The In Vivo and In Vitro Architecture of the Hepatitis C Virus RNA Genome Uncovers Functional RNA Secondary and Tertiary Structures is a dataset published in Journal of Virology (2022). On theSindex it has a DataRank of 0.802, placing it in the top 25.1% of the data-sharing corpus. It has been cited 24 times, with 19 citing works in its 1-hop citation network. Its calibrated FAIR score is 46/100.
Ranks in the top 25% for downstream scientific impact
Linked data & code
DataRank reads this dataset's downstream impact straight off the citation graph — no black box, no proprietary weighting. How is this computed?
FAIR checklist signals are shown for context only and do not affect DataRank scoring.
Full FAIR picture · advisory
The headline score is computed from the scored criteria — the fact-shaped checks (a repository, an accession, a licence) that two independent models agree on. The advisory criteria below are real FAIR guidance but rest on judgment calls that models read differently, so they inform without moving the number.
“https://github.com/pylelab/HCV_SHAPE_MaP_Structure”
The text gives a web URL for the data, not a persistent identifier scheme (DOI, Handle, ARK, URN, or repository accession).
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'
“GitHub repository”
The named holder is 'GitHub repository', which is a general file-hosting service, not a curated data repository listed in re3data or FAIRsharing.
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
“Sequence files, primer data, SHAPE-MaP outputs (.map files), structural prediction outputs (.ct files), multiple sequence alignment files, and high-resolution structural map figures are available at the GitHub repository ( https://github.com/pylelab/HCV_SHAPE_MaP_Structure ).”
The dataset's identifier (the GitHub URL) appears only in the body text of the data availability statement, not as a reference-list entry.
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'
Advisory · not in the published score
“Sequence files, primer data, SHAPE-MaP outputs (.map files), structural prediction outputs (.ct files), multiple sequence alignment files, and high-resolution structural map figures are available at the GitHub repository ( https://github.com/pylelab/HCV_SHAPE_MaP_Structure ).”
The statement points to a public repository (GitHub) with a link, which qualifies as a repository record. [majority verdict 'yes' (3/5 passes agreed)]
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
“Sequence files, primer data, SHAPE-MaP outputs (.map files), structural prediction outputs (.ct files), multiple sequence alignment files, and high-resolution structural map figures”
The data availability statement enumerates the types of files in the dataset, constituting an itemised inventory. [majority verdict 'yes' (4/5 passes agreed)]
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'
“Sequence files, primer data, SHAPE-MaP outputs (.map files), structural prediction outputs (.ct files), multiple sequence alignment files, and high-resolution structural map figures are available at the GitHub repository ( https://github.com/pylelab/HCV_SHAPE_MaP_Structure ).”
The text states the data are available at a GitHub repository with no stated precondition like embargo, registration, or application.
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'
Advisory · not in the published score
“Sequence files, primer data, SHAPE-MaP outputs (.map files), structural prediction outputs (.ct files), multiple sequence alignment files, and high-resolution structural map figures are available at the GitHub repository ( https://github.com/pylelab/HCV_SHAPE_MaP_Structure ).”
The text describes the action of accessing the data at a GitHub repository but does not apply an explicit access-level label such as 'open access' or 'publicly available'.
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
The data are not human-subject or sensitive, and no gatekeeper is mentioned.
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
The paper does not state when the data become available nor how long they persist.
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'
“.map files”— not found in the paper; verdict downgraded
The paper names .map and .ct files, which are community-standard formats for RNA structure data. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (3/5 passes agreed)]
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
Advisory · not in the published score
No data or metadata community standard (e.g., MIAME, BIDS, GO) is named in the text.
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'
“The in vitro SHAPE-MaP library was aligned to the sequence of HCV Jc1 (based on JF343782.1).”— not found in the paper; verdict downgraded
The text provides GenBank accession numbers (JF343782.1, AB114136.1) for the reference sequences used in the alignment, which are identifiers for external resources. [downgraded to 'no' — no verifiable quote from the paper] [majority verdict 'no' (3/5 passes agreed)]
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'
The paper does not mention any license or terms of use for the data; the CC-BY 4.0 license applies only to the article.
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'
No version token or date is provided to identify a specific snapshot of the data.
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'
No locator for the study's own code is given; the GitHub repository contains only data files, and no code repository or archive DOI is mentioned. [majority verdict 'no' (3/5 passes agreed)]
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)
“1R01AI131518”
The text includes specific grant numbers from the National Institutes of Health.
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
Advisory · not in the published score
“NextSeq 500/550 system (Illumina)”
The text names specific instruments and software used to produce the data, including the Illumina sequencing platform. [majority verdict 'yes' (4/5 passes agreed)]
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
No documentation object (e.g., README, codebook) is named as accompanying the data, and the article does not contain a table defining the data fields.
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
Calibrated FAIR score — a parallel quality metric, independent of the DataRank citation score. See the full evaluation →
Base Score Contribution
0.483
From this paper's citation signal
Citation Network Contribution
0.319
From 14 citing papers with measurable signal
Ranked by each citer's contribution to N(p) — log1p(Cq) divided by its reference count — out of 19 citers.
HHS | National Institutes of Health
Grant: 1R01AI131518
HHS | National Institutes of Health
Grant: F32 AI126660
NIAID NIH HHS
Grant: R01 AI131518
National Institutes of Health
Grant: 5R01AI131518-04
Hepatitis C virus genome structure: dynamic roles in replication and infectivity
National Institutes of Health
Grant: 3F32AI126660-01S1
RNA-Protein Interactions During Hepatitis C Virus Infection
China Scholarship Council (CSC)-Yale World Scholars Program in Biomedical Science
Howard Hughes Medical Institute
FWCI
2.64
Citation Percentile
0.9%
Influential Citations
1
Citation Trend
Fields of Study
MeSH Terms
Keywords
Sustainable Development Goals