From 9205ace67fc6e9de69e3ad4b01b555537de5e527 Mon Sep 17 00:00:00 2001 From: Christina Conrad <114612268+cconrad8@users.noreply.github.com> Date: Tue, 19 Nov 2024 13:29:47 -0500 Subject: [PATCH] update publication data model --- .../sage-publication/sage-publication.jsonld | 519 +++++++++--------- 1 file changed, 259 insertions(+), 260 deletions(-) diff --git a/draft-data-models/sage-publication/sage-publication.jsonld b/draft-data-models/sage-publication/sage-publication.jsonld index 341521e..056f914 100644 --- a/draft-data-models/sage-publication/sage-publication.jsonld +++ b/draft-data-models/sage-publication/sage-publication.jsonld @@ -1,260 +1,259 @@ -{ - "@context": { - "schema": "http://schema.org/", - "@vocab": "https://schema.org/", - "sms": "https://example.com/sms#", - "rdfs": "http://www.w3.org/2000/01/rdf-schema#" - }, - "@graph": [ - { - "@id": "doi", - "sms:displayName": "DOI", - "rdfs:comment": "Digital Object Identifier for the publication", - "@type": "class", - "sms:required": "True", - "rdfs:label": "DOI", - "mc2:displayName": "Publication Doi", - "mc2:included": true, - "nf:included": true, - "nf:displayName": "DOI" - }, - { - "@id": "diseaseFocus", - "sms:displayName": "Disease Focus", - "rdfs:comment": "The disease focus of the publication", - "@type": "class", - "sms:required": "True", - "rdfs:label": "Disease Focus", - "mc2:included": false, - "nf:included": true, - "nf:displayName": "Disease Focus" - }, - { - "@id": "journal", - "sms:displayName": "Journal", - "rdfs:comment": "The journal where the article was published", - "@type": "class", - "sms:required": "True", - "rdfs:label": "Journal", - "mc2:displayName": "Publication Journal", - "mc2:included": true, - "nf:included": true, - "nf:displayName": "Journal" - }, - { - "@id": "title", - "sms:displayName": "Title", - "rdfs:comment": "The title of the publication", - "@type": "class", - "sms:required": "True", - "rdfs:label": "Title", - "mc2:displayName": "Publication Title", - "mc2:included": true, - "nf:included": true, - "nf:displayName": "Title" - }, - { - "@id": "year", - "sms:displayName": "Year", - "rdfs:comment": "The publication year", - "@type": "class", - "sms:required": "True", - "rdfs:label": "Year", - "mc2:displayName": "Publication Year", - "mc2:included": true, - "nf:included": true, - "nf:displayName": "Year" - }, - { - "@id": "pmid", - "sms:displayName": "PMID", - "rdfs:comment": "PubMed ID of the publication", - "@type": "class", - "sms:required": "False", - "rdfs:label": "PMID", - "mc2:included": false, - "nf:included": true, - "nf:displayName": "PMID" - }, - { - "@id": "author", - "sms:displayName": "Author", - "rdfs:comment": "List of authors", - "@type": "class", - "sms:required": "True", - "rdfs:label": "Author", - "mc2:displayName": "Publication Author", - "mc2:included": true, - "nf:included": true, - "nf:displayName": "Author" - }, - { - "@id": "manifestation", - "sms:displayName": "Manifestation", - "rdfs:comment": "Manifestations related to the publication", - "@type": "class", - "sms:required": "False", - "rdfs:label": "Manifestation", - "mc2:included": false, - "nf:included": true, - "nf:displayName": "Manifestation" - }, - { - "@id": "fundingAgency", - "sms:displayName": "Funding Agency", - "rdfs:comment": "Funding agencies supporting the publication", - "@type": "class", - "sms:required": "False", - "rdfs:label": "Funding Agency", - "mc2:included": false, - "nf:included": true, - "nf:displayName": "Funding Agency" - }, - { - "@id": "studyId", - "sms:displayName": "Study ID", - "rdfs:comment": "Study ID associated with the publication", - "@type": "class", - "sms:required": "False", - "rdfs:label": "Study ID", - "mc2:included": false, - "nf:included": true, - "nf:displayName": "Study ID" - }, - { - "@id": "studyName", - "sms:displayName": "Study Name", - "rdfs:comment": "Study name associated with the publication", - "@type": "class", - "sms:required": "False", - "rdfs:label": "Study Name", - "mc2:included": false, - "nf:included": true, - "nf:displayName": "Study Name" - }, - { - "@id": "accessibility", - "sms:displayName": "Accessibility", - "rdfs:comment": "Whether there are non-monetary restrictions on accessing the publication.", - "@type": "class", - "sms:required": "True", - "rdfs:label": "Accessibility", - "mc2:displayName": "Publication Accessibility", - "mc2:included": true, - "nf:included": true, - "nf:displayName": "Accessibility" - }, - { - "@id": "assay", - "sms:displayName": "Assay", - "rdfs:comment": "Assay(s) associated with the publication. Multiple values permitted, comma separated.", - "@type": "class", - "sms:required": "True", - "rdfs:label": "Assay", - "mc2:displayName": "Publication Assay", - "mc2:included": true, - "nf:included": true, - "nf:displayName": "Assay" - }, - { - "@id": "keywords", - "sms:displayName": "Keywords", - "rdfs:comment": "Keywords associated with the publication. Multiple values permitted, comma separated.", - "@type": "class", - "sms:required": "False", - "rdfs:label": "Keywords", - "mc2:displayName": "Publication Keywords", - "mc2:included": true, - "nf:included": true, - "nf:displayName": "Keywords" - }, - { - "@id": "tumorType", - "sms:displayName": "Tumor Type", - "rdfs:comment": "Tumor type(s) associated with the publication. Multiple values permitted, comma separated.", - "@type": "class", - "sms:required": "True", - "rdfs:label": "Tumor Type", - "mc2:displayName": "Publication Tumor Type", - "mc2:included": true, - "nf:included": false - }, - { - "@id": "abstract", - "sms:displayName": "Abstract", - "rdfs:comment": "The abstract of the publication", - "@type": "class", - "sms:required": "True", - "rdfs:label": "Abstract", - "mc2:displayName": "Publication Abstract", - "mc2:included": true, - "nf:included": false - }, - { - "@id": "tissue", - "sms:displayName": "Tissue", - "rdfs:comment": "Tissue type(s) associated with the publication. Multiple values permitted, comma separated.", - "@type": "class", - "sms:required": "True", - "rdfs:label": "Tissue", - "mc2:displayName": "Publication Tissue", - "mc2:included": true, - "nf:included": false - }, - { - "@id": "view", - "sms:displayName": "View", - "rdfs:comment": "The denormalized manifest for publication submission.", - "@type": "class", - "sms:required": "False", - "rdfs:label": "View", - "mc2:displayName": "Publication View", - "mc2:included": true, - "nf:included": false - }, - { - "@id": "url", - "sms:displayName": "URL", - "rdfs:comment": "PubMed URL for the publication", - "@type": "class", - "sms:required": "True", - "rdfs:label": "URL", - "mc2:displayName": "Publication Url", - "mc2:included": true, - "nf:included": false - }, - { - "@id": "datasetAlias", - "sms:displayName": "Dataset Alias", - "rdfs:comment": "A list of the dataset aliases (e.g., GEO identifier such as GSE12345, or a DOI). Multiple values permitted, comma separated.", - "@type": "class", - "sms:required": "False", - "rdfs:label": "Dataset Alias", - "mc2:displayName": "Publication Dataset Alias", - "mc2:included": true, - "nf:included": false - }, - { - "@id": "grantNumber", - "sms:displayName": "Grant Number", - "rdfs:comment": "Relevant grant number associated with the publication's development. Multiple values permitted, comma separated.", - "@type": "class", - "sms:required": "True", - "rdfs:label": "Grant Number", - "mc2:displayName": "Publication Grant Number", - "mc2:included": true, - "nf:included": false - }, - { - "@id": "viewId", - "sms:displayName": "View_id", - "rdfs:comment": "A unique primary key that enables record updates using schematic.", - "@type": "class", - "sms:required": "True", - "rdfs:label": "View_id", - "mc2:displayName": "Publication View_id", - "mc2:included": true, - "nf:included": false - } - ] -} +{ + "@context": { + "@vocab": "https://schema.org/", + "sms": "https://example.com/sms#", + "rdfs": "http://www.w3.org/2000/01/rdf-schema#" + }, + "@graph": [ + { + "@id": "doi", + "rdfs:comment": "Digital Object Identifier for the publication", + "@type": "class", + "sms:required": "True", + "rdfs:label": "DOI", + "sms:displayName": "DOI", + "mc2:displayName": "Publication Doi", + "mc2:included": true, + "nf:included": true, + "nf:displayName": "DOI" + }, + { + "@id": "diseaseFocus", + "rdfs:comment": "The disease focus of the publication", + "@type": "class", + "sms:required": "True", + "rdfs:label": "Disease Focus", + "sms:displayName": "Disease Focus", + "mc2:included": false, + "nf:included": true, + "nf:displayName": "Disease Focus" + }, + { + "@id": "journal", + "rdfs:comment": "The journal where the article was published", + "@type": "class", + "sms:required": "True", + "rdfs:label": "Journal", + "sms:displayName": "Journal", + "mc2:displayName": "Publication Journal", + "mc2:included": true, + "nf:included": true, + "nf:displayName": "Journal" + }, + { + "@id": "title", + "rdfs:comment": "The title of the publication", + "@type": "class", + "sms:required": "True", + "rdfs:label": "Title", + "sms:displayName": "Title", + "mc2:displayName": "Publication Title", + "mc2:included": true, + "nf:included": true, + "nf:displayName": "Title" + }, + { + "@id": "year", + "rdfs:comment": "The publication year", + "@type": "class", + "sms:required": "True", + "rdfs:label": "Year", + "sms:displayName": "Year", + "mc2:displayName": "Publication Year", + "mc2:included": true, + "nf:included": true, + "nf:displayName": "Year" + }, + { + "@id": "pmid", + "rdfs:comment": "PubMed ID of the publication", + "@type": "class", + "sms:required": "False", + "rdfs:label": "PMID", + "sms:displayName": "PMID", + "mc2:included": false, + "nf:included": true, + "nf:displayName": "PMID" + }, + { + "@id": "author", + "rdfs:comment": "List of authors", + "@type": "class", + "sms:required": "True", + "rdfs:label": "Author", + "sms:displayName": "Author", + "mc2:displayName": "Publication Author", + "mc2:included": true, + "nf:included": true, + "nf:displayName": "Author" + }, + { + "@id": "manifestation", + "rdfs:comment": "Manifestations related to the publication", + "@type": "class", + "sms:required": "False", + "rdfs:label": "Manifestation", + "sms:displayName": "Manifestation", + "mc2:included": false, + "nf:included": true, + "nf:displayName": "Manifestation" + }, + { + "@id": "fundingAgency", + "rdfs:comment": "Funding agencies supporting the publication", + "@type": "class", + "sms:required": "False", + "rdfs:label": "Funding Agency", + "sms:displayName": "Funding Agency", + "mc2:included": false, + "nf:included": true, + "nf:displayName": "Funding Agency" + }, + { + "@id": "studyId", + "rdfs:comment": "Study ID associated with the publication", + "@type": "class", + "sms:required": "False", + "rdfs:label": "Study ID", + "sms:displayName": "Study ID", + "mc2:included": false, + "nf:included": true, + "nf:displayName": "Study ID" + }, + { + "@id": "studyName", + "rdfs:comment": "Study name associated with the publication", + "@type": "class", + "sms:required": "False", + "rdfs:label": "Study Name", + "sms:displayName": "Study Name", + "mc2:included": false, + "nf:included": true, + "nf:displayName": "Study Name" + }, + { + "@id": "assay", + "rdfs:comment": "Assay(s) associated with the publication. Multiple values permitted, comma separated.", + "@type": "class", + "sms:required": "True", + "rdfs:label": "Assay", + "sms:displayName": "Assay", + "mc2:displayName": "Publication Assay", + "mc2:included": true, + "nf:included": true, + "nf:displayName": "Assay" + }, + { + "@id": "accessibility", + "rdfs:comment": "Whether there are non-monetary restrictions on accessing the publication.", + "@type": "class", + "sms:required": "True", + "rdfs:label": "Accessibility", + "sms:displayName": "Accessibility", + "mc2:displayName": "Publication Accessibility", + "mc2:included": true, + "nf:included": true, + "nf:displayName": "Accessibility" + }, + { + "@id": "abstract", + "rdfs:comment": "The abstract of the publication", + "@type": "class", + "sms:required": "True", + "rdfs:label": "Abstract", + "sms:displayName": "Abstract", + "mc2:displayName": "Publication Abstract", + "mc2:included": true, + "nf:included": false + }, + { + "@id": "keywords", + "rdfs:comment": "Keywords associated with the publication. Multiple values permitted, comma separated.", + "@type": "class", + "sms:required": "False", + "rdfs:label": "Keywords", + "sms:displayName": "Keywords", + "mc2:displayName": "Publication Keywords", + "mc2:included": true, + "nf:included": true, + "nf:displayName": "Keywords" + }, + { + "@id": "tissue", + "rdfs:comment": "Tissue type(s) associated with the publication. Multiple values permitted, comma separated.", + "@type": "class", + "sms:required": "True", + "rdfs:label": "Tissue", + "sms:displayName": "Tissue", + "mc2:displayName": "Publication Tissue", + "mc2:included": true, + "nf:included": false + }, + { + "@id": "tumorType", + "rdfs:comment": "Tumor type(s) associated with the publication. Multiple values permitted, comma separated.", + "@type": "class", + "sms:required": "True", + "rdfs:label": "Tumor Type", + "sms:displayName": "Tumor Type", + "mc2:displayName": "Publication Tumor Type", + "mc2:included": true, + "nf:included": false + }, + { + "@id": "view", + "rdfs:comment": "The denormalized manifest for publication submission.", + "@type": "class", + "sms:required": "False", + "rdfs:label": "View", + "sms:displayName": "View", + "mc2:displayName": "Publication View", + "mc2:included": true, + "nf:included": false + }, + { + "@id": "url", + "rdfs:comment": "PubMed URL for the publication", + "@type": "class", + "sms:required": "True", + "rdfs:label": "URL", + "sms:displayName": "URL", + "mc2:displayName": "Publication Url", + "mc2:included": true, + "nf:included": false + }, + { + "@id": "datasetAlias", + "rdfs:comment": "A list of the dataset aliases (e.g., GEO identifier such as GSE12345, or a DOI). Multiple values permitted, comma separated.", + "@type": "class", + "sms:required": "False", + "rdfs:label": "Dataset Alias", + "sms:displayName": "Dataset Alias", + "mc2:displayName": "Publication Dataset Alias", + "mc2:included": true, + "nf:included": false + }, + { + "@id": "viewId", + "rdfs:comment": "A unique primary key that enables record updates using schematic.", + "@type": "class", + "sms:required": "True", + "rdfs:label": "View_id", + "sms:displayName": "View_id", + "mc2:displayName": "Publication View_id", + "mc2:included": true, + "nf:included": false + }, + { + "@id": "grantNumber", + "rdfs:comment": "Relevant grant number associated with the publication's development. Multiple values permitted, comma separated.", + "@type": "class", + "sms:required": "True", + "rdfs:label": "Grant Number", + "sms:displayName": "Grant Number", + "mc2:displayName": "Publication Grant Number", + "mc2:included": true, + "nf:included": false + } + ] +}