The inference is based on the homology mapping from PANTHER. Briefly, reactions for which all involved PhysicalEntities (in input, output and catalyst) have a mapped orthologue/paralogue (for complexes at least 75% of components must have a mapping) are inferred to the other species. High level events are also inferred for these events to allow for easier navigation.
More details and caveats of the event inference in Reactome. For details on PANTHER see also: http://www.pantherdb.org/about.jsp" ], [ "R-DRE-109278", "NT5E:Zn2+ hydrolyses AMP,dAMP,GMP, IMP", "extracellular region, plasma membrane", "", "R-DRE-74259", "", "This event has been computationally inferred from an event that has been demonstrated in another species.
The inference is based on the homology mapping from PANTHER. Briefly, reactions for which all involved PhysicalEntities (in input, output and catalyst) have a mapped orthologue/paralogue (for complexes at least 75% of components must have a mapping) are inferred to the other species. High level events are also inferred for these events to allow for easier navigation.
More details and caveats of the event inference in Reactome. For details on PANTHER see also: http://www.pantherdb.org/about.jsp" ] ] }, "readme": "Name\n - Zebrafish Protein Reactions (Reactome)\n\nVersion\n - v-2.8.1\n\nCreated on\n - \n\nModified on\n - \n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Luke Johnson [luke.johnson@email.gwu.edu], Urnisha Bhuiyan [sbhuiyan28@email.gwu.edu], Cyrus Au-Yeung [cyruschauyeung@gwu.edu], Kate Warner [k.warner1@gwu.edu]\n\nAuthors\n - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Zebrafish Protein Reactions (Reactome) dataset contains reactions information for pathways for Danio rerio [taxid:7955] UniProtKB accessions that includes reaction participants, pathway ID, reaction ID, PMID etc from Reactome database. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen.\n\nDescription Domain\n Keywords\n - Reactome\n - Pathway\n - Reactions\n - PMID\n\n Pipeline Steps\n - Step-1: The script loads the Reactome reaction data from the triplestore containing triples from nt file to retrieve the information associated with the Reactome IDs and maps it to the UniProtKB canonical accessions and extracts the dataset in the csv format\n\nExecution Domain\n Scripts - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/make-protein-dataset.py\n\n\n Software Prerequisites\n Name: Python\n Version: 2.7.5\n URI: https://www.python.org/download/releases/2.7.5/\n\nI/O Domain\n Input Subdomain\n Name: uniprot-proteome-danio-rerio.nt\n URI: https:/data.glygen.org/ln2downloads/ebi/2025_01_17/uniprot-proteome-danio-rerio.nt\n Output Subdomain\n Name: zebrafish_protein_reactions_reactome.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.8.1/reviewed/zebrafish_protein_reactions_reactome.csv\n Name: zebrafish_protein_reactions_reactome.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.8.1/reviewed/zebrafish_protein_reactions_reactome.stat.csv\n\nFields\n Name: \"reaction_id\"\n Description: \"The identifier assigned to a reaction in Reactome database\"\n Unique Values: \"4047\"\n Name: \"reaction_name\"\n Description: \"The name assigned to a reaction in Reactome database\"\n Unique Values: \"4038\"\n Name: \"cellular_location\"\n Description: \"The loaction in the cell where reaction occurs\"\n Unique Values: \"192\"\n Name: \"pmid\"\n Description: \"NCBI PubMed database Identifier\"\n Unique Values: \"4\"\n Name: \"pathway_id\"\n Description: \"Pathway Identifier\"\n Unique Values: \"969\"\n Name: \"equation\"\n Description: \"\"\n Unique Values: \"1\"\n Name: \"reaction_summary\"\n Description: \"\"\n Unique Values: \"4\"", "downloadurl": "/ln2data/releases/data/v-2.8.1/reviewed/zebrafish_protein_reactions_reactome.csv" }