CL and Intracellular Markers - Revision history

Phismith at 15:47, 5 June 2013

2013-06-05T15:47:22Z

← Older revision		Revision as of 15:47, 5 June 2013
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	[Term]		'''[Term]

	id: CL:0000545		id: CL:0000545

	name: T-helper 1 cell		name: T-helper 1 cell'''

	namespace: cell		namespace: cell
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	intersection_of: RO:0002215 GO:0032609 ! capable_of interferon-gamma production		intersection_of: RO:0002215 GO:0032609 ! capable_of interferon-gamma production

	[Term]
			'''[Term]

	id: CL:0000546		id: CL:0000546

	name: T-helper 2 cell		name: T-helper 2 cell'''

	namespace: cell		namespace: cell
Line 82:		Line 83:
	relationship: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell		relationship: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell

	[Term]
			'''[Term]

	id: CL:0000902		id: CL:0000902

	name: induced T-regulatory cell		name: induced T-regulatory cell
			'''
	namespace: cell		namespace: cell

Phismith at 15:46, 5 June 2013

2013-06-05T15:46:29Z

← Older revision		Revision as of 15:46, 5 June 2013
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	There are some references to intracellular proteins, mostly transcription factors, in the CL. These are expressed in a stable manner in particular cell types and generally have been identified as master gene switches that are crucial for differentiation into and maintenance of particular cell types.		There are some references to intracellular proteins, mostly transcription factors, in the CL. These are expressed in a stable manner in particular cell types and generally have been identified as master gene switches that are crucial for differentiation into and maintenance of particular cell types.

	~~For instance~~ (from the OBO translation of cl.owl):		Three examples (from the OBO translation of cl.owl) are given below. These are not the only examples, but there aren't that many more. Certainly there is more information known about particular intracellular proteins that are expressed in a cell type specific manner than we are currently capturing in the CL.


	[Term]		[Term]

	id: CL:0000545		id: CL:0000545

	name: T-helper 1 cell		name: T-helper 1 cell

	namespace: cell		namespace: cell

	def: "A CD4-positive, alpha-beta T cell that has the phenotype T-bet-positive and produces interferon-gamma." [GO_REF:0000031, GOC:add, GOC:pam, GOC:tfm, PMID:19375293, PMID:20303875]		def: "A CD4-positive, alpha-beta T cell that has the phenotype T-bet-positive and produces interferon-gamma." [GO_REF:0000031, GOC:add, GOC:pam, GOC:tfm, PMID:19375293, PMID:20303875]

	synonym: "helper T cell type 1" EXACT []		synonym: "helper T cell type 1" EXACT []

	synonym: "T helper cells type 1" EXACT [PMID:9419219]		synonym: "T helper cells type 1" EXACT [PMID:9419219]

	synonym: "T(H)-1 cell" EXACT []		synonym: "T(H)-1 cell" EXACT []

	synonym: "Th1 cell" EXACT []		synonym: "Th1 cell" EXACT []

	synonym: "Th1 T cell" EXACT []		synonym: "Th1 T cell" EXACT []

	synonym: "Th1 T lymphocyte" EXACT []		synonym: "Th1 T lymphocyte" EXACT []

	synonym: "Th1 T-cell" EXACT []		synonym: "Th1 T-cell" EXACT []

	synonym: "Th1 T-lymphocyte" EXACT []		synonym: "Th1 T-lymphocyte" EXACT []

	xref: BTO:0001678		xref: BTO:0001678

	xref: FMA:84382		xref: FMA:84382

	is_a: CL:0000492 {is_inferred="true"} ! CD4-positive helper T cell		is_a: CL:0000492 {is_inferred="true"} ! CD4-positive helper T cell

	intersection_of: CL:0000492 ! CD4-positive helper T cell		intersection_of: CL:0000492 ! CD4-positive helper T cell

	intersection_of: has_part PR:000001835 ! T-box transcription factor TBX21		intersection_of: has_part PR:000001835 ! T-box transcription factor TBX21

	intersection_of: RO:0002215 GO:0032609 ! capable_of interferon-gamma production		intersection_of: RO:0002215 GO:0032609 ! capable_of interferon-gamma production

	[Term]		[Term]

	id: CL:0000546		id: CL:0000546

	name: T-helper 2 cell		name: T-helper 2 cell

	namespace: cell		namespace: cell

	def: "A CD4-positive, alpha-beta T cell that has the phenotype GATA-3-positive and produces interleukin-4." [GO_REF:0000031, GOC:add, GOC:pam, GOC:tfm, PMID:19375293, PMID:20103781]		def: "A CD4-positive, alpha-beta T cell that has the phenotype GATA-3-positive and produces interleukin-4." [GO_REF:0000031, GOC:add, GOC:pam, GOC:tfm, PMID:19375293, PMID:20103781]

	synonym: "helper T cell type 2" EXACT []		synonym: "helper T cell type 2" EXACT []

	synonym: "T helper cells type 2" EXACT [PMID:9419219]		synonym: "T helper cells type 2" EXACT [PMID:9419219]

	synonym: "T(H)-2 cell" EXACT []		synonym: "T(H)-2 cell" EXACT []

	synonym: "Th2 cell" EXACT []		synonym: "Th2 cell" EXACT []

	synonym: "Th2 T cell" EXACT []		synonym: "Th2 T cell" EXACT []

	synonym: "Th2 T lymphocyte" EXACT []		synonym: "Th2 T lymphocyte" EXACT []

	synonym: "Th2 T-cell" EXACT []		synonym: "Th2 T-cell" EXACT []

	synonym: "Th2 T-lymphocyte" EXACT []		synonym: "Th2 T-lymphocyte" EXACT []

	xref: BTO:0001679		xref: BTO:0001679

	xref: FMA:84385		xref: FMA:84385

	is_a: CL:0000492 {is_inferred="true"} ! CD4-positive helper T cell		is_a: CL:0000492 {is_inferred="true"} ! CD4-positive helper T cell

	intersection_of: CL:0000492 ! CD4-positive helper T cell		intersection_of: CL:0000492 ! CD4-positive helper T cell

	intersection_of: has_part PR:000001941 ! trans-acting T-cell-specific transcription factor GATA-3		intersection_of: has_part PR:000001941 ! trans-acting T-cell-specific transcription factor GATA-3

	intersection_of: RO:0002215 GO:0032633 ! capable_of interleukin-4 production		intersection_of: RO:0002215 GO:0032633 ! capable_of interleukin-4 production

	relationship: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell		relationship: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell

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	intersection_of: has_plasma_membrane_part PR:000001852 ! cytotoxic T-lymphocyte protein 4		intersection_of: has_plasma_membrane_part PR:000001852 ! cytotoxic T-lymphocyte protein 4

	These are not the only examples, but there aren't that many more. Certainly there is more information known about particular intracellular proteins that are expressed in a cell type specific manner than we are currently capturing in the CL.

Phismith at 15:45, 5 June 2013

2013-06-05T15:45:05Z

← Older revision		Revision as of 15:45, 5 June 2013
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	For instance (from the OBO translation of cl.owl):		For instance (from the OBO translation of cl.owl):
	~~<nowiki>~~
	[Term]		[Term]
	id: CL:0000545		id: CL:0000545
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	[Term]		[Term]

	id: CL:0000902		id: CL:0000902

	name: induced T-regulatory cell		name: induced T-regulatory cell

	namespace: cell		namespace: cell

	def: "CD4-positive alpha-beta T cell with the phenotype CD25-positive, CTLA-4-positive, and FoxP3-positive with regulatory function." [GO_REF:0000031, GOC:add, GOC:pam, GOC:tfm, PMID:19464985]		def: "CD4-positive alpha-beta T cell with the phenotype CD25-positive, CTLA-4-positive, and FoxP3-positive with regulatory function." [GO_REF:0000031, GOC:add, GOC:pam, GOC:tfm, PMID:19464985]

	synonym: "adaptive Treg" RELATED []		synonym: "adaptive Treg" RELATED []

	synonym: "aTreg" RELATED []		synonym: "aTreg" RELATED []

	synonym: "induced regulatory T cell" EXACT []		synonym: "induced regulatory T cell" EXACT []

	synonym: "induced regulatory T lymphocyte" EXACT []		synonym: "induced regulatory T lymphocyte" EXACT []

	synonym: "induced regulatory T-cell" EXACT []		synonym: "induced regulatory T-cell" EXACT []

	synonym: "induced regulatory T-lymphocyte" EXACT []		synonym: "induced regulatory T-lymphocyte" EXACT []

	synonym: "induced Treg" EXACT []		synonym: "induced Treg" EXACT []

	synonym: "iTreg" EXACT []		synonym: "iTreg" EXACT []

	is_a: CL:0000792 {is_inferred="true"} ! CD4-positive, CD25-positive, alpha-beta regulatory T cell		is_a: CL:0000792 {is_inferred="true"} ! CD4-positive, CD25-positive, alpha-beta regulatory T cell

	intersection_of: CL:0000792 ! CD4-positive, CD25-positive, alpha-beta regulatory T cell		intersection_of: CL:0000792 ! CD4-positive, CD25-positive, alpha-beta regulatory T cell

	intersection_of: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell		intersection_of: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell

	intersection_of: has_part PR:000001350 ! forkhead box protein P3		intersection_of: has_part PR:000001350 ! forkhead box protein P3
	intersection_of: has_plasma_membrane_part PR:000001852 ! cytotoxic T-lymphocyte protein 4~~</nowiki>~~
			intersection_of: has_plasma_membrane_part PR:000001852 ! cytotoxic T-lymphocyte protein 4

	These are not the only examples, but there aren't that many more. Certainly there is more information known about particular intracellular proteins that are expressed in a cell type specific manner than we are currently capturing in the CL.		These are not the only examples, but there aren't that many more. Certainly there is more information known about particular intracellular proteins that are expressed in a cell type specific manner than we are currently capturing in the CL.

Phismith at 15:43, 5 June 2013

2013-06-05T15:43:56Z

← Older revision		Revision as of 15:43, 5 June 2013
Line 2:		Line 2:

	For instance (from the OBO translation of cl.owl):		For instance (from the OBO translation of cl.owl):
			<nowiki>
	[Term]		[Term]
	id: CL:0000545		id: CL:0000545
Line 61:		Line 61:
	intersection_of: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell		intersection_of: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell
	intersection_of: has_part PR:000001350 ! forkhead box protein P3		intersection_of: has_part PR:000001350 ! forkhead box protein P3
	intersection_of: has_plasma_membrane_part PR:000001852 ! cytotoxic T-lymphocyte protein 4		intersection_of: has_plasma_membrane_part PR:000001852 ! cytotoxic T-lymphocyte protein 4</nowiki>

	These are not the only examples, but there aren't that many more. Certainly there is more information known about particular intracellular proteins that are expressed in a cell type specific manner than we are currently capturing in the CL.		These are not the only examples, but there aren't that many more. Certainly there is more information known about particular intracellular proteins that are expressed in a cell type specific manner than we are currently capturing in the CL.

Phismith: Created page with 'There are some references to intracellular proteins, mostly transcription factors, in the CL. These are expressed in a stable manner in particular cell types and generally have ...'

2013-06-05T15:42:10Z

Created page with 'There are some references to intracellular proteins, mostly transcription factors, in the CL. These are expressed in a stable manner in particular cell types and generally have ...'

New page

There are some references to intracellular proteins, mostly transcription factors, in the CL. These are expressed in a stable manner in particular cell types and generally have been identified as master gene switches that are crucial for differentiation into and maintenance of particular cell types.

For instance (from the OBO translation of cl.owl):

[Term]
id: CL:0000545
name: T-helper 1 cell
namespace: cell
def: "A CD4-positive, alpha-beta T cell that has the phenotype T-bet-positive and produces interferon-gamma." [GO_REF:0000031, GOC:add, GOC:pam, GOC:tfm, PMID:19375293, PMID:20303875]
synonym: "helper T cell type 1" EXACT []
synonym: "T helper cells type 1" EXACT [PMID:9419219]
synonym: "T(H)-1 cell" EXACT []
synonym: "Th1 cell" EXACT []
synonym: "Th1 T cell" EXACT []
synonym: "Th1 T lymphocyte" EXACT []
synonym: "Th1 T-cell" EXACT []
synonym: "Th1 T-lymphocyte" EXACT []
xref: BTO:0001678
xref: FMA:84382
is_a: CL:0000492 {is_inferred="true"} ! CD4-positive helper T cell
intersection_of: CL:0000492 ! CD4-positive helper T cell
intersection_of: has_part PR:000001835 ! T-box transcription factor TBX21
intersection_of: RO:0002215 GO:0032609 ! capable_of interferon-gamma production

[Term]
id: CL:0000546
name: T-helper 2 cell
namespace: cell
def: "A CD4-positive, alpha-beta T cell that has the phenotype GATA-3-positive and produces interleukin-4." [GO_REF:0000031, GOC:add, GOC:pam, GOC:tfm, PMID:19375293, PMID:20103781]
synonym: "helper T cell type 2" EXACT []
synonym: "T helper cells type 2" EXACT [PMID:9419219]
synonym: "T(H)-2 cell" EXACT []
synonym: "Th2 cell" EXACT []
synonym: "Th2 T cell" EXACT []
synonym: "Th2 T lymphocyte" EXACT []
synonym: "Th2 T-cell" EXACT []
synonym: "Th2 T-lymphocyte" EXACT []
xref: BTO:0001679
xref: FMA:84385
is_a: CL:0000492 {is_inferred="true"} ! CD4-positive helper T cell
intersection_of: CL:0000492 ! CD4-positive helper T cell
intersection_of: has_part PR:000001941 ! trans-acting T-cell-specific transcription factor GATA-3
intersection_of: RO:0002215 GO:0032633 ! capable_of interleukin-4 production
relationship: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell

[Term]
id: CL:0000902
name: induced T-regulatory cell
namespace: cell
def: "CD4-positive alpha-beta T cell with the phenotype CD25-positive, CTLA-4-positive, and FoxP3-positive with regulatory function." [GO_REF:0000031, GOC:add, GOC:pam, GOC:tfm, PMID:19464985]
synonym: "adaptive Treg" RELATED []
synonym: "aTreg" RELATED []
synonym: "induced regulatory T cell" EXACT []
synonym: "induced regulatory T lymphocyte" EXACT []
synonym: "induced regulatory T-cell" EXACT []
synonym: "induced regulatory T-lymphocyte" EXACT []
synonym: "induced Treg" EXACT []
synonym: "iTreg" EXACT []
is_a: CL:0000792 {is_inferred="true"} ! CD4-positive, CD25-positive, alpha-beta regulatory T cell
intersection_of: CL:0000792 ! CD4-positive, CD25-positive, alpha-beta regulatory T cell
intersection_of: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell
intersection_of: has_part PR:000001350 ! forkhead box protein P3
intersection_of: has_plasma_membrane_part PR:000001852 ! cytotoxic T-lymphocyte protein 4

These are not the only examples, but there aren't that many more. Certainly there is more information known about particular intracellular proteins that are expressed in a cell type specific manner than we are currently capturing in the CL.