MiMeDB: the Human Microbial Metabolome Database is a dataset published in Nucleic Acids Research (2022). On theSindex it has a DataRank of 2.2, placing it in the top 9.5% of the data-sharing corpus. It has been cited 114 times, with 100 citing works in its 1-hop citation network. Its calibrated FAIR score is 42/100.
Ranks in the top 10% for downstream scientific impact
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.
The paper gives a URL (https://mimedb.org) for the database, but that is a web address, not a persistent identifier scheme (DOI, Handle, ARK, or repository accession). [majority verdict 'no' (3/5 passes agreed)]
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'
“MiMeDB ( https://mimedb.org )”— not found in the paper; verdict downgraded
The holder named is the database itself, a website, not a recognised data repository listed in re3data/FAIRsharing. [downgraded to 'no' — no verifiable quote from the paper] [majority verdict 'no' (3/5 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
“MiMeDB ( https://mimedb.org )”— not found in the paper; verdict downgraded
The dataset identifier (URL) appears only in the body text, not as a reference-list entry. [downgraded to 'no' — no verifiable quote from the paper] [majority verdict 'no' (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
“MiMeDB is FAIR compliant. An extensive and well-annotated data download section is also provided with most data available in standard *.csv, SDF or XML formats.”
The statement points to the database website's download section, not to a repository record with an accession.
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
“MiMeDB CONTENT AND BACKEND STRUCTURE”
The paper has a section heading that itemises the dataset's content categories (microbes, metabolites, etc.), functioning as a structural description. [majority verdict 'yes' (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'
“An extensive and well-annotated data download section is also provided with most data available in standard *.csv, SDF or XML formats.”
The text gives a route to the data (download section) with no stated precondition such as registration or embargo.
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
“An extensive and well-annotated data download section is also provided with most data available in standard *.csv, SDF or XML formats.”
The paper describes an action (download section) but does not label the access level with a standard term like 'open access'.
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
“An extensive and well-annotated data download section is also provided with most data available in standard *.csv, SDF or XML formats.”
The data are not sensitive human-subject data; no gatekeeper is named and the download section implies open access.
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
“As this is only version 1.0 of MiMeDB, all MiMeDB entries are dated with August 2022 as the last update date.”
The paper states an update date but does not commit to a retention period or permanent archival. [majority verdict 'no' (4/5 passes agreed)]
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'
“standard *.csv, SDF or XML formats”
CSV, SDF, and XML are non-proprietary, community-standard formats.
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
“all diseases or conditions in MiMeDB are mapped to established ontologies (Disease Ontology, SNOMED CT and ICD-10 [International Classification of Diseases, version 10]). Furthermore, all microbes are linked to NCBI Taxonomy entries”
The paper names multiple community standards (Disease Ontology, SNOMED CT, ICD-10, NCBI Taxonomy) that are applied to the data. [majority verdict 'yes' (4/5 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'
“all microbes are linked to NCBI Taxonomy entries and GenBank GI numbers”
The paper provides identifiers (NCBI Taxonomy, GenBank GI) for external resources used. [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'
“Creative Commons (CC) 4.0 License Suite according to the Attribution BY and Non-Commercial NC licensing conditions”
The license named is CC BY-NC, which is not an open license according to the Open Definition.
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'
“version 1.0 of MiMeDB”
The paper explicitly states a version number for the data. [majority verdict 'yes' (4/5 passes agreed)]
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 entire MiMeDB database was built upon an MVC (Model-View-Controller) framework called Ruby on Rails (version 6.0.3)”
The paper describes the technology used but provides no locator for the code.
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)
“1U19AG063744-01”
The paper includes a specific NIH award number.
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
“locally developed software packages including text-mining tools, physico-chemical parameter calculators, spectral predictors as well as chemical, gene and protein annotation tools (DataWrangler, ChemoSummarizer, BioSummarizer)”
The paper names specific software tools used to produce the data.
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
“Each MiMeDB MetaboCard contains 16 data fields. These include 11 compound-specific data fields: (i) MiMeDB Record Information; (ii) Metabolite Identification; (iii) Chemical Taxonomy; (iv) Functional Ontology; (v) Physical Properties; (vi) Spectra; (vii) Biological Properties; (viii) Human Proteins and Enzymes; (ix) Human Pathways; (x) External Links and (xi) References.”
Variable definitions are described inside the article, not in a separate documentation file shipped with the data. [majority verdict 'partial' (4/5 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
0.712
From this paper's citation signal
Citation Network Contribution
1.5
From 79 citing papers with measurable signal
Ranked by each citer's contribution to N(p) — log1p(Cq) divided by its reference count — out of 100 citers.
National Institutes of Health
Grant: 1U19AG063744-01
Alzheimer's Gut Microbiome Project
NIA NIH HHS
Grant: U19 AG063744
Canadian Institutes of Health Research
Grant: unidentified
unidentified
Canada Foundation for Innovation
Natural Sciences and Engineering Research Council of Canada
Canadian Institutes of Health Research
Genome Canada
FWCI
7.21
Citation Percentile
1.0%
Citation Trend
Fields of Study
MeSH Terms
Keywords
Sustainable Development Goals