Three de novo assembled wild cacao genomes from the Upper Amazon is a dataset published in Scientific Data (2024). On theSindex it has a DataRank of 0.590, placing it in the top 33.4% of the data-sharing corpus. It has been cited 18 times, with 13 citing works in its 1-hop citation network. Its calibrated FAIR score is 60/100.
Ranks in the top 33% 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.
“DOI number https://doi.org/10.6084/m9.figshare.25066010.v1”
The paper provides a DOI for the deposited dataset on Figshare, which is a persistent identifier in a registered scheme. [majority verdict 'yes' (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'
“FigShare”
The paper names Figshare as a repository where the genome assemblies and annotations are deposited; Figshare is a registered data repository. [majority verdict 'yes' (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 dataset (FigShare deposit) appears as reference entry 66 in the reference list. [downgraded to 'partial' — no verifiable quote from the paper] [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 Data Records section points to repository records with accessions and DOIs, corresponding to 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
“Data Records”
The paper has a 'Data Records' section that itemizes the deposited data (raw reads, assemblies, annotations). [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'
The data are deposited in public repositories without any stated precondition (no embargo, registration, or application required). [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
The paper describes where the data are available but does not apply an explicit access-level label (e.g., 'open access') to the data itself. [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
The data are not sensitive (plant genomes) 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
No sentence states when the data become available or how long they persist.
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 specifies that the data are in FastQ, Fasta, GFF, and TSV formats, all of which are open, non-proprietary community standards. [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
No data or metadata community standard (e.g., MIAME, MIAPPE) is named in the paper.
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'
“T. cacao RNA-seq raw reads were retrieved from GenBank (PRJNA785999, PRJNA471714)”
The paper provides accession numbers for third-party resources (GenBank accessions for RNA-seq and reference genomes), which are qualified references. [majority verdict 'yes' (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'
No licence is named for the data; the Creative Commons licence applies only to the article.
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 FigShare DOI includes a version suffix (v1), providing 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'
The paper states that no code was developed, so no code locator is provided.
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 Science Foundation (NSF) CAREER award [DBI-1933521]”
The paper provides specific award/grant numbers for the funding sources, including NSF, NIH, and USDA awards. [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
“DNA samples were sequenced on PacBio Sequel II 8 M SMRT cells”
The paper names specific instruments (PacBio Sequel II) and software versions (Hifiasm v0.15.4-r347) used to produce the data. [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
Variable- and file-level definitions are provided inside the article via Table 1 and Table 2, but no documentation object is named as travelling with the data. [downgraded to 'no' — no verifiable quote from the paper] [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
0.442
From this paper's citation signal
Citation Network Contribution
0.148
From 9 citing papers with measurable signal
Ranked by each citer's contribution to N(p) — log1p(Cq) divided by its reference count — out of 13 citers.
United States Department of Agriculture | Agricultural Research Service
Grant: 58-8042-9-089
National Science Foundation
Grant: 1933521
CAREER: Evolutionary Genomics of Enzymes for Complex Carbohydrate Metabolism
U.S. Department of Health & Human Services | NIH | National Institute of General Medical Sciences
Grant: R01GM140370
National Institutes of Health
Grant: 5R01GM140370-03
Carbohydrate enzyme gene clusters in human gut microbiome
Fields of Study
MeSH Terms
Keywords
Sustainable Development Goals