To answer the need for a workflow representing a sequence of data transformations, a high-level process ontology was defined, denoted Pipeline Patterns (PP) ontology (see Figure 2). The PP ontology represents high-level terms, that will later on be mapped onto the terms of the PEAO ontology, and the manner in which they can relate. Every concept is generically a Data (class from EDAM), which can be further specified as an Entry (P:00002) or an Exit (P:00009). All Entries can be subjected to an Operation (class from EDAM) producing an Intermediate (P:00010). An Intermediate has a TemporalEntity associated to represent its time of creation. Some Entries are specifically of the type Exit, meaning that they will represent concepts that exit the current category and be passed to the next one on the workflow. Additionally, in order to permit the treatment of a set of objects as a single entity, this high-level ontology considers the concept of List (P:00004) and more specifically an Aggregate (P:00005), containing a set of Data or Entry, respectively. The concept Intermediate is an Entry, allowing for the successive application of an operation to an Element. This is particularly useful in the case of the application of sequential set of operations. definition contains obtainedFrom producedBy timeOfCreation Data Operation that transforms one intermediate (possibly the point of entry) into another intermediate (possibly the point of exit) Operation oboOther:BFO_0000001 entity oboOther:BFO_0000002 An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts. continuant oboOther:BFO_0000005 A continuant that is either dependent on one or other independent continuant bearers or inheres in or is borne by other entities. dependent continuant oboInOwl:ObsoleteClass owl:Thing Point of entry in recursive pipeline Entry A List of Data objects from EDAM. List 1 An aggregation of intermediate pipeline elements Aggregate Point of exit in recursive pipeline Exit 1 1 Intermediate result in recursive pipeline Intermediate To answer the need for a workflow representing a sequence of data transformations, a high-level process ontology was defined, denoted Pipeline Patterns (PP) ontology (see Figure 2). The PP ontology represents high-level terms, that will later on be mapped onto the terms of the PEAO ontology, and the manner in which they can relate. Every concept is generically a Data (class from EDAM), which can be further specified as an Entry (P:00002) or an Exit (P:00009). All Entries can be subjected to an Operation (class from EDAM) producing an Intermediate (P:00010). An Intermediate has a TemporalEntity associated to represent its time of creation. Some Entries are specifically of the type Exit, meaning that they will represent concepts that exit the current category and be passed to the next one on the workflow. Additionally, in order to permit the treatment of a set of objects as a single entity, this high-level ontology considers the concept of List (P:00004) and more specifically an Aggregate (P:00005), containing a set of Data or Entry, respectively. The concept Intermediate is an Entry, allowing for the successive application of an operation to an Element. This is particularly useful in the case of the application of sequential set of operations.