{"doi":"10.4414/smw.2022.w30192","title":"Changes in mental and sexual health among MSM using HIV pre-exposure prophylaxis during the SARS-CoV-2 pandemic: longitudinal analysis of the SwissPrEPared cohort study","abstract":"BACKGROUND: Changes in mental and sexual health among men having sex with men (MSM) due to the SARS-CoV-2 pandemic remain unclear. METHODS: Design: Longitudinal analysis of an ongoing, multicentre, pre-exposure prophylaxis (PrEP) cohort (NCT03893188) in Switzerland. Participants: HIV-negative MSM aged ≥18 who completed at least one questionnaire before and one after the start of the SARS-CoV-2 pandemic. Outcomes: Primary: mental health, defined as anxiety and depression scores assessed by the Patient Health Questionnaire-4. Secondary: sexual behaviour, well-being, PrEP use and disruption of care. Outcomes were assessed over seven periods corresponding to different SARS-CoV-2 prevention measures in Switzerland. We performed pairwise comparisons between periods (Wilcoxon signed rank test). RESULTS: Data from 1,043 participants were included. Whilst anxiety scores remained stable over time, depression scores worsened in the second wave and the second lockdown period compared to pre-pandemic scores. This was confirmed by pairwise comparisons (pre-SARS-CoV-2/second wave and pre-SARS-CoV-2/second lockdown: p <0.001). Downward trends in sexual activity,sexualized substance use, and a switch from daily to \"event-driven\" PrEP were found. Disruption of care affected 42.6% (790/1856) of daily PrEP users' follow-up visits. CONCLUSION: In this longitudinal analysis of a PrEP cohort enrolling MSM, depression scores worsened in the second wave and the second lockdown compared to the pre-pandemic period.","journal":"Swiss Medical Weekly","year":2022,"id":269680,"datarank":0.7243746963749982,"base_score":2.772588722239781,"endowment":2.772588722239781,"self_citation_contribution":0.41588830833596724,"citation_network_contribution":0.308486388039031,"self_endowment_contribution":0.41588830833596724,"citer_contribution":0.308486388039031,"corpus_percentile":72.2596116655063,"corpus_rank":3587,"citation_count":15,"citer_count":8,"citers_with_citation_signal":7,"citers_with_endowment":7,"datacite_reuse_total":0,"is_dataset":true,"is_dataset_confidence":0.5681,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2022-01-01","fair_score":12.5,"fair_percentile":28.767960868236013,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":932903,"name":"Frédérique Hovaguimian","orcid":"0000-0003-4181-2948","position":1,"is_corresponding":false},{"id":69664,"name":"Roger D. Kouyos","orcid":"0000-0002-9220-8348","position":2,"is_corresponding":false},{"id":774619,"name":"Axel J. Schmidt","orcid":"0000-0002-6910-4399","position":3,"is_corresponding":false},{"id":218065,"name":"Enos Bernasconi","orcid":"0000-0002-9724-8373","position":4,"is_corresponding":false},{"id":459810,"name":"Dominique L. Braun","orcid":"0000-0003-4036-1030","position":5,"is_corresponding":false},{"id":364611,"name":"Alexandra Calmy","orcid":"0000-0002-1137-6826","position":6,"is_corresponding":false},{"id":932904,"name":"Julia Notter","orcid":"0000-0003-4821-9995","position":7,"is_corresponding":false},{"id":844662,"name":"Marcel Stoeckle","orcid":"0000-0002-0088-5078","position":8,"is_corresponding":false},{"id":932905,"name":"Bernard Surial","orcid":"0000-0002-1402-974X","position":9,"is_corresponding":false},{"id":933366,"name":"Vanessa Christinet","orcid":null,"position":10,"is_corresponding":false},{"id":459803,"name":"Matthias Cavassini","orcid":"0000-0003-0933-7833","position":11,"is_corresponding":false},{"id":933367,"name":"Carsten Depmeier","orcid":null,"position":12,"is_corresponding":false},{"id":933368,"name":"Severin Läuchli","orcid":null,"position":13,"is_corresponding":false},{"id":933369,"name":"Emmanuelle Boffi El Amari","orcid":null,"position":14,"is_corresponding":false},{"id":933370,"name":"Matthias Reinacher","orcid":null,"position":15,"is_corresponding":false},{"id":933371,"name":"Manuela Rasi","orcid":null,"position":16,"is_corresponding":false},{"id":933372,"name":"Philip Bruggmann","orcid":null,"position":17,"is_corresponding":false},{"id":460492,"name":"David Haerry","orcid":null,"position":18,"is_corresponding":false},{"id":932906,"name":"Raphaël Bize","orcid":"0000-0001-5626-4628","position":19,"is_corresponding":false},{"id":331896,"name":"Nicola Low","orcid":"0000-0003-4817-8986","position":20,"is_corresponding":false},{"id":932907,"name":"Andreas F. Lehner","orcid":"0000-0002-1304-5684","position":21,"is_corresponding":false},{"id":932908,"name":"Boris B. Quednow","orcid":"0000-0001-7933-2865","position":22,"is_corresponding":false},{"id":459812,"name":"Jan Fehr","orcid":"0000-0003-1113-9895","position":23,"is_corresponding":false},{"id":463333,"name":"Benjamin Hampel","orcid":"0000-0002-5474-5927","position":24,"is_corresponding":false},{"id":933365,"name":"Babette L. Winter","orcid":null,"position":0,"is_corresponding":true}],"reference_count":41,"raw_metadata":null,"created_at":"2026-07-19T00:27:22.602796Z","pmid":"35758418","pmcid":null,"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":11.1111,"fair_a":50.0,"fair_i":0.0,"fair_r":33.3333,"fair_zscore":-0.8688,"fair_rationale":{"fair_score":12.5,"has_llm":true,"taxonomy_version":"fair_taxonomy_v5","dimensions":{"F":{"name":"Findable","score":11.11,"criteria":[{"key":"f_dataset_pid","label":"Persistent identifier for the data","kind":"llm","weight":2.0,"fraction":0.0,"verdict":"no","evidence":null,"grounded":false,"rationale":"The paper does not provide any persistent identifier (DOI, Handle, ARK, or repository accession) for its own dataset.","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":0.0,"verdict":"no","evidence":"Source data are thus not provided with this paper.","grounded":true,"rationale":"No repository is named as the holder of the data; the data are held by the authors/institution and not 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":"The small, highly representative and individual-level datasets analyzed during the current study and used to generate table S1 and figures S1 to S4 and the Appendix are not publicly available due to the sensitive nature of the data they contain. Source data are thus not provided with this paper. Investigators with a request for selected data should send a proposal to the SwissPrEPared e-mail address (info[at]swissprepared.ch). The provision of data will be considered by the Scientific Board of the SwissPrEPared cohort study and the relevant study team. Data provision is subject to Swiss legal and ethical regulations and will be detailed in a material and data transfer agreement.","grounded":true,"rationale":"The data-availability statement points to a person-based request route (Colavizza category 1) rather than a repository record, so it is partial. [majority verdict 'partial' (3/5 passes agreed)]","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":"Data were collected from 14 participating centres between April 10, 2019 and March 22, 2021. Overall, 1,326 participants were assessed for eligibility (figure 1). Of these, 26 participants were found to be ineligible (two tested positive for HIV, one was unable to follow the study requirements and 23 declined study participation), whilst five withdrew their consent before the first visit (one concerned by data protection, one with infrequent PrEP use, three for unknown reasons). Thus, 1,295 participants were enrolled in the SwissPrEPared study by February 28, 2020. Of these, 252 were further excluded, either due to a lack of mental health data (129 with missing questionnaire before February 28, 2020 and 75 with missing questionnaire after this date), or because they did not identify as MSM (n = 48). Thus, data from 1,043 participants were eventually included in the analysis.","grounded":false,"rationale":"The paper describes the dataset's size and derivation in running prose, but does not provide an itemised inventory (section, table, or list) of files, variables, or records. [downgraded to 'no' — no verifiable quote from the paper] [majority verdict 'no' (4/5 passes agreed)]","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":"No identifier for the dataset appears anywhere in the paper, not in the reference list nor in the body text.","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":50.0,"criteria":[{"key":"a_data_openly_accessible","label":"Access route free of preconditions","kind":"llm","weight":2.0,"fraction":0.5,"verdict":"partial","evidence":"Investigators with a request for selected data should send a proposal to the SwissPrEPared e-mail address (info[at]swissprepared.ch). The provision of data will be considered by the Scientific Board of the SwissPrEPared cohort study and the relevant study team. Data provision is subject to Swiss legal and ethical regulations and will be detailed in a material and data transfer agreement.","grounded":true,"rationale":"The paper describes a defined, followable access process with preconditions (approval, DUA), so it is a partial (not 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":0.5,"verdict":"partial","evidence":"The small, highly representative and individual-level datasets analyzed during the current study and used to generate table S1 and figures S1 to S4 and the Appendix are not publicly available due to the sensitive nature of the data they contain.","grounded":true,"rationale":"The paper states the data are 'not publicly available' but does not apply a standard access-level label such as 'restricted access' or 'open access'; it describes an access action (email proposal) instead. [majority verdict 'partial' (3/5 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":1.0,"verdict":"yes","evidence":"The provision of data will be considered by the Scientific Board of the SwissPrEPared cohort study and the relevant study team.","grounded":true,"rationale":"The paper names an institutional gatekeeper (the Scientific Board of the SwissPrEPared cohort study) for the sensitive human-subject data, fulfilling the 'yes' criterion. [majority verdict 'yes' (3/5 passes agreed)]","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":0.0,"verdict":"no","evidence":"Source data are thus not provided with this paper.","grounded":true,"rationale":"No statement about when the data become available or how long they persist; the data are not provided, so neither timing nor retention is addressed.","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":"No file format is named anywhere 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":"a_access_conditions_stated","grounded":false,"rationale":"The paper names the STROBE reporting guideline, which is a manuscript standard, not a data or metadata standard. [downgraded to 'no' — no verifiable quote from the paper] [majority verdict 'no' (3/5 passes agreed)]","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":"No identifier for an external resource (e.g., source dataset, genome build, database) is given; the paper only cites the study's own trial registration and references.","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":33.33,"criteria":[{"key":"r_reuse_license","label":"Reuse licence","kind":"llm","weight":2.0,"fraction":0.0,"verdict":"no","evidence":null,"grounded":false,"rationale":"No license is attached to the data; the CC BY-NC-SA 4.0 license applies only to the article, not the data. [majority verdict 'no' (4/5 passes agreed)]","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":1.0,"verdict":"yes","evidence":"All statistical analyses were conducted in R, version 4.1.0.","grounded":true,"rationale":"The paper names specific software (R version 4.1.0) used to produce the data, fulfilling the 'yes' criterion. [majority verdict 'yes' (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":0.5,"verdict":"partial","evidence":"Table S1 Patient Health Questionnaire-4 (PHQ-4) items","grounded":true,"rationale":"Variable definitions (PHQ-4 items) are provided inside the article as a supplementary table, but no documentation object accompanies the data. [majority verdict 'partial' (3/5 passes agreed)]","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 gives no version token or specific date identifying the snapshot of the data; the data collection period is broad, not a pinpoint version. [majority verdict 'no' (3/5 passes agreed)]","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":"All statistical analyses were conducted in R, version 4.1.0.","grounded":true,"rationale":"No code locator is given; the only mention of R is a software version, not a repository or DOI for the 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":1.0,"verdict":"yes","evidence":"grant 10001C_192814","grounded":true,"rationale":"The paper names a specific award number (Swiss National Science Foundation grant 10001C_192814) attached to a funder, fulfilling the 'yes' criterion. [majority verdict 'yes' (3/5 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":null,"why":"The paper does not provide any persistent identifier (DOI, Handle, ARK, or repository accession) for its own dataset.","gain":16.67,"priority":"essential","scored":true},{"key":"f_repository_named","dimension":"F","label":"Named repository","action":"Deposit the data in a repository registered in re3data/FAIRsharing (a domain repository such as GEO, SRA, dbGaP, PRIDE, or a generalist such as Zenodo, Dryad, Dataverse) and name it explicitly in the paper. A lab website is not an archive: it has no retention commitment and no accession. 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":"Source data are thus not provided with this paper.","why":"No repository is named as the holder of the data; the data are held by the authors/institution and not deposited.","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":"No license is attached to the data; the CC BY-NC-SA 4.0 license applies only to the article, not the data. [majority verdict 'no' (4/5 passes agreed)]","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":"Investigators with a request for selected data should send a proposal to the SwissPrEPared e-mail address (info[at]swissprepared.ch). The provision of data will be considered by the Scientific Board of the SwissPrEPared cohort study and the relevant study team. Data provision is subject to Swiss legal and ethical regulations and will be detailed in a material and data transfer agreement.","why":"The paper describes a defined, followable access process with preconditions (approval, DUA), so it is a partial (not 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":"No identifier for the dataset appears anywhere in the paper, not in the reference list nor in the body text.","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":"No file format is named anywhere 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":"All statistical analyses were conducted in R, version 4.1.0.","why":"No code locator is given; the only mention of R is a software version, not a repository or DOI for the 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 gives no version token or specific date identifying the snapshot of the data; the data collection period is broad, not a pinpoint version. [majority verdict 'no' (3/5 passes agreed)]","gain":4.17,"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":"The small, highly representative and individual-level datasets analyzed during the current study and used to generate table S1 and figures S1 to S4 and the Appendix are not publicly available due to the sensitive nature of the data they contain. Source data are thus not provided with this paper. Investigators with a request for selected data should send a proposal to the SwissPrEPared e-mail address (info[at]swissprepared.ch). The provision of data will be considered by the Scientific Board of the SwissPrEPared cohort study and the relevant study team. Data provision is subject to Swiss legal and ethical regulations and will be detailed in a material and data transfer agreement.","why":"The data-availability statement points to a person-based request route (Colavizza category 1) rather than a repository record, so it is partial. [majority verdict 'partial' (3/5 passes agreed)]","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":"Data were collected from 14 participating centres between April 10, 2019 and March 22, 2021. Overall, 1,326 participants were assessed for eligibility (figure 1). Of these, 26 participants were found to be ineligible (two tested positive for HIV, one was unable to follow the study requirements and 23 declined study participation), whilst five withdrew their consent before the first visit (one concerned by data protection, one with infrequent PrEP use, three for unknown reasons). Thus, 1,295 participants were enrolled in the SwissPrEPared study by February 28, 2020. Of these, 252 were further excluded, either due to a lack of mental health data (129 with missing questionnaire before February 28, 2020 and 75 with missing questionnaire after this date), or because they did not identify as MSM (n = 48). Thus, data from 1,043 participants were eventually included in the analysis.","why":"The paper describes the dataset's size and derivation in running prose, but does not provide an itemised inventory (section, table, or list) of files, variables, or records. [downgraded to 'no' — no verifiable quote from the paper] [majority verdict 'no' (4/5 passes agreed)]","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":"partial","current":0.5,"evidence":"The small, highly representative and individual-level datasets analyzed during the current study and used to generate table S1 and figures S1 to S4 and the Appendix are not publicly available due to the sensitive nature of the data they contain.","why":"The paper states the data are 'not publicly available' but does not apply a standard access-level label such as 'restricted access' or 'open access'; it describes an access action (email proposal) instead. [majority verdict 'partial' (3/5 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":"a_access_conditions_stated","why":"The paper names the STROBE reporting guideline, which is a manuscript standard, not a data or metadata standard. [downgraded to 'no' — no verifiable quote from the paper] [majority verdict 'no' (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":"partial","current":0.5,"evidence":"Table S1 Patient Health Questionnaire-4 (PHQ-4) items","why":"Variable definitions (PHQ-4 items) are provided inside the article as a supplementary table, but no documentation object accompanies the data. [majority verdict 'partial' (3/5 passes agreed)]","gain":0.0,"priority":"important","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":"No identifier for an external resource (e.g., source dataset, genome build, database) is given; the paper only cites the study's own trial registration and references.","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":"no","current":0.0,"evidence":"Source data are thus not provided with this paper.","why":"No statement about when the data become available or how long they persist; the data are not provided, so neither timing nor retention is addressed.","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).","Deposit the data in a repository registered in re3data/FAIRsharing (a domain repository such as GEO, SRA, dbGaP, PRIDE, or a generalist such as Zenodo, Dryad, Dataverse) and name it explicitly in the paper. A lab website is not an archive: it has no retention commitment and no accession. 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."],"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":"2026-07-20T12:05:31.484777Z","clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}