A Genome-Scale Atlas Reveals Complex Interplay of Transcription and Translation in an Archaeon is a dataset published in mSystems (2023). On theSindex it has a DataRank of 0.450, placing it in the top 41.9% of the data-sharing corpus. It has been cited 11 times, with 7 citing works in its 1-hop citation network. Its calibrated FAIR score is 58/100.
Ranks in the top 42% 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.
“Raw DNA-Seq data (FAST5 format) are available at Zenodo (accession number 6303948 [https://doi.org/10.5281/zenodo.6303948]).”
The paper provides a DOI (10.5281/zenodo.6303948) for its own data, which is a persistent identifier. [majority verdict 'yes' (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'
“SmAP1 RIP-Seq raw data (FASTQ format) and DNA-Seq data (demultiplexed, base called, and trimmed) (FASTQ format) were deposited in the NCBI Sequence Read Archive”
The paper names a recognized repository (NCBI Sequence Read Archive) as the holder of the data. [majority verdict 'yes' (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
“BioProject accession number PRJNA808788”— 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
“SmAP1 RIP-Seq raw data (FASTQ format) and DNA-Seq data (demultiplexed, base called, and trimmed) (FASTQ format) were deposited in the NCBI Sequence Read Archive and are publicly available under BioProject accession number PRJNA808788. Raw DNA-Seq data (FAST5 format) are available at Zenodo (accession number 6303948 [https://doi.org/10.5281/zenodo.6303948]). Supplemental material is available on Figshare (https://doi.org/10.6084/m9.figshare.c.6395322.v3).”— not found in the paper; verdict downgraded
The data-availability statement points to repositories with accessions or DOIs, 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
“we compiled the corresponding quantities of mRNAs (RNA-Seq), ribosome-protected mRNA fragments (RPFs) (Ribo-Seq) (43), and proteins (SWATH-MS) (Kusebauch et al., unpublished) for 2,579 genes across the early exponential (TP1), mid-exponential (TP2), late exponential (TP3), and stationary (TP4) phases of growth in batch culture”
The dataset's content and extent are described in running prose, not in an itemised inventory. [majority verdict 'partial' (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'
“SmAP1 RIP-Seq raw data (FASTQ format) and DNA-Seq data (demultiplexed, base called, and trimmed) (FASTQ format) were deposited in the NCBI Sequence Read Archive and are publicly available under BioProject accession number PRJNA808788.”— not found in the paper; verdict downgraded
The data are deposited in public repositories with no 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
“publicly available”
The paper explicitly states that the data are publicly available, using a natural-language synonym for 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 human-subject or sensitive data; 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
“are publicly available”
The paper states the data are available now but does not mention how long they persist. [majority verdict 'partial' (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'
“FASTQ format”
The paper states that the data are in FASTQ format, which is an open, community-standard format.
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 community standard for data or metadata (e.g., MIAME, MIxS) is named. [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'
“GSE45988”
The paper gives an identifier for a third-party dataset (GEO accession) that it used.
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 state a reuse licence for the data; only the article's licence is given.
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 for the dataset; the DOIs may be versioned but not stated. [majority verdict 'no' (2/5 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 code used in this study is available on GitHub in multiple repositories”— not found in the paper; verdict downgraded
A machine-resolvable locator (GitHub) is given for the study's own code. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (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)
“grants #2017/03052-2 and #2019/13440-5”
The paper lists specific grant numbers 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
“MiSeq instrument”
The paper names specific instruments and platforms used to generate the data, such as the MiSeq instrument. [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 (README, codebook) is named as travelling with 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 →
Base Score Contribution
0.373
From this paper's citation signal
Citation Network Contribution
0.0771
From 5 citing papers with measurable signal
Ranked by each citer's contribution to N(p) — log1p(Cq) divided by its reference count — out of 7 citers.
Coordenação de Aperfeiçoamento de Pessoal de Nível Superior
Grant: Finance Code 001
Fundação de Amparo à Pesquisa do Estado de São Paulo
Grant: #2017/03052-2
Fundação de Amparo à Pesquisa do Estado de São Paulo
Grant: #2019/13440-5
Fundação de Amparo à Pesquisa do Estado de São Paulo
Grant: #2011/07487-7
Fundação de Amparo à Pesquisa do Estado de São Paulo
Grant: #2013/21522-5
Fundação de Amparo à Pesquisa do Estado de São Paulo
Grant: #2009/09532-0
Fundação de Amparo à Pesquisa do Estado de São Paulo
Grant: #2015/21038-1
HHS | NIH | NIH Office of the Director
Grant: S10OD026936
HHS | NIH | National Institute of General Medical Sciences
Grant: R01GM087221
National Science Foundation
Grant: DBI-1920268
National Science Foundation
Grant: MCB-1616955
National Science Foundation
Grant: MCB-2105570
NIAID NIH HHS
Grant: R01 AI141953
FWCI
0.94
Citation Percentile
0.7%
Citation Trend
Fields of Study
MeSH Terms
Keywords
Sustainable Development Goals