some T cell differentiation)

Added

• CD4-positive, alpha-beta cytotoxic T cell EquivalentTo CD4-positive, alpha-beta T cell and (capable of some T cell mediated cytotoxicity) and (output of some T cell differentiation)

CD4-positive, alpha-beta memory T cell http://purl.obolibrary.org/obo/CL_0000897

Removed

• CD4-positive, alpha-beta memory T cell EquivalentTo CD4-positive, alpha-beta T cell and (bearer of some increased life span) and (has_completed some T cell activation involved in immune response) and (has_completed some memory T cell differentiation)

Added

• CD4-positive, alpha-beta memory T cell EquivalentTo CD4-positive, alpha-beta T cell and (bearer of some increased life span) and (output of some T cell activation involved in immune response) and (output of some memory T cell differentiation)

CD4-positive, alpha-beta memory T cell, CD45RO-positive http://purl.obolibrary.org/obo/CL_0001204

Removed

• CD4-positive, alpha-beta memory T cell, CD45RO-positive EquivalentTo CD4-positive, alpha-beta memory T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RO) and (has plasma membrane part some interleukin-7 receptor subunit alpha) and (only in taxon some Homo sapiens) and (has_completed some memory T cell differentiation) and (has_high_plasma_membrane_amount some CD44 molecule) and (has_high_plasma_membrane_amount some interleukin-2 receptor subunit beta) and (lacks_plasma_membrane_part some interleukin-2 receptor subunit alpha)

Added

• CD4-positive, alpha-beta memory T cell, CD45RO-positive EquivalentTo CD4-positive, alpha-beta memory T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RO) and (has plasma membrane part some interleukin-7 receptor subunit alpha) and (only in taxon some Homo sapiens) and (output of some memory T cell differentiation) and (has_high_plasma_membrane_amount some CD44 molecule) and (has_high_plasma_membrane_amount some interleukin-2 receptor subunit beta) and (lacks_plasma_membrane_part some interleukin-2 receptor subunit alpha)

CD8-positive, alpha-beta cytokine secreting effector T cell http://purl.obolibrary.org/obo/CL_0000908

Removed

• CD8-positive, alpha-beta cytokine secreting effector T cell EquivalentTo CD8-positive, alpha-beta T cell and (has plasma membrane part some CD69 molecule) and (has plasma membrane part some interleukin-2 receptor subunit alpha) and (capable of some cytokine production) and (has_completed some T cell differentiation) and (lacks_plasma_membrane_part some L-selectin) and (lacks_plasma_membrane_part some interleukin-7 receptor subunit alpha)

Added

• CD8-positive, alpha-beta cytokine secreting effector T cell EquivalentTo CD8-positive, alpha-beta T cell and (has plasma membrane part some CD69 molecule) and (has plasma membrane part some interleukin-2 receptor subunit alpha) and (capable of some cytokine production) and (output of some T cell differentiation) and (lacks_plasma_membrane_part some L-selectin) and (lacks_plasma_membrane_part some interleukin-7 receptor subunit alpha)

CD8-positive, alpha-beta cytotoxic T cell http://purl.obolibrary.org/obo/CL_0000794

Removed

• CD8-positive, alpha-beta cytotoxic T cell EquivalentTo CD8-positive, alpha-beta T cell and (has part some perforin-1) and (has part some granzyme B) and (capable of some T cell mediated cytotoxicity) and (capable of some granzyme B localization to T cell secretory granule) and (has_completed some T cell differentiation)

Added

• CD8-positive, alpha-beta cytotoxic T cell EquivalentTo CD8-positive, alpha-beta T cell and (has part some perforin-1) and (has part some granzyme B) and (capable of some T cell mediated cytotoxicity) and (capable of some granzyme B localization to T cell secretory granule) and (output of some T cell differentiation)

CD8-positive, alpha-beta memory T cell http://purl.obolibrary.org/obo/CL_0000909

Removed

• CD8-positive, alpha-beta memory T cell EquivalentTo CD8-positive, alpha-beta T cell and (bearer of some increased life span) and (has_completed some T cell activation involved in immune response) and (has_completed some memory T cell differentiation)

Added

• CD8-positive, alpha-beta memory T cell EquivalentTo CD8-positive, alpha-beta T cell and (bearer of some increased life span) and (output of some T cell activation involved in immune response) and (output of some memory T cell differentiation)

CD8-positive, alpha-beta memory T cell, CD45RO-positive http://purl.obolibrary.org/obo/CL_0001203

Removed

• CD8-positive, alpha-beta memory T cell, CD45RO-positive EquivalentTo CD8-positive, alpha-beta memory T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RO) and (has plasma membrane part some interleukin-7 receptor subunit alpha) and (only in taxon some Homo sapiens) and (has_completed some memory T cell differentiation) and (has_high_plasma_membrane_amount some CD44 molecule) and (has_high_plasma_membrane_amount some interleukin-2 receptor subunit beta) and (lacks_plasma_membrane_part some interleukin-2 receptor subunit alpha)

Added

• CD8-positive, alpha-beta memory T cell, CD45RO-positive EquivalentTo CD8-positive, alpha-beta memory T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RO) and (has plasma membrane part some interleukin-7 receptor subunit alpha) and (only in taxon some Homo sapiens) and (output of some memory T cell differentiation) and (has_high_plasma_membrane_amount some CD44 molecule) and (has_high_plasma_membrane_amount some interleukin-2 receptor subunit beta) and (lacks_plasma_membrane_part some interleukin-2 receptor subunit alpha)

Fraction C precursor B cell http://purl.obolibrary.org/obo/CL_0002049

Removed

• Fraction C precursor B cell EquivalentTo Fraction B/C precursor B cell and (has part some immunoglobulin iota chain) and (has part some immunoglobulin lambda-like polypeptide 1) and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RABC) and (has plasma membrane part some signal transducer CD24) and (has plasma membrane part some glutamyl aminopeptidase) and (has plasma membrane part some V(D)J recombination-activating protein 1) and (has plasma membrane part some V(D)J recombination-activating protein 2) and (has_not_completed some immunoglobulin heavy chain V-D-J recombination)

Added

• Fraction C precursor B cell EquivalentTo Fraction B/C precursor B cell and (has part some immunoglobulin iota chain) and (has part some immunoglobulin lambda-like polypeptide 1) and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RABC) and (has plasma membrane part some signal transducer CD24) and (has plasma membrane part some glutamyl aminopeptidase) and (has plasma membrane part some V(D)J recombination-activating protein 1) and (has plasma membrane part some V(D)J recombination-activating protein 2) and (capable of some immunoglobulin heavy chain V-D-J recombination)

Fraction D precursor B cell http://purl.obolibrary.org/obo/CL_0002052

Removed

• Fraction D precursor B cell EquivalentTo precursor B cell and (has plasma membrane part some CD19 molecule) and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RABC) and (has plasma membrane part some interleukin-2 receptor subunit alpha) and (has plasma membrane part some signal transducer CD24) and (has plasma membrane part some complement component C1q receptor) and (has plasma membrane part some glutamyl aminopeptidase) and (has_low_plasma_membrane_amount some leukosialin) and (has_not_completed some immunoglobulin light chain V-J recombination) and (lacks_plasma_membrane_part some pre-B cell receptor complex)

Added

• Fraction D precursor B cell EquivalentTo precursor B cell and (has plasma membrane part some CD19 molecule) and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RABC) and (has plasma membrane part some interleukin-2 receptor subunit alpha) and (has plasma membrane part some signal transducer CD24) and (has plasma membrane part some complement component C1q receptor) and (has plasma membrane part some glutamyl aminopeptidase) and (capable of some immunoglobulin light chain V-J recombination) and (has_low_plasma_membrane_amount some leukosialin) and (lacks_plasma_membrane_part some pre-B cell receptor complex)

class switched memory B cell http://purl.obolibrary.org/obo/CL_0000972

Removed

• class switched memory B cell EquivalentTo memory B cell and (has plasma membrane part some CD27 molecule) and (has_completed some isotype switching) and (lacks_plasma_membrane_part some IgM immunoglobulin complex)

Added

• class switched memory B cell EquivalentTo memory B cell and (has plasma membrane part some CD27 molecule) and (output of some isotype switching) and (lacks_plasma_membrane_part some IgM immunoglobulin complex)

effector T cell http://purl.obolibrary.org/obo/CL_0000911

Removed

• effector T cell EquivalentTo mature T cell and (bearer of some normal life span) and (has_completed some T cell differentiation) and (has_completed some T cell selection)

Added

• effector T cell EquivalentTo mature T cell and (bearer of some normal life span) and (output of some T cell differentiation) and (output of some T cell selection)

effector memory CD4-positive, alpha-beta T cell, terminally differentiated http://purl.obolibrary.org/obo/CL_0001087

Removed

• effector memory CD4-positive, alpha-beta T cell, terminally differentiated EquivalentTo CD4-positive, alpha-beta memory T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RA) and (in taxon some Homo sapiens) and (has_completed some memory T cell differentiation) and (lacks_plasma_membrane_part some receptor-type tyrosine-protein phosphatase C isoform CD45RO) and (lacks_plasma_membrane_part some C-C chemokine receptor type 7)

Added

• effector memory CD4-positive, alpha-beta T cell, terminally differentiated EquivalentTo CD4-positive, alpha-beta memory T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RA) and (in taxon some Homo sapiens) and (output of some memory T cell differentiation) and (lacks_plasma_membrane_part some receptor-type tyrosine-protein phosphatase C isoform CD45RO) and (lacks_plasma_membrane_part some C-C chemokine receptor type 7)

effector memory CD8-positive, alpha-beta T cell, terminally differentiated http://purl.obolibrary.org/obo/CL_0001062

Removed

• effector memory CD8-positive, alpha-beta T cell, terminally differentiated EquivalentTo CD8-positive, alpha-beta memory T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RA) and (in taxon some Homo sapiens) and (has_completed some memory T cell differentiation) and (lacks_plasma_membrane_part some receptor-type tyrosine-protein phosphatase C isoform CD45RO) and (lacks_plasma_membrane_part some C-C chemokine receptor type 7)

Added

• effector memory CD8-positive, alpha-beta T cell, terminally differentiated EquivalentTo CD8-positive, alpha-beta memory T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RA) and (in taxon some Homo sapiens) and (output of some memory T cell differentiation) and (lacks_plasma_membrane_part some receptor-type tyrosine-protein phosphatase C isoform CD45RO) and (lacks_plasma_membrane_part some C-C chemokine receptor type 7)

has_completed http://purl.obolibrary.org/obo/cl#has_completed

Removed

• has_completed label "has_completed"^^string

• ObjectProperty: has_completed

has_not_completed http://purl.obolibrary.org/obo/cl#has_not_completed

Removed

• has_not_completed label "has_not_completed"^^string

• ObjectProperty: has_not_completed

immature B cell http://purl.obolibrary.org/obo/CL_0000816

Removed

• immature B cell EquivalentTo B cell, CD19-positive and (has plasma membrane part some IgM immunoglobulin complex) and (has plasma membrane part some membrane-spanning 4-domains subfamily A member 1) and (has_not_completed some isotype switching) and (lacks_plasma_membrane_part some IgD immunoglobulin complex)

Added

• immature B cell EquivalentTo B cell, CD19-positive and (has plasma membrane part some IgM immunoglobulin complex) and (has plasma membrane part some membrane-spanning 4-domains subfamily A member 1) and (capable of some isotype switching) and (lacks_plasma_membrane_part some IgD immunoglobulin complex)

immature T cell http://purl.obolibrary.org/obo/CL_0002420

Removed

• immature T cell EquivalentTo T cell and (has_not_completed some T cell selection)

Added

• immature T cell EquivalentTo T cell and (capable of some T cell selection)

immature alpha-beta T cell http://purl.obolibrary.org/obo/CL_0000790

Removed

• immature alpha-beta T cell EquivalentTo alpha-beta T cell and (has_not_completed some T cell selection)

Added

• immature alpha-beta T cell EquivalentTo alpha-beta T cell and (capable of some T cell selection)

immature gamma-delta T cell http://purl.obolibrary.org/obo/CL_0000799

Removed

• immature gamma-delta T cell EquivalentTo gamma-delta T cell and (has_not_completed some gamma-delta T cell differentiation) and (has_not_completed some T cell selection)

Added

• immature gamma-delta T cell EquivalentTo gamma-delta T cell and (capable of some gamma-delta T cell differentiation) and (capable of some T cell selection)

intermediate monocyte http://purl.obolibrary.org/obo/CL_0002393

Removed

• intermediate monocyte EquivalentTo monocyte and (has_not_completed some monocyte differentiation) and (lacks_plasma_membrane_part some CD19 molecule) and (lacks_plasma_membrane_part some CD3 epsilon) and (lacks_plasma_membrane_part some C-C chemokine receptor type 2) and (lacks_plasma_membrane_part some membrane-spanning 4-domains subfamily A member 1)

Added

• intermediate monocyte EquivalentTo monocyte and (capable of some monocyte differentiation) and (lacks_plasma_membrane_part some CD19 molecule) and (lacks_plasma_membrane_part some CD3 epsilon) and (lacks_plasma_membrane_part some C-C chemokine receptor type 2) and (lacks_plasma_membrane_part some membrane-spanning 4-domains subfamily A member 1)

mature B cell http://purl.obolibrary.org/obo/CL_0000785

Removed

• mature B cell EquivalentTo B cell, CD19-positive and (capable of some antigen processing and presentation of peptide or polysaccharide antigen via MHC class II) and (capable of some B cell activation) and (has_completed some mature B cell differentiation)

Added

• mature B cell EquivalentTo B cell, CD19-positive and (capable of some antigen processing and presentation of peptide or polysaccharide antigen via MHC class II) and (capable of some B cell activation) and (output of some mature B cell differentiation)

mature NK T cell http://purl.obolibrary.org/obo/CL_0000814

Removed

• mature NK T cell EquivalentTo mature alpha-beta T cell and (has plasma membrane part some KLRB1-like protein) and (capable of some MHC class Ib receptor activity) and (capable of some innate immune response) and (has_completed some T cell differentiation)

Added

• mature NK T cell EquivalentTo mature alpha-beta T cell and (has plasma membrane part some KLRB1-like protein) and (capable of some MHC class Ib receptor activity) and (capable of some innate immune response) and (output of some T cell differentiation)

mature T cell http://purl.obolibrary.org/obo/CL_0002419

Removed

• mature T cell EquivalentTo T cell and (has plasma membrane part some T cell receptor complex) and (has_completed some T cell selection)

Added

• mature T cell EquivalentTo T cell and (has plasma membrane part some T cell receptor complex) and (output of some T cell selection)

mature alpha-beta T cell http://purl.obolibrary.org/obo/CL_0000791

Removed

• mature alpha-beta T cell EquivalentTo alpha-beta T cell and (has_completed some T cell selection)

Added

• mature alpha-beta T cell EquivalentTo alpha-beta T cell and (output of some T cell selection)

mature gamma-delta T cell http://purl.obolibrary.org/obo/CL_0000800

Removed

• mature gamma-delta T cell EquivalentTo gamma-delta T cell and (has_completed some T cell selection)

Added

• mature gamma-delta T cell EquivalentTo gamma-delta T cell and (output of some T cell selection)

memory B cell http://purl.obolibrary.org/obo/CL_0000787

Removed

• memory B cell EquivalentTo mature B cell and (has plasma membrane part some MHC class II protein complex) and (has plasma membrane part some membrane-spanning 4-domains subfamily A member 1) and (has_completed some B cell affinity maturation) and (lacks_plasma_membrane_part some syndecan-1)

Added

• memory B cell EquivalentTo mature B cell and (has plasma membrane part some MHC class II protein complex) and (has plasma membrane part some membrane-spanning 4-domains subfamily A member 1) and (output of some B cell affinity maturation) and (lacks_plasma_membrane_part some syndecan-1)

memory T cell http://purl.obolibrary.org/obo/CL_0000813

Removed

• memory T cell EquivalentTo mature T cell and (bearer of some increased life span) and (has_completed some T cell activation involved in immune response) and (has_completed some memory T cell differentiation)

Added

• memory T cell EquivalentTo mature T cell and (bearer of some increased life span) and (output of some T cell activation involved in immune response) and (output of some memory T cell differentiation)

memory regulatory T cell http://purl.obolibrary.org/obo/CL_0002678

Removed

• memory regulatory T cell EquivalentTo CD4-positive, CD25-positive, alpha-beta regulatory T cell and (has_completed some memory T cell differentiation)

Added

• memory regulatory T cell EquivalentTo CD4-positive, CD25-positive, alpha-beta regulatory T cell and (output of some memory T cell differentiation)

mucosal invariant T cell http://purl.obolibrary.org/obo/CL_0000940

Removed

• mucosal invariant T cell EquivalentTo mature alpha-beta T cell and (capable of some innate immune response in mucosa) and (capable of some MHC class Ib receptor activity) and (has_completed some T cell differentiation)

Added

• mucosal invariant T cell EquivalentTo mature alpha-beta T cell and (capable of some innate immune response in mucosa) and (capable of some MHC class Ib receptor activity) and (output of some T cell differentiation)

naive B cell http://purl.obolibrary.org/obo/CL_0000788

Removed

• naive B cell EquivalentTo mature B cell and (has plasma membrane part some IgD immunoglobulin complex) and (has plasma membrane part some IgM immunoglobulin complex) and (has plasma membrane part some membrane-spanning 4-domains subfamily A member 1) and (has_not_completed some B cell affinity maturation) and (lacks_plasma_membrane_part some CD27 molecule)

Added

• naive B cell EquivalentTo mature B cell and (has plasma membrane part some IgD immunoglobulin complex) and (has plasma membrane part some IgM immunoglobulin complex) and (has plasma membrane part some membrane-spanning 4-domains subfamily A member 1) and (capable of some B cell affinity maturation) and (lacks_plasma_membrane_part some CD27 molecule)

naive T cell http://purl.obolibrary.org/obo/CL_0000898

Removed

• naive T cell EquivalentTo mature T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RA) and (has plasma membrane part some C-C chemokine receptor type 7) and (has plasma membrane part some interleukin-7 receptor subunit alpha) and (has_completed some T cell selection) and (has_high_plasma_membrane_amount some L-selectin) and (has_low_plasma_membrane_amount some CD44 molecule)

Added

• naive T cell EquivalentTo mature T cell and (has plasma membrane part some receptor-type tyrosine-protein phosphatase C isoform CD45RA) and (has plasma membrane part some C-C chemokine receptor type 7) and (has plasma membrane part some interleukin-7 receptor subunit alpha) and (output of some T cell selection) and (has_high_plasma_membrane_amount some L-selectin) and (has_low_plasma_membrane_amount some CD44 molecule)

non-classical monocyte http://purl.obolibrary.org/obo/CL_0000875

Removed

• non-classical monocyte EquivalentTo monocyte and (bearer of some decreased size) and (capable of some lymphocyte costimulation) and (has_completed some monocyte differentiation) and (has_high_plasma_membrane_amount some CX3C chemokine receptor 1) and (lacks_plasma_membrane_part some CD19 molecule) and (lacks_plasma_membrane_part some CD3 epsilon) and (lacks_plasma_membrane_part some membrane-spanning 4-domains subfamily A member 1)

Added

• non-classical monocyte EquivalentTo monocyte and (bearer of some decreased size) and (capable of some lymphocyte costimulation) and (output of some monocyte differentiation) and (has_high_plasma_membrane_amount some CX3C chemokine receptor 1) and (lacks_plasma_membrane_part some CD19 molecule) and (lacks_plasma_membrane_part some CD3 epsilon) and (lacks_plasma_membrane_part some membrane-spanning 4-domains subfamily A member 1)

pre-B-II cell http://purl.obolibrary.org/obo/CL_0000955

Removed

• pre-B-II cell EquivalentTo precursor B cell and (has_completed some immunoglobulin heavy chain V-D-J recombination) and (lacks_part some DNA nucleotidylexotransferase) and (lacks_plasma_membrane_part some CD34 molecule)

Added

• pre-B-II cell EquivalentTo precursor B cell and (output of some immunoglobulin heavy chain V-D-J recombination) and (lacks_part some DNA nucleotidylexotransferase) and (lacks_plasma_membrane_part some CD34 molecule)

preBCR-negative large pre-B-II cell http://purl.obolibrary.org/obo/CL_0000953

Removed

• preBCR-negative large pre-B-II cell EquivalentTo large pre-B-II cell and (has_not_completed some immunoglobulin light chain V-J recombination) and (lacks_plasma_membrane_part some pre-B cell receptor complex) and (lacks_plasma_membrane_part some immunoglobulin iota chain) and (lacks_plasma_membrane_part some immunoglobulin lambda-like polypeptide 1)

Added

• preBCR-negative large pre-B-II cell EquivalentTo large pre-B-II cell and (capable of some immunoglobulin light chain V-J recombination) and (lacks_plasma_membrane_part some pre-B cell receptor complex) and (lacks_plasma_membrane_part some immunoglobulin iota chain) and (lacks_plasma_membrane_part some immunoglobulin lambda-like polypeptide 1)

preBCR-positive large pre-B-II cell http://purl.obolibrary.org/obo/CL_0000952

Removed

• preBCR-positive large pre-B-II cell EquivalentTo large pre-B-II cell and (has plasma membrane part some pre-B cell receptor complex) and (has plasma membrane part some immunoglobulin iota chain) and (has plasma membrane part some immunoglobulin lambda-like polypeptide 1) and (has_not_completed some immunoglobulin light chain V-J recombination)

Added

• preBCR-positive large pre-B-II cell EquivalentTo large pre-B-II cell and (has plasma membrane part some pre-B cell receptor complex) and (has plasma membrane part some immunoglobulin iota chain) and (has plasma membrane part some immunoglobulin lambda-like polypeptide 1) and (capable of some immunoglobulin light chain V-J recombination)

primary oocyte http://purl.obolibrary.org/obo/CL_0000654

Removed

• primary oocyte EquivalentTo oocyte and (has_not_completed some meiotic cell cycle)

Added

• primary oocyte EquivalentTo oocyte and (capable of some meiotic cell cycle)

secondary oocyte http://purl.obolibrary.org/obo/CL_0000655

Removed

• secondary oocyte EquivalentTo oocyte and (has_not_completed some female meiosis II)

Added

• secondary oocyte EquivalentTo oocyte and (capable of some female meiosis II)

thymocyte http://purl.obolibrary.org/obo/CL_0000893

Removed

• thymocyte EquivalentTo T cell and (part_of some thymus) and (has_not_completed some T cell selection)

Added

• thymocyte EquivalentTo T cell and (part_of some thymus) and (capable of some T cell selection)

transitional stage B cell http://purl.obolibrary.org/obo/CL_0000818

Removed

• transitional stage B cell EquivalentTo B cell, CD19-positive and (has plasma membrane part some IgM immunoglobulin complex) and (has plasma membrane part some membrane-spanning 4-domains subfamily A member 1) and (has_high_plasma_membrane_amount some ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1) and (has_high_plasma_membrane_amount some signal transducer CD24) and (has_not_completed some mature B cell differentiation)

Added

• transitional stage B cell EquivalentTo B cell, CD19-positive and (has plasma membrane part some IgM immunoglobulin complex) and (has plasma membrane part some membrane-spanning 4-domains subfamily A member 1) and (capable of some mature B cell differentiation) and (has_high_plasma_membrane_amount some ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1) and (has_high_plasma_membrane_amount some signal transducer CD24)

[dosumis]

Very useful to see all changed examples together. Looks like there's plenty to discuss here, so have converted to Draft pending discussion on CL call.

[addiehl]

Please do not switch has_not_completed to capable_of. They do not mean the same thing. See oborel/obo-relations#574 for my suggestion.

[ghost]

@shawntanzk, can we update or close this PR? There has been no noted activity for > 6 months.

[shawntanzk]

I'm going to close this for now, we need to resolve the discussion in oborel/obo-relations#574 for this to move on