{"doi":"10.1093/jncics/pkad088","title":"Large-scale meta–genome-wide association study reveals common genetic factors linked to radiation-induced acute toxicities across cancer types","abstract":"BACKGROUND: This study was designed to identify common genetic susceptibility and shared genetic variants associated with acute radiation-induced toxicity across 4 cancer types (prostate, head and neck, breast, and lung). METHODS: A genome-wide association study meta-analysis was performed using 19 cohorts totaling 12 042 patients. Acute standardized total average toxicity (STATacute) was modelled using a generalized linear regression model for additive effect of genetic variants, adjusted for demographic and clinical covariates (rSTATacute). Linkage disequilibrium score regression estimated shared single-nucleotide variation (SNV-formerly SNP)-based heritability of rSTATacute in all patients and for each cancer type. RESULTS: Shared SNV-based heritability of STATacute among all cancer types was estimated at 10% (SE = 0.02) and was higher for prostate (17%, SE = 0.07), head and neck (27%, SE = 0.09), and breast (16%, SE = 0.09) cancers. We identified 130 suggestive associated SNVs with rSTATacute (5.0 × 10‒8 < P < 1.0 × 10‒5) across 25 genomic regions. rs142667902 showed the strongest association (effect allele A; effect size ‒0.17; P = 1.7 × 10‒7), which is located near DPPA4, encoding a protein involved in pluripotency in stem cells, which are essential for repair of radiation-induced tissue injury. Gene-set enrichment analysis identified 'RNA splicing via endonucleolytic cleavage and ligation' (P = 5.1 × 10‒6, P = .079 corrected) as the top gene set associated with rSTATacute among all patients. In silico gene expression analysis showed that the genes associated with rSTATacute were statistically significantly up-regulated in skin (not sun exposed P = .004 corrected; sun exposed P = .026 corrected). CONCLUSIONS: There is shared SNV-based heritability for acute radiation-induced toxicity across and within individual cancer sites. Future meta-genome-wide association studies among large radiation therapy patient cohorts are worthwhile to identify the common causal variants for acute radiotoxicity across cancer types.","journal":"JNCI Cancer Spectrum","year":2023,"id":336633,"datarank":0.8427464935014316,"base_score":2.995732273553991,"endowment":2.995732273553991,"self_citation_contribution":0.4493598410330987,"citation_network_contribution":0.39338665246833293,"self_endowment_contribution":0.4493598410330987,"citer_contribution":0.39338665246833293,"corpus_percentile":76.11974936180088,"corpus_rank":3088,"citation_count":19,"citer_count":13,"citers_with_citation_signal":8,"citers_with_endowment":8,"datacite_reuse_total":0,"is_dataset":true,"is_dataset_confidence":0.5037,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2023-01-01","fair_score":27.0833,"fair_percentile":42.25007642922654,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":963350,"name":"Miguel E. Aguado‐Barrera","orcid":"0000-0002-7822-6726","position":1,"is_corresponding":false},{"id":1067471,"name":"L.M.H. Schack","orcid":"0000-0002-7121-5119","position":2,"is_corresponding":false},{"id":724260,"name":"Leila Dorling","orcid":"0000-0003-1214-8080","position":3,"is_corresponding":false},{"id":963360,"name":"Tim Rattay","orcid":"0000-0002-2824-4854","position":4,"is_corresponding":false},{"id":249313,"name":"Laura Fachal","orcid":"0000-0002-7256-9752","position":5,"is_corresponding":false},{"id":911835,"name":"Holly Summersgill","orcid":null,"position":6,"is_corresponding":false},{"id":963351,"name":"Laura Martínez-Calvo","orcid":"0000-0002-9048-7195","position":7,"is_corresponding":false},{"id":963353,"name":"Ceilidh Welsh","orcid":"0000-0002-7332-7392","position":8,"is_corresponding":false},{"id":261925,"name":"Tom Dudding","orcid":"0000-0003-3756-040X","position":9,"is_corresponding":false},{"id":1068048,"name":"Yasmin Odding","orcid":null,"position":10,"is_corresponding":false},{"id":1068049,"name":"Ana Varela-Pazos","orcid":null,"position":11,"is_corresponding":false},{"id":1068050,"name":"Rajesh Jena","orcid":null,"position":12,"is_corresponding":false},{"id":874085,"name":"David Thomson","orcid":"0000-0002-1146-608X","position":13,"is_corresponding":false},{"id":1068051,"name":"R.J.H.M. Steenbakkers","orcid":null,"position":14,"is_corresponding":false},{"id":55319,"name":"Joe Dennis","orcid":"0000-0003-4591-1214","position":15,"is_corresponding":false},{"id":1067472,"name":"Ramón Lobato-Busto","orcid":"0000-0001-8888-8910","position":16,"is_corresponding":false},{"id":1067473,"name":"Jan Alsner","orcid":"0000-0002-5395-3193","position":17,"is_corresponding":false},{"id":524175,"name":"Andy Ness","orcid":"0000-0003-3548-9523","position":18,"is_corresponding":false},{"id":1068052,"name":"Chris Nutting","orcid":null,"position":19,"is_corresponding":false},{"id":963356,"name":"Antonio Gómez‐Caamaño","orcid":"0000-0002-9773-4590","position":20,"is_corresponding":false},{"id":587160,"name":"Jesper Grau Eriksen","orcid":"0000-0002-1145-6033","position":21,"is_corresponding":false},{"id":670044,"name":"Steve Thomas","orcid":null,"position":22,"is_corresponding":false},{"id":1068053,"name":"Amy Bates","orcid":null,"position":23,"is_corresponding":false},{"id":911265,"name":"Adam Webb","orcid":"0000-0002-6699-0479","position":24,"is_corresponding":false},{"id":654782,"name":"Ananya Choudhury","orcid":"0000-0002-3561-6580","position":25,"is_corresponding":false},{"id":240092,"name":"Barry S. Rosenstein","orcid":"0000-0002-3149-3237","position":26,"is_corresponding":false},{"id":911261,"name":"Begoña Taboada‐Valladares","orcid":"0000-0003-1635-7955","position":27,"is_corresponding":false},{"id":911252,"name":"Carsten Herskind","orcid":"0000-0001-6554-5907","position":28,"is_corresponding":false},{"id":911245,"name":"D. Azria","orcid":"0000-0002-7533-2988","position":29,"is_corresponding":false},{"id":262582,"name":"David P. Dearnaley","orcid":"0000-0002-3954-2806","position":30,"is_corresponding":false},{"id":1067474,"name":"Dirk De Ruysscher","orcid":"0000-0001-9269-6567","position":31,"is_corresponding":false},{"id":911259,"name":"Elena Sperk","orcid":"0000-0002-8771-8124","position":32,"is_corresponding":false},{"id":654785,"name":"Emma Hall","orcid":"0000-0001-5999-5020","position":33,"is_corresponding":false},{"id":812883,"name":"Hilary Stobart","orcid":null,"position":34,"is_corresponding":false},{"id":33582,"name":"Jenny Chang‐Claude","orcid":"0000-0001-8919-1971","position":35,"is_corresponding":false},{"id":240097,"name":"Kim De Ruyck","orcid":"0000-0001-9921-644X","position":36,"is_corresponding":false},{"id":911263,"name":"Liv Veldeman","orcid":"0000-0002-0995-2687","position":37,"is_corresponding":false},{"id":1068054,"name":"Manuel Altabas","orcid":null,"position":38,"is_corresponding":false},{"id":1067475,"name":"Maria Carmen De Santis","orcid":"0000-0003-3131-3969","position":39,"is_corresponding":false},{"id":1067476,"name":"Marie‐Pierre Farcy‐Jacquet","orcid":"0009-0001-1472-2579","position":40,"is_corresponding":false},{"id":911264,"name":"Marlon R. Veldwijk","orcid":"0000-0002-6821-3489","position":41,"is_corresponding":false},{"id":858811,"name":"Matthew R. Sydes","orcid":"0000-0002-9323-1371","position":42,"is_corresponding":false},{"id":748391,"name":"Matthew Parliament","orcid":"0000-0002-5091-9344","position":43,"is_corresponding":false},{"id":240101,"name":"Nawaid Usmani","orcid":"0000-0003-1298-4636","position":44,"is_corresponding":false},{"id":963359,"name":"N.G. Burnet","orcid":"0000-0001-9692-706X","position":45,"is_corresponding":false},{"id":409716,"name":"Petra Seibold","orcid":"0000-0001-7360-6335","position":46,"is_corresponding":false},{"id":1068055,"name":"R.P. Symonds","orcid":null,"position":47,"is_corresponding":false},{"id":911249,"name":"Rebecca Elliott","orcid":"0000-0003-2280-5937","position":48,"is_corresponding":false},{"id":911247,"name":"Renée Bultijnck","orcid":"0000-0003-4122-2323","position":49,"is_corresponding":false},{"id":724259,"name":"Sara Gutiérrez‐Enríquez","orcid":"0000-0002-1711-6101","position":50,"is_corresponding":false},{"id":493942,"name":"Meritxell Mollà","orcid":"0000-0001-6215-2251","position":51,"is_corresponding":false},{"id":1067477,"name":"S. Gulliford","orcid":"0000-0002-1768-2904","position":52,"is_corresponding":false},{"id":938026,"name":"Sheryl Green","orcid":"0000-0003-0434-1788","position":53,"is_corresponding":false},{"id":911256,"name":"T. Rancati","orcid":"0000-0002-7849-603X","position":54,"is_corresponding":false},{"id":1067478,"name":"Victoria Reyes","orcid":"0009-0000-1124-5028","position":55,"is_corresponding":false},{"id":1067479,"name":"Ana M. Carballo","orcid":"0000-0001-8470-4934","position":56,"is_corresponding":false},{"id":1067480,"name":"Paula Peleteiro","orcid":"0000-0002-8900-2541","position":57,"is_corresponding":false},{"id":963358,"name":"Paloma Sosa‐Fajardo","orcid":"0000-0002-0130-321X","position":58,"is_corresponding":false},{"id":1067481,"name":"Chris Parker","orcid":"0000-0001-6512-124X","position":59,"is_corresponding":false},{"id":685424,"name":"Valérie Fonteyne","orcid":"0000-0001-6724-1595","position":60,"is_corresponding":false},{"id":911833,"name":"Kerstie Johnson","orcid":null,"position":61,"is_corresponding":false},{"id":911253,"name":"Maarten Lambrecht","orcid":"0000-0002-8746-2691","position":62,"is_corresponding":false},{"id":1067482,"name":"Ben Vanneste","orcid":"0000-0003-2334-5207","position":63,"is_corresponding":false},{"id":1068056,"name":"Riccardo Valdagni","orcid":null,"position":64,"is_corresponding":false},{"id":911251,"name":"Alexandra Giraldo","orcid":"0000-0001-7125-2190","position":65,"is_corresponding":false},{"id":911255,"name":"Mónica Ramos","orcid":"0000-0002-7654-6152","position":66,"is_corresponding":false},{"id":247568,"name":"Brenda Diergaarde","orcid":"0000-0002-3578-6547","position":67,"is_corresponding":false},{"id":251835,"name":"Geoffrey Liu","orcid":"0000-0002-2603-7296","position":68,"is_corresponding":false},{"id":2999,"name":"Suzanne M. Leal","orcid":"0000-0003-1231-8174","position":69,"is_corresponding":false},{"id":517830,"name":"Melvin L.K. Chua","orcid":"0000-0002-1648-1473","position":70,"is_corresponding":false},{"id":261927,"name":"Miranda Pring","orcid":"0000-0003-4658-5772","position":71,"is_corresponding":false},{"id":587162,"name":"Jens Overgaard","orcid":"0000-0002-0814-8179","position":72,"is_corresponding":false},{"id":1068057,"name":"Luis M Cascallar-Caneda","orcid":null,"position":73,"is_corresponding":false},{"id":1067483,"name":"Fréderic Duprez","orcid":"0000-0002-7633-1960","position":74,"is_corresponding":false},{"id":911262,"name":"Chris J. Talbot","orcid":"0000-0001-7406-8962","position":75,"is_corresponding":false},{"id":963349,"name":"Gillian C. Barnett","orcid":"0000-0002-1762-5942","position":76,"is_corresponding":false},{"id":16417,"name":"Alison M. Dunning","orcid":"0000-0001-6651-7166","position":77,"is_corresponding":false},{"id":240093,"name":"Ana Vega","orcid":"0000-0002-7416-5137","position":78,"is_corresponding":false},{"id":1067484,"name":"Christian Nicolaj Andreassen","orcid":"0000-0003-2103-005X","position":79,"is_corresponding":false},{"id":587161,"name":"Johannes A. Langendijk","orcid":"0000-0003-1083-372X","position":80,"is_corresponding":false},{"id":240084,"name":"Catharine West","orcid":"0000-0002-0839-3449","position":81,"is_corresponding":false},{"id":55376,"name":"Behrooz Z. Alizadeh","orcid":"0000-0002-1415-8007","position":82,"is_corresponding":false},{"id":536709,"name":"Sarah L. Kerns","orcid":"0000-0002-6503-0011","position":83,"is_corresponding":false},{"id":1067470,"name":"Elnaz Naderi","orcid":"0000-0003-1671-7471","position":0,"is_corresponding":true}],"reference_count":48,"raw_metadata":null,"created_at":"2026-07-19T01:10:21.947540Z","pmid":"37862240","pmcid":"PMC10653584","fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":33.3333,"fair_a":31.25,"fair_i":0.0,"fair_r":12.5,"fair_zscore":-0.2916,"fair_rationale":{"fair_score":27.08,"has_llm":true,"taxonomy_version":"fair_taxonomy_v5","dimensions":{"F":{"name":"Findable","score":33.33,"criteria":[{"key":"f_dataset_pid","label":"Persistent identifier for the data","kind":"llm","weight":2.0,"fraction":0.0,"verdict":"no","evidence":"Summary statistics for GWAS results will be available to download from the GWAS Catalog.","grounded":true,"rationale":"The paper does not provide any PID string for the dataset; it only states that summary statistics will be available from the GWAS Catalog.","anchors":["RDA-F1-01D — FAIR Data Maturity Model: 'Data is identified by a persistent identifier' (priorit","RDA-F1-02D — FAIR Data Maturity Model: 'Data is identified by a globally unique identifier'","FsF-F1-02D — F-UJI/FAIRsFAIR: 'Data is assigned a persistent identifier'"],"scored":true,"signal":null},{"key":"f_repository_named","label":"Named repository","kind":"llm","weight":2.0,"fraction":1.0,"verdict":"yes","evidence":"Summary statistics for GWAS results will be available to download from the GWAS Catalog.","grounded":true,"rationale":"The paper names the GWAS Catalog as the repository where the data will be deposited.","anchors":["RDA-F4-01M — FAIR Data Maturity Model: metadata is offered so it can be harvested and indexed (","NIH DMS Policy Element 4 (NOT-OD-21-014) — name the repository where data will be archived","NSTC Desirable Characteristics of Data Repositories (2022) — 'Long-Term Sustainability', 'Reten"],"scored":true,"signal":null},{"key":"f_data_availability_statement","label":"Data-availability statement","kind":"llm","weight":2.0,"fraction":0.5,"verdict":"partial","evidence":"Data availability This study was done using cohorts involved in the Radiogenomics Consortium. Summary statistics for GWAS results will be available to download from the GWAS Catalog.","grounded":true,"rationale":"The data availability statement points to the GWAS Catalog but without a specific identifier or link.","anchors":["Colavizza, Hrynaszkiewicz, Staden, Whitaker & McGillivray (2020), 'The citation advantage of li","Springer Nature research data policy — Data Availability Statements: standard statement templat","RDA-F3-01M — metadata clearly and explicitly includes the identifier of the data it describes"],"scored":false,"signal":null},{"key":"f_discovery_metadata","label":"Description of the dataset as an object","kind":"llm","weight":2.0,"fraction":0.0,"verdict":"no","evidence":null,"grounded":false,"rationale":"The paper contains no itemised inventory of the dataset's files, variables, or samples.","anchors":["RDA-F2-01M — 'Rich metadata is provided to allow discovery' (priority Essential)","FsF-F2-01M — F-UJI: 'Metadata includes descriptive core elements to support data findability'","FsF-R1-01MD — F-UJI: 'Metadata specifies the content of the data'"],"scored":false,"signal":null},{"key":"f_dataset_cited","label":"Dataset formally cited","kind":"llm","weight":1.0,"fraction":0.0,"verdict":"no","evidence":null,"grounded":false,"rationale":"The dataset's identifier does not appear anywhere in the paper. [majority verdict 'no' (4/5 passes agreed)]","anchors":["FORCE11 Joint Declaration of Data Citation Principles (2014) — data should be cited as a first-","RDA-F3-01M — metadata clearly and explicitly includes the identifier of the data it describes","FsF-F3-01M — F-UJI: 'Metadata includes the identifier of the data it describes'"],"scored":true,"signal":null}]},"A":{"name":"Accessible","score":31.25,"criteria":[{"key":"a_data_openly_accessible","label":"Access route free of preconditions","kind":"llm","weight":2.0,"fraction":0.5,"verdict":"partial","evidence":"Summary statistics for GWAS results will be available to download from the GWAS Catalog.","grounded":true,"rationale":"The text states future availability without a specified date or precondition, which is not a current unconditional route. [majority verdict 'partial' (3/5 passes agreed)]","anchors":["RDA-A1.1-01D — 'Data is accessible through a free access protocol'","FsF-A1-01M — F-UJI: 'Metadata contains access level and access conditions of the data'","NSTC Desirable Characteristics of Data Repositories (2022) — 'Free and Easy Access'"],"scored":true,"signal":null},{"key":"a_access_conditions_stated","label":"Access level labelled","kind":"llm","weight":1.0,"fraction":0.0,"verdict":"no","evidence":"No access-level label is applied.","grounded":false,"rationale":"The paper does not use any standard access-rights vocabulary or natural-language label for the data. [majority verdict 'no' (4/5 passes agreed)]","anchors":["FsF-A1-01M — F-UJI: 'Metadata contains access level and access conditions of the data'","RDA-A1-01M — metadata contains information to enable the user to get access to the data","COAR Controlled Vocabularies — Access Rights v1.0 (open / embargoed / restricted / metadata-onl"],"scored":false,"signal":null},{"key":"a_controlled_access_for_sensitive","label":"Gatekeeper for sensitive data","kind":"llm","weight":0.5,"fraction":0.0,"verdict":"no","evidence":null,"grounded":false,"rationale":"The data are not sensitive human-subject data, and no gatekeeper is named.","anchors":["NIH Genomic Data Sharing Policy (NOT-OD-14-124) — controlled-access via a Data Access Committee","RDA-A1.2-01D — 'Data is accessible through an access protocol that supports authentication and ","NIH DMS Policy Element 5 (NOT-OD-21-014) — Access, Distribution, or Reuse Considerations (conse"],"scored":false,"signal":null},{"key":"a_timeline_retention","label":"Availability timing & retention","kind":"llm","weight":0.5,"fraction":0.5,"verdict":"partial","evidence":"Summary statistics for GWAS results will be available to download from the GWAS Catalog.","grounded":true,"rationale":"The paper states that the data will be available in the future but does not specify how long they will persist. [majority verdict 'partial' (4/5 passes agreed)]","anchors":["NIH DMS Plan Element 4 (NOT-OD-21-014) — Data Preservation, Access, and Associated Timelines","NSTC Desirable Characteristics (2022), Organizational Infrastructure: 'Retention Policy'","RDA-A2-01M — 'Metadata is guaranteed to remain available after data is no longer available'"],"scored":false,"signal":null}]},"I":{"name":"Interoperable","score":0.0,"criteria":[{"key":"i_open_nonproprietary_format","label":"Open file format","kind":"llm","weight":1.0,"fraction":0.0,"verdict":"no","evidence":null,"grounded":false,"rationale":"The paper does not mention any file format for the released data.","anchors":["FsF-R1.3-02D — F-UJI: 'Data is available in a file format recommended by the target research co","RDA-R1.3-02D — data is expressed in a machine-understandable community standard","RDA-I1-01D — data uses a knowledge representation expressed in a standardised format"],"scored":true,"signal":null},{"key":"i_community_standard_vocabulary","label":"Community standard / vocabulary","kind":"llm","weight":1.0,"fraction":0.0,"verdict":"no","evidence":null,"grounded":false,"rationale":"The paper does not explicitly name a data or metadata community standard applied to the dataset.","anchors":["RDA-R1.3-01M — 'Metadata complies with a community standard' (priority Essential)","RDA-R1.3-01D — 'Data complies with a community standard'","RDA-I2-01M — '(Meta)data use vocabularies that follow FAIR principles'"],"scored":false,"signal":null},{"key":"i_qualified_references","label":"Identifiers for the resources the data depend on","kind":"llm","weight":0.5,"fraction":0.0,"verdict":"no","evidence":null,"grounded":false,"rationale":"The paper does not provide an identifier for any external resource that the data depend on. [majority verdict 'no' (4/5 passes agreed)]","anchors":["RDA-I3-01M — '(meta)data include references to other (meta)data'","RDA-I3-03M — 'metadata includes qualified references to other metadata'","FsF-I3-01M — F-UJI: 'Metadata includes links between the data and its related entities'"],"scored":false,"signal":null}]},"R":{"name":"Reusable","score":12.5,"criteria":[{"key":"r_reuse_license","label":"Reuse licence","kind":"llm","weight":2.0,"fraction":0.0,"verdict":"no","evidence":null,"grounded":false,"rationale":"The paper does not mention a license for the data; the article's CC-BY-NC license does not apply to the data.","anchors":["RDA-R1.1-01M — 'Metadata includes information about the licence under which the data can be reu","RDA-R1.1-02M — 'Metadata refers to a standard reuse licence'","RDA-R1.1-03M — 'Metadata refers to a machine-understandable reuse licence'"],"scored":true,"signal":null},{"key":"r_provenance_methods","label":"Provenance of the data","kind":"llm","weight":1.0,"fraction":0.5,"verdict":"partial","evidence":"SNVs were imputed on the Michigan Imputation Server using the Haplotype Reference Consortium, release 1.1 2016 reference panel or IMPUTE2 software","grounded":false,"rationale":"The paper names specific software and platforms used for genotyping and imputation. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (3/5 passes agreed)]","anchors":["RDA-R1.2-01M — 'Metadata includes provenance information according to community- specific standa","FsF-R1.2-01M — F-UJI: 'Metadata includes provenance information about data creation or generati","W3C PROV-O (W3C Recommendation, 2013) — the entity/activity/agent model of provenance"],"scored":false,"signal":null},{"key":"r_documentation_codebook","label":"Documentation / codebook","kind":"llm","weight":1.0,"fraction":0.0,"verdict":"no","evidence":null,"grounded":false,"rationale":"The paper does not mention any documentation object like a README or codebook accompanying the data.","anchors":["RDA-R1-01M — '(Meta)data are richly described with a plurality of accurate and relevant attribu","FsF-R1-01MD — F-UJI: 'Metadata specifies the content of the data'","NIH DMS Policy Element 3 (NOT-OD-21-014) — Standards (documentation and metadata to accompany t"],"scored":false,"signal":null},{"key":"r_versioning","label":"Snapshot identified","kind":"llm","weight":0.5,"fraction":0.0,"verdict":"no","evidence":null,"grounded":false,"rationale":"The paper does not provide a version token for the study's dataset.","anchors":["DataCite Metadata Schema 4.6 — the 'Version' property","RDA-R1.2-01M — provenance information (which version was used is provenance)","NSTC Desirable Characteristics of Data Repositories (2022) — 'Provenance', 'Retention Policy'"],"scored":true,"signal":null},{"key":"x_code_availability","label":"Analysis code available","kind":"llm","weight":1.0,"fraction":0.0,"verdict":"no","evidence":null,"grounded":false,"rationale":"The paper does not provide any locator for the study's own code.","anchors":["NIH DMS Policy Element 2 (NOT-OD-21-014) — 'Related Tools, Software and/or Code'","FAIR4RS Principles v1.0 (Chue Hong et al., 2022; RDA/FORCE11/ReSA) — FAIR Principles for Resear","FORCE11 Software Citation Principles (Smith, Katz & Niemeyer, 2016, PeerJ CS 2:e86)"],"scored":true,"signal":null},{"key":"x_funding_attribution","label":"Funder and award number","kind":"llm","weight":0.5,"fraction":0.5,"verdict":"partial","evidence":"REQUITE received funding from the European Union’s Seventh Framework Programme for research, technological development, and demonstration under grant agreement No. 601826.","grounded":false,"rationale":"The paper lists multiple grant numbers, including EU grant agreement No. 601826. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (4/5 passes agreed)]","anchors":["DataCite Metadata Schema 4.6 — 'FundingReference' property (funderName, funderIdentifier, award","Crossref Funder Registry — canonical funder identifiers for funding metadata","RDA-F2-01M — rich metadata provided to allow discovery (funding is part of the descriptive reco"],"scored":true,"signal":null}]}},"actions":[{"key":"f_dataset_pid","dimension":"F","label":"Persistent identifier for the data","action":"Mint or cite a persistent identifier for the dataset — a repository DOI or an accession from a registered repository — and print it in the paper. A bare URL is not persistent: it is the single most common cause of a dead data link five years after publication. For clinical / human-subjects data, deposit in dbGaP or the European Genome-phenome Archive (EGA).","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":"Summary statistics for GWAS results will be available to download from the GWAS Catalog.","why":"The paper does not provide any PID string for the dataset; it only states that summary statistics will be available from the GWAS Catalog.","gain":16.67,"priority":"essential","scored":true},{"key":"r_reuse_license","dimension":"R","label":"Reuse licence","action":"Attach a standard, machine-readable open licence to the deposit — CC0 or CC BY, which is what Horizon Europe and most funders expect — and print the licence identifier in the paper. 'Free to use' is not a licence: it grants nothing a reuser's institution can rely on.","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":null,"why":"The paper does not mention a license for the data; the article's CC-BY-NC license does not apply to the data.","gain":16.67,"priority":"essential","scored":true},{"key":"a_data_openly_accessible","dimension":"A","label":"Access route free of preconditions","action":"Remove the precondition or justify it. Release the data at publication with no embargo, no registration wall, and no approval step — NIH's zero-embargo public- access rule (NOT-OD-25-101) has already made 'available at publication' the federal baseline for the article; the data should not lag behind it. For clinical / human-subjects data, deposit in dbGaP or the European Genome-phenome Archive (EGA).","anchors":["yes","partial","no"],"verdict":"partial","current":0.5,"evidence":"Summary statistics for GWAS results will be available to download from the GWAS Catalog.","why":"The text states future availability without a specified date or precondition, which is not a current unconditional route. [majority verdict 'partial' (3/5 passes agreed)]","gain":8.33,"priority":"essential","scored":true},{"key":"f_dataset_cited","dimension":"F","label":"Dataset formally cited","action":"Cite the dataset in the reference list like a publication — creator, year, title, repository, DOI/accession — and cite it in-text where it is used. Only a reference- list entry is machine-readable to Crossref/DataCite, and only a citation lets the data earn credit. Cite the clinical / human-subjects repository accession (e.g. from dbGaP or the European Genome-phenome Archive (EGA)) in the reference list.","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":null,"why":"The dataset's identifier does not appear anywhere in the paper. [majority verdict 'no' (4/5 passes agreed)]","gain":8.33,"priority":"important","scored":true},{"key":"i_open_nonproprietary_format","dimension":"I","label":"Open file format","action":"Release the data in an open, community-standard format (CSV/TSV, JSON, HDF5, NetCDF, FASTQ, VCF, NIfTI…) instead of — or alongside — any proprietary or instrument-native format, and name the format in the paper. A dataset that needs a €2,000 licence to open is not reusable.","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":null,"why":"The paper does not mention any file format for the released data.","gain":8.33,"priority":"important","scored":true},{"key":"x_code_availability","dimension":"R","label":"Analysis code available","action":"Publish the analysis code in a public forge, archive a tagged release with a DOI (Zenodo/Software Heritage), and cite that DOI in the paper. NIH DMS Element 2 asks for the tools and code, not only the data — and 'available on request' is not a locator. Archive the analysis code in a versioned repository (GitHub + a Zenodo release DOI).","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":null,"why":"The paper does not provide any locator for the study's own code.","gain":8.33,"priority":"important","scored":true},{"key":"r_versioning","dimension":"R","label":"Snapshot identified","action":"Version the deposit and cite the exact version analysed (a version-specific DOI, or an accession with its version suffix). A reader reproducing your work against 'the current release' is reproducing it against a different dataset.","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":null,"why":"The paper does not provide a version token for the study's dataset.","gain":4.17,"priority":"useful","scored":true},{"key":"x_funding_attribution","dimension":"R","label":"Funder and award number","action":"State the funder AND the award number in the paper, and put them in the dataset's FundingReference metadata. A funder name alone cannot be linked back to the award, so the funding provenance of the data is lost the moment the paper is indexed.","anchors":["yes","partial","no"],"verdict":"partial","current":0.5,"evidence":"REQUITE received funding from the European Union’s Seventh Framework Programme for research, technological development, and demonstration under grant agreement No. 601826.","why":"The paper lists multiple grant numbers, including EU grant agreement No. 601826. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (4/5 passes agreed)]","gain":2.08,"priority":"useful","scored":true},{"key":"f_data_availability_statement","dimension":"F","label":"Data-availability statement","action":"Replace the statement with the repository template: name the repository and give the accession or DOI (Colavizza category 3). This is the only DAS class associated with a measured citation advantage; 'available on reasonable request' and 'within the article' are not.","anchors":["yes","partial","no"],"verdict":"partial","current":0.5,"evidence":"Data availability This study was done using cohorts involved in the Radiogenomics Consortium. Summary statistics for GWAS results will be available to download from the GWAS Catalog.","why":"The data availability statement points to the GWAS Catalog but without a specific identifier or link.","gain":0.0,"priority":"essential","scored":false},{"key":"f_discovery_metadata","dimension":"F","label":"Description of the dataset as an object","action":"Add a 'Data Records' section: itemise every file in the deposit and every variable or sample it holds, with counts and units. Describe the dataset as an object in its own right, not as a by-product of the findings — this is what makes it discoverable to someone who is not looking for your paper.","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":null,"why":"The paper contains no itemised inventory of the dataset's files, variables, or samples.","gain":0.0,"priority":"essential","scored":false},{"key":"a_access_conditions_stated","dimension":"A","label":"Access level labelled","action":"State the access level in words, using the standard vocabulary: 'These data are open access' / 'These data are controlled access'. A reader — and a harvester — should not have to infer the access level from the presence of a download link.","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":"No access-level label is applied.","why":"The paper does not use any standard access-rights vocabulary or natural-language label for the data. [majority verdict 'no' (4/5 passes agreed)]","gain":0.0,"priority":"important","scored":false},{"key":"i_community_standard_vocabulary","dimension":"I","label":"Community standard / vocabulary","action":"Adopt and NAME your domain's data standard — the minimum-information checklist, metadata schema, or ontology your community uses (MIAME/MINSEQE, ISA-Tab, BIDS, an OBO ontology, HL7 FHIR/OMOP) — and say which one you followed. A reporting checklist standardises your paper; it does nothing for your data. In clinical / human-subjects, describe the data with OMOP CDM, CDISC SDTM or HL7 FHIR.","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":null,"why":"The paper does not explicitly name a data or metadata community standard applied to the dataset.","gain":0.0,"priority":"important","scored":false},{"key":"r_provenance_methods","dimension":"R","label":"Provenance of the data","action":"Name the instruments, kits, and software — with versions — that produced the data, not just the verbs. 'Reads were aligned' is not provenance; 'aligned with STAR v2.7.9a to GRCh38' is, because someone else can rerun it.","anchors":["yes","partial","no"],"verdict":"partial","current":0.5,"evidence":"SNVs were imputed on the Michigan Imputation Server using the Haplotype Reference Consortium, release 1.1 2016 reference panel or IMPUTE2 software","why":"The paper names specific software and platforms used for genotyping and imputation. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (3/5 passes agreed)]","gain":0.0,"priority":"important","scored":false},{"key":"r_documentation_codebook","dimension":"R","label":"Documentation / codebook","action":"Ship a README and a data dictionary IN the deposit — every file, every variable, its units, its allowed values, its missing-value codes. It is the cheapest single thing that makes a dataset usable by someone who was not in the lab, and a table buried in the article does not travel with the data.","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":null,"why":"The paper does not mention any documentation object like a README or codebook accompanying the data.","gain":0.0,"priority":"important","scored":false},{"key":"a_controlled_access_for_sensitive","dimension":"A","label":"Gatekeeper for sensitive data","action":"Route sensitive data through an institutional gatekeeper — deposit in a controlled- access repository (dbGaP, EGA) with a Data Access Committee and a published DUA — rather than through the corresponding author's inbox. An author-gated dataset dies with the author's email address, and 'on reasonable request' has been shown repeatedly not to yield data. For sensitive/human clinical / human-subjects data, use a controlled-access repository such as dbGaP or EGA.","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":null,"why":"The data are not sensitive human-subject data, and no gatekeeper is named.","gain":0.0,"priority":"useful","scored":false},{"key":"i_qualified_references","dimension":"I","label":"Identifiers for the resources the data depend on","action":"Cite by identifier every resource the data depend on — the source datasets' accessions, the reference build (GRCh38 / GCA_000001405.28), the cohort application number, the code DOI — and register those relations on the dataset record (IsDerivedFrom, IsSupplementTo). A name is not a link: it cannot be resolved, versioned, or followed by a machine.","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":null,"why":"The paper does not provide an identifier for any external resource that the data depend on. [majority verdict 'no' (4/5 passes agreed)]","gain":0.0,"priority":"useful","scored":false},{"key":"a_timeline_retention","dimension":"A","label":"Availability timing & retention","action":"State when the data become available AND how long they will be retained — cite the repository's preservation policy. NIH DMS Element 4 asks for both; most papers give neither.","anchors":["yes","partial","no"],"verdict":"partial","current":0.5,"evidence":"Summary statistics for GWAS results will be available to download from the GWAS Catalog.","why":"The paper states that the data will be available in the future but does not specify how long they will persist. [majority verdict 'partial' (4/5 passes agreed)]","gain":0.0,"priority":"useful","scored":false}],"suggestions":["Mint or cite a persistent identifier for the dataset — a repository DOI or an accession from a registered repository — and print it in the paper. A bare URL is not persistent: it is the single most common cause of a dead data link five years after publication. For clinical / human-subjects data, deposit in dbGaP or the European Genome-phenome Archive (EGA).","Attach a standard, machine-readable open licence to the deposit — CC0 or CC BY, which is what Horizon Europe and most funders expect — and print the licence identifier in the paper. 'Free to use' is not a licence: it grants nothing a reuser's institution can rely on.","Remove the precondition or justify it. Release the data at publication with no embargo, no registration wall, and no approval step — NIH's zero-embargo public- access rule (NOT-OD-25-101) has already made 'available at publication' the federal baseline for the article; the data should not lag behind it. For clinical / human-subjects data, deposit in dbGaP or the European Genome-phenome Archive (EGA).","Cite the dataset in the reference list like a publication — creator, year, title, repository, DOI/accession — and cite it in-text where it is used. Only a reference- list entry is machine-readable to Crossref/DataCite, and only a citation lets the data earn credit. Cite the clinical / human-subjects repository accession (e.g. from dbGaP or the European Genome-phenome Archive (EGA)) in the reference list.","Release the data in an open, community-standard format (CSV/TSV, JSON, HDF5, NetCDF, FASTQ, VCF, NIfTI…) instead of — or alongside — any proprietary or instrument-native format, and name the format in the paper. A dataset that needs a €2,000 licence to open is not reusable."],"model":"deepseek/deepseek-v4-flash","agent_version":"fair_agent_v8","fulltext_source":"unpaywall_pdf"},"fair_model":"deepseek/deepseek-v4-flash","fair_agent_version":"fair_agent_v8","fair_fulltext_source":"unpaywall_pdf","fair_has_llm":true,"fair_computed_at":"2026-07-20T11:54:25.563096Z","clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}