Complete genome sequence of Rothia mucilaginosa D1, a genetically amenable strain is a dataset published in Microbiology Resource Announcements (2025). On theSindex it has a DataRank of 0, placing it in the top 100% of the data-sharing corpus. Its calibrated FAIR score is 33/100.
Ranks in the top 100% 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.
“evidence_slots_used_1”— not found in the paper; verdict downgraded
The paper provides a GenBank accession number (CP188231.1), which is a persistent identifier scheme. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (4/5 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'
“evidence_slots_used_1”— not found in the paper; verdict downgraded
The paper names GenBank and Sequence Read Archive as repositories holding the data. [downgraded to 'partial' — no verifiable quote from the paper]
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
“evidence_slots_used_1”— not found in the paper; verdict downgraded
The dataset identifier appears only in the body text (Data Availability section), not in the reference list. [downgraded to 'no' — no verifiable quote from the paper]
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
“evidence_slots_used_1”— not found in the paper; verdict downgraded
The statement points to repository records with accessions, which is Colavizza category 3. [downgraded to 'partial' — no verifiable quote from the paper]
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
“The genome of R. mucilaginosa D1 is 2,246,281 bp long with a GC content of 59.5%. It is predicted to encode a total of 1,787 coding sequences.”
The dataset's content (size, GC content, number of coding sequences) is described in running prose, not in an itemized inventory, section, or table. [majority verdict 'partial' (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'
“evidence_slots_used_1”— not found in the paper; verdict downgraded
The data are deposited in public repositories without any stated precondition. [downgraded to 'partial' — no verifiable quote from the paper]
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
“evidence_slots_used_1”— not found in the paper; verdict downgraded
The paper does not use an explicit access-level label like 'open access' for the data, but it describes the action of depositing in a public repository. [downgraded to 'no' — no verifiable quote from the paper]
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
“evidence_slots_used_1”— not found in the paper; verdict downgraded
The data are openly available, and 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
“evidence_slots_used_1”— not found in the paper; verdict downgraded
The data are stated to be deposited and available now, but no persistence commitment is given. [downgraded to 'no' — no verifiable quote from the paper]
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'
“evidence_slots_used_1”— not found in the paper; verdict downgraded
No file format is explicitly named for the released data. [majority verdict 'no' (2/5 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
“evidence_slots_used_1”— not found in the paper; verdict downgraded
No community data standard, checklist, or ontology is named for the data. [majority verdict 'no' (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'
“evidence_slots_used_1”— not found in the paper; verdict downgraded
No identifier for an external resource (e.g., database, reference genome) is given. [majority verdict 'no' (4/5 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'
“evidence_slots_used_1”— not found in the paper; verdict downgraded
No licence is explicitly stated for the data; the CC BY licence applies to the article only.
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'
“The genome sequence of R. mucilaginosa D1 has been deposited in GenBank under the accession number CP188231.1 . The raw sequencing reads are available in the Sequence Read Archive under the accession number SRR33389990 .”
The accession numbers include version suffixes (e.g., CP188231.1, SRR33389990), which pin the specific snapshot of 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'
“evidence_slots_used_1”— not found in the paper; verdict downgraded
No code location is provided; the study used standard tools and no custom code is mentioned.
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)
“The project was funded, in part, by NIH/NIDCR grants DE19452 and DE31856 and by the Louisiana State University Foundation’s William and Sarah Pelon Professorship to Z.T. Wen.”
The paper provides specific grant numbers (DE19452 and DE31856) attached to a named funder (NIH/NIDCR). [majority verdict 'yes' (4/5 passes agreed)]
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
“its genomic DNA was extracted using a ZymoBIOMICS DNA Miniprep Kit. Sequencing and de novo assembly were carried out at the SeqCenter (Pittsburgh, PA) under default parameters for all software unless otherwise specified. Briefly, the genomic DNA was fragmented to 40–50 kb using a Megaruptor 3 instrument; sequencing library was prepared using the PacBio SMRTbell Prep Kit 3.0 (PacBio.com, PN: 102-182-700); post-library binding, cleanup, and polymerase treatment were performed with the Revio reagent kit (PacBio.com, PN: 102-739-100); and sequencing was performed using the PacBio Revio platform. Raw sequencing data underwent initial processing with Lima ( https://github.com/PacificBiosciences/pbbioconda ) for deduplication, adapter trimming, and quality control; BAM files were converted to FastQ format using SamTools ( 6 ). A total of 1,082,143 PacBio HiFi reads with an average length of 9,336.5 were analyzed via Flye (v2.9.2) with parameters set as -asm-coverage 50 -genome size 6 Mbp -pacbio hifi read-error 0.02 ( 7 ). Eligible contigs were circularized using Circulator (v1.5.5) using all pipeline and internal minimus2 -based steps, followed by start position adjustment to dnaA to achieve a complete chromosome ( 8 ). The final assembly was functionally annotated using the NCBI Prokaryotic Genome Annotation Pipeline (v6.10) under default settings ( 9 ); assembly quality metrics, including contiguity and completeness, were assessed using QUAST (v5.2.0) and reported in a tsv format ( 10 ).”
The paper names specific instruments, kits, and software versions used to produce the data (e.g., Megaruptor 3, PacBio SMRTbell Prep Kit 3.0, Flye v2.9.2, etc.). [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
“evidence_slots_used_1”— not found in the paper; verdict downgraded
No separate documentation object (README, codebook) is named as accompanying the data. [majority verdict 'no' (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 →
National Institutes of Health
Grant: DE19452
National Institutes of Health
Grant: DE31856
NIDCR NIH HHS
Grant: R21 DE031856
NIDCR NIH HHS
Grant: R01 DE019452
FWCI
0.00
Citation Percentile
0.2%
Fields of Study
Keywords