Pattern directory
July 20, 2021 ยท View on GitHub
This is a listing of all the patterns hosted as part of this directory
Patterns in
Cell bearer of quality
A cell that has a specific quality, such as binucleate.
| Attribute | Info |
|---|---|
| IRI | http://purl.obolibrary.org/obo/cl/cellBearerOfQuality |
| Name | cellBearerOfQuality |
| Classes | CL:0000000, PATO:0000001, |
| Variables | cell (CL:0000000), quality (PATO:0000001), |
| Contributors | 0000-0001-5208-3432, 0000-0002-6601-2165, |
| Examples | mondo |
Data preview:
| defined:class | defined:class:label | cell | cell:label | quality | quality:label |
|---|---|---|---|---|---|
| CL:0001061 | abnormal cell | CL:0000000 | cell | PATO:0000460 | abnormal |
| CL:0000225 | anucleate cell | CL:0000003 | native cell | PATO:0001405 | anucleate |
| CL:0000227 | binucleate cell | CL:0000003 | native cell | PATO:0001406 | binucleate |
| CL:0000103 | bipolar neuron | CL:0000099 | interneuron | PATO:0070006 | bipolar morphology |
| CL:4023077 | bitufted neuron | CL:0000099 | interneuron | PATO:0070012 | bitufted cell morphology |
See full table here
Cell capable of biological process
Any cell that is involved in/capable of a particular biological process, such as acid secretion.
| Attribute | Info |
|---|---|
| IRI | http://purl.obolibrary.org/obo/cl/cellCapableOfBiologicalProcess |
| Name | cellCapableOfBiologicalProcess |
| Classes | CL:0000000, GO:0008150, |
| Variables | cell (CL:0000000), biological_process (GO:0008150), |
| Contributors | |
| Examples | mondo |
Data preview:
| defined:class | defined:class:label | biological:process | biological:process:label | cell | cell:label |
|---|---|---|---|---|---|
| CL:0000236 | B cell | GO:0019724 | B cell mediated immunity | CL:0000945 | lymphocyte of B lineage |
| CL:0000492 | CD4-positive helper T cell | GO:0001816 | cytokine production | CL:0000624 | CD4-positive, alpha-beta T cell |
| CL:0000795 | CD8-positive, alpha-beta regulatory T cell | GO:0050777 | negative regulation of immune response | CL:0000625 | CD8-positive, alpha-beta T cell |
| CL:0011005 | GABAergic interneuron | GO:0061534 | gamma-aminobutyric acid secretion, neurotransmission | CL:0000099 | interneuron |
| CL:0000617 | GABAergic neuron | GO:0061534 | gamma-aminobutyric acid secretion, neurotransmission | CL:0000540 | neuron |
See full table here
Cell has plasma membrane part x
A cell type that is characterized by a plasma membrane part, such as a cilium or receptor. Note - that this is only good for cells defined by a single plasma membrane receptor.
| Attribute | Info |
|---|---|
| IRI | http://purl.obolibrary.org/obo/cl/cellHasPlasmaMembranePartX |
| Name | cellHasPlasmaMembranePartX |
| Classes | CL:0000000, CL:0000003, GO:0005886, |
| Variables | cell (CL:0000003), plasma_membrane (GO:0005886), |
| Contributors | 0000-0001-5208-3432, 0000-0002-6601-2165, |
| Examples |
Cell part of anatomical entity
A cell that is part of an anatomical entity.
| Attribute | Info |
|---|---|
| IRI | http://purl.obolibrary.org/obo/cl/cellPartOfAnatomicalEntity |
| Name | cellPartOfAnatomicalEntity |
| Classes | CL:0000000, UBERON:0001062, |
| Variables | cell (CL:0000000), anatomical_entity (UBERON:0001062), |
| Contributors | 0000-0001-5208-3432, 0000-0002-6601-2165, |
| Examples | mondo |
Data preview:
| defined:class | defined:class:label | anatomical:entity | anatomical:entity:label | cell | cell:label |
|---|---|---|---|---|---|
| CL:0009032 | B cell of appendix | UBERON:0001154 | vermiform appendix | CL:0000236 | B cell |
| CL:0009045 | B cell of medullary sinus of lymph node | UBERON:0009744 | lymph node medullary sinus | CL:0000236 | B cell |
| CL:0010007 | His-Purkinje system cell | UBERON:0004146 | His-Purkinje system | CL:0000003 | native cell |
| CL:0002680 | PP cell of intestine | UBERON:0000160 | intestine | CL:0000696 | PP cell |
| CL:0009015 | Peyer's patch follicular dendritic cell | UBERON:0001211 | Peyer's patch | CL:0000442 | follicular dendritic cell |
See full table here
Taxon specific
A cell that is restricted to a specific taxon, such as CL:0001200 'lymphocyte of B lineage, CD19-positive' are only in mammals. Note - this is not to be used for any cell that is restricted to a taxon, this is for taxon-specific subclasses of existing cell types. This should hardly ever be used.
| Attribute | Info |
|---|---|
| IRI | http://purl.obolibrary.org/obo/cl/taxonSpecific |
| Name | taxonSpecific |
| Classes | CL:0000000, NCBITaxon:1, |
| Variables | cell (CL:0000000), taxon (NCBITaxon:1), |
| Contributors | 0000-0001-5208-3432, 0000-0002-6601-2165, |
| Examples |