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"Protein", "category_name": "molecule" }, { "category_value": "NCBI PubMed Linkout", "category_name": "tag" }, { "category_value": "Reviewed", "category_name": "status" }, { "category_value": "csv", "category_name": "file_type" }, { "category_value": "internal", "category_name": "scope" }, { "category_name": "species", "category_value": "Sus scrofa" }, { "category_name": "species", "category_value": "Rattus" }, { "category_name": "species", "category_value": "Homo sapiens" }, { "category_name": "species", "category_value": "Mus musculus" }, { "category_name": "species", "category_value": "Saccharomyces cerevisiae s288c" }, { "category_name": "species", "category_value": "Drosophila melanogaster" }, { "category_name": "species", "category_value": "Rattus norvegicus" }, { "category_name": "species", "category_value": "Severe acute respiratory syndrome coronavirus 2" }, { "category_name": "species", "category_value": "Dictyostelium discoideum" }, { "category_name": "species", "category_value": "Hepatitis C virus (isolate H77)" }, { "category_name": "species", "category_value": "Severe acute respiratory syndrome-related coronavirus" }, { "category_name": "species", "category_value": "Gallus gallus" } ] } } ], "provenance_domain": { "contributors": [ { "contribution": [ "createdBy" ], "email": "jeetvora@gwu.edu" }, { "name": "Luke Johnson", "affiliation": "The George Washington University", "contribution": [ "createdBy" ], "email": "luke.johnson@email.gwu.edu" }, { "name": "Urnisha Bhuiyan", "affiliation": "The George Washington University", "contribution": [ "createdBy" ], "email": "sbhuiyan28@email.gwu.edu" }, { "name": "Cyrus Au-Yeung", "affiliation": "The George Washington University", "contribution": [ "createdBy" ], "email": "cyruschauyeung@gwu.edu" }, { "name": "Kate Warner", "affiliation": "The George Washington University", "contribution": [ "createdBy" ], "email": "k.warner1@gwu.edu" } ], "license": "https://creativecommons.org/licenses/by/4.0/", "created": "2022-03-28T16:49:07.908809", "modified": "2024-06-03T22:51:40.867Z", "version": "v-2.5.1", "name": "NCBI PubMed LinkOuts" }, "description_domain": { "keywords": [ "NCBI PubMed", "LinkOut", "PMID" ], "pipeline_steps": [ { "name": "make-protein-dataset.py", "step_number": 1, "input_list": [], "description": "The script loads the PubMed IDs from the input files associated with proteins and glycans in GlyGen and generates publication detail page URLs for corresponding proteins and glycans. The script also enters the other fields as defined by the NCBI Protein Linkouts to generate a csv dataset that is split into three datasets", "prerequisite": [], "output_list": [] } ] }, "execution_domain": { "external_data_endpoints": [], "environment_variables": {}, "script_driver": "manual", "software_prerequisites": [ { "version": "2.7.5", "name": "Python", "uri": { "uri": "https://www.python.org/download/releases/2.7.5/" } } ], "script": [ { "uri": { "uri": "https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/make-protein-dataset.py", "filename": "make-protein-dataset.py" } } ] }, "usability_domain": [ "This dataset contains NCBI PubMed IDs associated with all of GlyGen's proteins and glycans with their corresponding GlyGen publication detail page URLs. The dataset is formatted as per NCBI non-bib. linkouts guidelines where 10277 is the GlyGen's provider ID. The dataset is for all GlyGen's organisms and the output file is split into three files." ], "object_id": "https://biocomputeobject.org/GLY_000622/v-2.5.1", "spec_version": "1.3.0", "etag": "d6a25d689401bc85ff18b3f10e510ae8" }