cell line sample

A secondary cultured cell population that represents a genetically stable and homogenous population of cultured cells that shares a common propagation history (ie has been successively passaged together in culture). 1. The term 'line' is used when a culture has undergone an intentional experimental process to establish a more uniform and stable population of cells (see 'establishing cell line'). This will require one or more passages, but may involve additional selection processes. Through such passaging and/or selection processes, the resulting 'line' attains some level of genetic stability and compositional homogeneity which is typically absent in primary cultures. Because of their relative homogeneity, 'lines' are capable of being characterized and stably propagated over a period of time. A *new* cell line can be "established" not only through the passaging/selection of a primary culture, but also through experimental modifications of existing lines (e.g. immortalization, stable genetic modifications, drug selection for a resistant subset, etc.). As defined here, 'cell line' can refer to a population of cells in active culture, applied experimentally, or stored in a quescent state for future use. 2. The definitional criteria provided here for the 'cell line' class demarcates populations that represent what researchers actually use in the practice of science - e.g. as inputs to culturing, experimentation, and sharing. The definition is such that cell lines will exhibit important attributes. For example, they will have a relatively homogenous cell type composition as they have experienced similar selective pressures due to their continuous co-propagation. In addition, these populations can also be characterized by a passage number, again owing to their common passaging history.? 3. Definitinal criteria are intended to be sufficiently clear to specify what are and what are not instances of 'cell lines' in the real world. A 'HeLa cell line' would be a subset of all HeLa cells in the world - specifically any subset that has been derived through a shared continuous lineage wherein the cells have always been passaged together and thereby evolved together through the selective pressures imposed by this common history. Accordingly, 'HeLa cell line' would not be used to refer to the collection of all HeLa cells in a given lab, or all HeLa cells in the ATCC repository, as cells in these collections will likely not all share a common culture history. Rather, 'HeLa cell line' could refer to the collection of cells I am culturing at a given moment, or that I apply in an experiment (as such collections typically meet the criteria of having a shared propagation history). As noted above, it is such collections that are typically referred to in scientific discourse and publications. 4. Notably, the term 'line' has been alternately used by other terminologies and communities to refer to cultures that have been immortalized - ie has attained the capacity for indefinite propagation in vitro. In this ontology, we refer to such cell lines as 'immortal cell lines', and use the term 'cell line' to indicate any culture that has been passaged.

http://purl.obolibrary.org/obo/OBI_0100062

true

1. The term 'line' is used when a culture has undergone an intentional experimental process to establish a more uniform and stable population of cells (see 'establishing cell line'). This will require one or more passages, but may involve additional selection processes. Through such passaging and/or selection processes, the resulting 'line' attains some level of genetic stability and compositional homogeneity which is typically absent in primary cultures. Because of their relative homogeneity, 'lines' are capable of being characterized and stably propagated over a period of time. A *new* cell line can be "established" not only through the passaging/selection of a primary culture, but also through experimental modifications of existing lines (e.g. immortalization, stable genetic modifications, drug selection for a resistant subset, etc.). As defined here, 'cell line' can refer to a population of cells in active culture, applied experimentally, or stored in a quescent state for future use. 2. The definitional criteria provided here for the 'cell line' class demarcates populations that represent what researchers actually use in the practice of science - e.g. as inputs to culturing, experimentation, and sharing. The definition is such that cell lines will exhibit important attributes. For example, they will have a relatively homogenous cell type composition as they have experienced similar selective pressures due to their continuous co-propagation. In addition, these populations can also be characterized by a passage number, again owing to their common passaging history.? 3. Definitinal criteria are intended to be sufficiently clear to specify what are and what are not instances of 'cell lines' in the real world. A 'HeLa cell line' would be a subset of all HeLa cells in the world - specifically any subset that has been derived through a shared continuous lineage wherein the cells have always been passaged together and thereby evolved together through the selective pressures imposed by this common history. Accordingly, 'HeLa cell line' would not be used to refer to the collection of all HeLa cells in a given lab, or all HeLa cells in the ATCC repository, as cells in these collections will likely not all share a common culture history. Rather, 'HeLa cell line' could refer to the collection of cells I am culturing at a given moment, or that I apply in an experiment (as such collections typically meet the criteria of having a shared propagation history). As noted above, it is such collections that are typically referred to in scientific discourse and publications. 4. Notably, the term 'line' has been alternately used by other terminologies and communities to refer to cultures that have been immortalized - ie has attained the capacity for indefinite propagation in vitro. In this ontology, we refer to such cell lines as 'immortal cell lines', and use the term 'cell line' to indicate any culture that has been passaged.

cell line sample

A secondary cultured cell population that represents a genetically stable and homogenous population of cultured cells that shares a common propagation history (ie has been successively passaged together in culture).

OBI-CLO Alignment Working Group (Spring 2013)

true

2013-08-09 MHB: Replaced with cell line class from CLO, follwoing outcome of Spring 2013 CLO alignment work. Subclass axioms were: 'has grain' some 'cell line cell' and 'has grain' only 'cell line cell' 2013-6-5 MHB: There is considerable ambiguity and inconsistent usage surrounding the term 'cell line' across biomedical communities. For exmaple, it can refer to the maximal collection of all cells in a cultured lineage (e.g. the colelction of all HeLa cells that exist), or to discrete portions of this maximal collection that are stored, exchanged, and applied experimentally (e.g. the dish of HeLa cells I am using in my experiment). A working group of representatives from OBI, CLO, and CL was assembled in spring of 2013 to harmonize modeling and terminology surrounding experimentally cultured cells across Open Biomedical Ontologies, following OBO Foundry principles of orthogonality and re-use. A consensus was reached to apply the term 'cell line' to refer not to a maximal collection of cells of a given type, but to discrete populations of cultured cells that share a common propagation history which has conferred a certain a genetic stability and compositional homogeneity to the population. This meaning reflects its most common usage in domain discourse, and will best support data annotation requirements. This view means that a 'HeLa cell line' would be a subset of all HeLa cells in the world - specifically any subset that has been derived through a shared continuous lineage wherein the cells have always been passaged together and thereby evolved together through the selective pressures imposed by this specific history. Accordingly, 'HeLa cell line' would not be used to refer to collections such as all HeLa cells in a given lab, or all HeLa cells in the ATCC repository, as all cells in these collections do not necessarily share a common culture history. Rather, it could be used to refer to the collection of cells I am culturing at a given moment, or that I apply in an experiment (as such collections typically meet the criteria of having a shared propagation history). This approach seems to accomplish several desirable goals: 1) It allows us to define the term 'cell line' for the community in a precise way that also reflects how the term is most commonly used in the literature and scientific discourse. (2) It gives a definition that provides clear criteria to help specify what are and what are not instances of 'cell lines' in the real world (3) The criteria it provides demarcate populations that represent what researchers actually use in the practice of science - ie are the inputs to culturing, experimentation, and sharing. The cells in such populations will be a relatively uniform population as they have experienced similar selective pressures due to their continuous co-propagation. And this population will also have a single passage number, again owing to their common passaging history. (4) The definition seems to be true to the meaning of the word 'line' - which is suggests a specific lineage of derivation.

obsolete_cell line

He, Tong-Chuan, et al. \"Identification of c-MYC as a target of the APC pathway.\" Science 281.5382 (1998): 1509-1512. - \"To evaluate the transcriptional effects of APC, we studied a human colorectal cancer cell line (HT29-APC) containing a zinc-inducible APC gene and a control cell line (HT29–β-Gal) containing an analogous inducible lacZ gene\". Note that common usage in the literature is often of the form \"a human colorectal cancer cell line\", as seen above. But such references to studies in \"a line\" refer to the fact that discrete populations of cells that are input into culturing or experiments, not an entire lineage of cells. It is these discrete populations that we refer to as 'cell lines'.

A split of HeLa cells in active culture, or stored in frozen aliquots. Populations of HEK 293 cells used in experiments such as those documented in "Changes in ultrastructure and endogenous ionic channels activity during culture of HEK 293 cell line". Eur J Pharmacol. 2007 Jul 12;567(1-2):10-8. PMID: 17482592.

http://purl.obolibrary.org/obo/IAO_0000120

http://purl.obolibrary.org/obo/IAO_0000228

obsolete_cell line

OBI:0100062

obsolete_cell line

PERSON:Matthew Brush

http://purl.obolibrary.org/obo/CLO_0000031

http://www.geneontology.org/formats/oboInOwl#ObsoleteClass