An R object that contains information on Enzyme Commission terms. These terms are organised as a direct acyclic graph (DAG), which is further stored as an object of the class 'igraph' (see http://igraph.org/r/doc/aaa-igraph-package.html). Enzyme Commission (EC) is a resource focused on enzyme nomenclature, which is a system of naming enzymes (protein catalysts) with Cross-references to UniProt sequences. It uses four-digit EC numbers to define the reaction catalysed. The first three digits are to define the reaction catalysed and the fourth for a unique identifier (serial number).
onto.EC <- dcRDataLoader(RData = "onto.EC")
an object of S4 class Onto. It has slots for "nodeInfo" and "adjMatrix"
nodeInfo: an object of S4 class InfoDataFrame, describing information on nodes/terms including: "term_id" (i.e. Term ID), "term_name" (i.e. Term Name), "term_namespace" (i.e. Term Namespace), and "term_distance" (i.e. Term Distance: the distance to the root; always 0 for the root itself)
adjMatrix: an object of S4 class AdjData, containing adjacency data matrix, with rows for parent (arrow-outbound) and columns for children (arrow-inbound)
Fleischmann et al. (2004) IntEnz, the integrated relational enzyme database. Nucleic Acids Res, 32:D434-7.
Fang H and Gough J. (2013) dcGO: database of domain-centric ontologies on functions, phenotypes, diseases and more. Nucleic Acids Res, 41(Database issue):D536-44.
onto.EC <- dcRDataLoader(RData='onto.EC')'onto.EC' (from http://dcgor.r-forge.r-project.org/data/onto.EC.RData) has been loaded into the working environmentonto.ECAn object of S4 class 'Onto' @adjMatrix: a direct matrix of 5876 terms (parents/from) X 5876 terms (children/to) @nodeInfo (InfoDataFrame) nodeNames: root 4 5 ... 220.127.116.11 18.104.22.168 (5876 total) nodeAttr: term_id term_name term_namespace term_distance