I am trying to use some scRNA-seq datasets along with Cell Ontology to find cell-type specific marker(or signature) genes. However I am facing some problems in find cell type specific features because of different hierarchy criteria.
For example, T cell has child nodes like mature T vs immature T in terms of developmental stage, and also alpha-beta T vs delta-gamma T by TCR. These cell types are actually defined by different criteria, which I should only compare cell types defined in exact same criteria, otherwise comparation in different cell types under different criteria would not find any usefull marker or signature gene because these cells may actually same but just being labeled differently. So, does Cell Ontology contains any kinds of these uniformed criteria info so that I can use to group cell types in large scale? For example, some kind of infomation like: alpha-beta T "is_a" subclass of T cell in terms of TCR[criteria ontology ID: xxxx]?
I am trying to use some scRNA-seq datasets along with Cell Ontology to find cell-type specific marker(or signature) genes. However I am facing some problems in find cell type specific features because of different hierarchy criteria. For example, T cell has child nodes like mature T vs immature T in terms of developmental stage, and also alpha-beta T vs delta-gamma T by TCR. These cell types are actually defined by different criteria, which I should only compare cell types defined in exact same criteria, otherwise comparation in different cell types under different criteria would not find any usefull marker or signature gene because these cells may actually same but just being labeled differently. So, does Cell Ontology contains any kinds of these uniformed criteria info so that I can use to group cell types in large scale? For example, some kind of infomation like: alpha-beta T "is_a" subclass of T cell in terms of TCR[criteria ontology ID: xxxx]?