WormPaths: Caenorhabditis elegans metabolic pathway annotation and visualization is a dataset published in Genetics (2021). On theSindex it has a DataRank of 0.823, placing it in the top 24.5% of the data-sharing corpus. It has been cited 35 times, with 23 citing works in its 1-hop citation network. Its calibrated FAIR score is 50/100.
Ranks in the top 24% 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.
“All pathway annotations from this study are available in the Supplementary Tables S1, S3–S5 and are downloadable from the WormFlux website ( http://wormflux.umassmed.edu/download.php, last accessed June 18, 2021 ).”
The only identifier given is a URL, not a persistent identifier scheme (DOI, Handle, ARK, 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'
“WormFlux website ( http://wormflux.umassmed.edu )”
The data are hosted on a project website (WormFlux), not a named data repository listed in re3data or FAIRsharing. [majority verdict 'partial' (4/5 passes agreed)]
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
“All pathway annotations from this study are available in the Supplementary Tables S1, S3–S5 and are downloadable from the WormFlux website ( http://wormflux.umassmed.edu/download.php, last accessed June 18, 2021 ).”
The dataset identifier (a URL) appears only in the body text, not in the reference list. [majority verdict 'partial' (4/5 passes agreed)]
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
“All pathway annotations from this study are available in the Supplementary Tables S1, S3–S5 and are downloadable from the WormFlux website ( http://wormflux.umassmed.edu/download.php, last accessed June 18, 2021 ). All pathway maps are available in WormFlux ( http://wormflux.umassmed.edu/WormPaths/wormpaths.php ) and can be used interactively to visualize information related to metabolites, genes, reactions, and pathways in this website.”
The statement points to a website and supplementary material, not to a repository record with an accession, so it is Colavizza category 2+3 but not a repository record. [majority verdict 'partial' (4/5 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
“In total, WormPaths contains 62 maps covering major metabolic pathways (glycolysis/gluconeogenesis, TCA cycle, etc.), amino acid metabolism, and pathways fundamental to C. elegans physiology (collagen biosynthesis, ascaroside biosynthesis, propionate degradation, etc.).”— not found in the paper; verdict downgraded
The dataset's content is described in running prose, not an itemized inventory. [downgraded to 'no' — no verifiable quote from the paper] [majority verdict 'no' (3/5 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'
“All pathway annotations from this study are available in the Supplementary Tables S1, S3–S5 and are downloadable from the WormFlux website ( http://wormflux.umassmed.edu/download.php, last accessed June 18, 2021 ).”
The paper gives a direct download link with no stated precondition, so the route is unconditional. [majority verdict 'yes' (4/5 passes agreed)]
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
“All pathway annotations from this study are available in the Supplementary Tables S1, S3–S5 and are downloadable from the WormFlux website ( http://wormflux.umassmed.edu/download.php, last accessed June 18, 2021 ).”
The paper describes the action of downloading the data but does not label the access level with a standard term like 'open access' or 'publicly available'. [majority verdict 'partial' (3/5 passes agreed)]
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 sensitive or human-subject, and the paper does not mention any gatekeeper.
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 or how long they persist; the 'last accessed' date is not a commitment.
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'
“Each pathway map can be downloaded in PNG, PDF, and SVG formats from the corresponding pathway page.”
SVG, PNG, and PDF are open, non-proprietary formats. [majority verdict 'yes' (4/5 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
“Biochemical Genetic and Genomic (BiGG) database abbreviations”
The paper names BiGG, a community-standard abbreviation system for metabolite names, as used in the data. [majority verdict 'yes' (3/5 passes agreed)]
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 recently updated version of this model includes 1314 genes, 907 metabolites, and 2230 reactions and is referred to as iCEL1314 ( Yilmaz et al. 2020 ).”
The paper cites the iCEL1314 model with a DOI, which is an identifier for a resource other than the study's own dataset. [majority verdict 'yes' (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 only licenses the article (CC BY 4.0) and does not explicitly attach a license to the data. [majority verdict 'no' (4/5 passes agreed)]
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 given for the released data; the model iCEL1314 has a version but that is not 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'
The paper does not provide a resolvable locator for the study's own code; only a website URL for the tool is given.
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)
“This work was supported by grants from the National Institutes of Health GM122502, DK115690, and DK068429 to A.J.M.W.”
Grant numbers are provided for the funding.
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
“Draft maps were drawn as SVG files in the open-source vector graphics editor Inkscape ( http://inkscape.org )”
The paper names specific tools (Inkscape, Open Babel) used to produce the data. [majority verdict 'yes' (3/5 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
“Supplementary Table S1”
The definition of the data (gene-to-pathway annotations) is provided in a supplementary table that accompanies the article, not shipped with the data on the website. [majority verdict 'partial' (3/5 passes agreed)]
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
0.538
From this paper's citation signal
Citation Network Contribution
0.286
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 23 citers.
National Institutes of Health
Grant: GM122502
National Institutes of Health
Grant: DK115690
National Institutes of Health
Grant: DK068429
NIDDK NIH HHS
Grant: R01 DK115690
NIDDK NIH HHS
Grant: R56 DK068429
NIDDK NIH HHS
Grant: R01 DK068429
NIGMS NIH HHS
Grant: R35 GM122502
National Institutes of Health
Grant: 5R35GM122502-09
Gene regulatory and metabolic network structure, function and evolution
National Institutes of Health
Grant: 2R01DK068429-06A1
Gene Regulatory Networks in Development and Physiology
National Institutes of Health
Grant: 1K23GM115690-01A1
The Role of Dysfunctional HDL in Sepsis
FWCI
1.70
Citation Percentile
0.8%
Citation Trend
Fields of Study
MeSH Terms
Keywords
Sustainable Development Goals