MiST 4.0: a new release of the microbial signal transduction database, now with a metagenomic component is a dataset published in Nucleic Acids Research (2023). On theSindex it has a DataRank of 1.0, placing it in the top 19.9% of the data-sharing corpus. It has been cited 59 times, with 43 citing works in its 1-hop citation network. Its calibrated FAIR score is 52/100.
Ranks in the top 20% 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.
“MiST 4.0 is freely available at https://mistdb.com”
The only identifier given for the dataset is a bare URL, not a persistent identifier scheme.
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'
“The MiST 4.0 database is freely available for noncommercial use at https://mistdb.com”
The holder named is the MiST database itself, a project website, not a curated repository from the re3data/FAIRsharing list. [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
“The MiST 4.0 database is freely available for noncommercial use at https://mistdb.com”
The dataset identifier (URL) appears only in the body text, not as a reference-list entry. [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
“The MiST 4.0 database is freely available for noncommercial use at https://mistdb.com . Users are not required to register or log in to access any of the features available in the database. GitHub repositories can be found at https://github.com/bioliners/projects ( https://doi.org/10.5281/zenodo.8364134 ) and https://github.com/ToshkaDev/mist-web ( https://doi.org/10.5281/zenodo.8364137 ). Docker images are available on Docker Hub at the following link: https://hub.docker.com/repositories/bioliners .”
The statement points to a web URL for the database, not to a repository record with an accession or DOI.
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
“There are currently 131 700 genomes (131 259 biosamples), >540 million genes and >115 million unique protein sequences in the MiST Genomes database.”— not found in the paper; verdict downgraded
The paper describes the dataset extent in running prose, not in an itemised inventory such as a data records section or table. [downgraded to 'no' — no verifiable quote from the paper] [majority verdict 'no' (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'
“The MiST 4.0 database is freely available for noncommercial use at https://mistdb.com . Users are not required to register or log in to access any of the features available in the database.”
The route carries no precondition; the database is openly accessible without registration.
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
“The MiST 4.0 database is freely available for noncommercial use at https://mistdb.com”
The paper labels the data as 'freely available', which is a natural-language equivalent of '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
The data are not sensitive (microbial genomes); no gatekeeper is named.
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 MiST 4.0 database is freely available for noncommercial use at https://mistdb.com”
The paper states the data are available now but says nothing about how long they will persist. [majority verdict 'partial' (3/5 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'
No file format for the data is named anywhere in the paper.
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, ISA-Tab, GO) is named as applying to the data. [majority verdict 'no' (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'
“a MAG of a Margulisbacteria species (accession GCA_001771585.1)”
The paper gives an accession number for a genome assembly that is not the paper's own dataset.
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 MiST 4.0 database is freely available for noncommercial use”
No named open standard licence is attached to the data; 'noncommercial use' is a condition, not a licence artefact. [majority verdict 'no' (3/5 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'
“MiST 4.0”— not found in the paper; verdict downgraded
The paper uses 'MiST 4.0' as a version token for the data. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (3/5 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'
“GitHub repositories can be found at https://github.com/bioliners/projects ( https://doi.org/10.5281/zenodo.8364134 ) and https://github.com/ToshkaDev/mist-web ( https://doi.org/10.5281/zenodo.8364137 )”
Machine-resolvable locators (GitHub URLs and DOIs) are given for the study's own 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)
“National Institutes of Health [R35GM131760 to I.B.Z.]”
The paper includes a grant number (R35GM131760) attached to a named funder.
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
“For each protein encoded in the genome of a given MAG, the MiST pipeline identifies several protein features: protein domains, low-complexity regions, transmembrane regions, coiled coils and the gene neighborhood of the corresponding gene.”
The production method is described in generic terms without naming specific software versions or instruments. [majority verdict 'partial' (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
No documentation object (README, codebook) is mentioned as accompanying the data. [majority verdict 'no' (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
0.614
From this paper's citation signal
Citation Network Contribution
0.404
From 28 citing papers with measurable signal
Ranked by each citer's contribution to N(p) — log1p(Cq) divided by its reference count — out of 43 citers.
National Institutes of Health
Grant: R35GM131760
National Institutes of Health
Grant: 5R35GM131760-05
Computational Genomics of Signal Transduction
Fields of Study
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